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commit/galaxy-central: 2 new changesets
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

2 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/39bc0ce6bb54/ Changeset: 39bc0ce6bb54 User: jmchilton Date: 2014-12-11 04:51:45+00:00 Summary: PEP-8 fixes for tool related stuff. Affected #: 1 file diff -r fc60d0eeb22b28a2e61db5c6ec672a3dc5663845 -r 39bc0ce6bb543238c1ee67fc5491e65ed16fe6f0 lib/galaxy/tools/parameters/basic.py --- a/lib/galaxy/tools/parameters/basic.py +++ b/lib/galaxy/tools/parameters/basic.py @@ -1417,12 +1417,12 @@ def recurse_option_elems( cur_options, option_elems ): for option_elem in option_elems: selected = string_as_bool( option_elem.get( 'selected', False ) ) - cur_options.append( { 'name':option_elem.get( 'name' ), 'value': option_elem.get( 'value'), 'options':[], 'selected':selected } ) + cur_options.append( { 'name': option_elem.get( 'name' ), 'value': option_elem.get( 'value' ), 'options': [], 'selected': selected } ) recurse_option_elems( cur_options[-1]['options'], option_elem.findall( 'option' ) ) ToolParameter.__init__( self, tool, elem ) self.multiple = string_as_bool( elem.get( 'multiple', False ) ) self.display = elem.get( 'display', None ) - self.hierarchy = elem.get( 'hierarchy', 'exact' ) #exact or recurse + self.hierarchy = elem.get( 'hierarchy', 'exact' ) # exact or recurse self.separator = elem.get( 'separator', ',' ) from_file = elem.get( 'from_file', None ) if from_file: @@ -1430,7 +1430,7 @@ from_file = os.path.join( tool.app.config.tool_data_path, from_file ) elem = XML( "<root>%s</root>" % open( from_file ).read() ) self.is_dynamic = False - self.dynamic_options = elem.get( 'dynamic_options' , None ) + self.dynamic_options = elem.get( 'dynamic_options', None ) if self.dynamic_options: self.is_dynamic = True self.options = [] @@ -1509,17 +1509,18 @@ return form_builder.TextArea( self.name, value=value ) else: return form_builder.TextField( self.name, value=(value or "") ) - return form_builder.DrillDownField( self.name, self.multiple, self.display, self.refresh_on_change, self.get_options( trans, value, other_values ), value, refresh_on_change_values = self.refresh_on_change_values ) + return form_builder.DrillDownField( self.name, self.multiple, self.display, self.refresh_on_change, self.get_options( trans, value, other_values ), value, refresh_on_change_values=self.refresh_on_change_values ) def from_html( self, value, trans=None, other_values={} ): if self.need_late_validation( trans, other_values ): if self.multiple: - if value == '': #No option selected + if value == '': # No option selected value = None else: value = value.split( "\n" ) return UnvalidatedValue( value ) - if not value: return None + if not value: + return None if not isinstance( value, list ): value = [value] if not( self.repeat ) and len( value ) > 1: @@ -1540,8 +1541,10 @@ if value == option['value']: return option rval = get_base_option( value, option['options'] ) - if rval: return rval - return None #not found + if rval: + return rval + return None # not found + def recurse_option( option_list, option ): if not option['options']: option_list.append( option['value'] ) @@ -1931,7 +1934,7 @@ if value in [None, "None"]: return None if isinstance( value, str ) and value.find( "," ) > 0: - value = [ int( value_part ) for value_part in value.split( "," ) ] + value = [ int( value_part ) for value_part in value.split( "," ) ] if isinstance( value, list ): rval = [] for single_value in value: @@ -2368,6 +2371,7 @@ # return final dictionary return d + class HiddenDataToolParameter( HiddenToolParameter, DataToolParameter ): """ Hidden parameter that behaves as a DataToolParameter. As with all hidden https://bitbucket.org/galaxy/galaxy-central/commits/b9c5b028e389/ Changeset: b9c5b028e389 User: jmchilton Date: 2014-12-11 04:51:45+00:00 Summary: More testing for parameter parsing. Affected #: 1 file diff -r 39bc0ce6bb543238c1ee67fc5491e65ed16fe6f0 -r b9c5b028e389678c1a073f11c9aba5104ae17e89 test/unit/tools/test_parameter_parsing.py --- a/test/unit/tools/test_parameter_parsing.py +++ b/test/unit/tools/test_parameter_parsing.py @@ -177,9 +177,11 @@ <option value="b" selected="true">B</option></param> """) + assert param.display is None assert param.multiple is True assert param.name == "selectp" assert param.type == "select" + assert param.separator == "," assert param.options is None assert param.dynamic_options is None @@ -196,7 +198,7 @@ def test_select_dynamic(self): param = self._parameter_for(xml=""" - <param name="selectp" type="select" dynamic_options="cow"> + <param name="selectp" type="select" dynamic_options="cow" display="checkboxes" separator="moo"></param> """) assert param.multiple is False @@ -206,6 +208,9 @@ # assert not param.static_options assert param.is_dynamic + assert param.display == "checkboxes" + assert param.separator == "moo" + def test_select_options_from(self): param = self._parameter_for(xml=""" <param name="selectp" type="select"> @@ -229,8 +234,79 @@ assert param.name == "genomep" assert param.static_options - # Column and Data have sufficient test coverage in - # other modules. + def test_column_params(self): + param = self._parameter_for(xml=""" + <param name="col1" type="data_column" data_ref="input1"> + </param> + """) + assert param.data_ref == "input1" + assert param.usecolnames is False + assert param.force_select is True + assert param.numerical is False + + param = self._parameter_for(xml=""" + <param name="col1" type="data_column" data_ref="input1" use_header_names="true" numerical="true" force_select="false"> + </param> + """) + assert param.data_ref == "input1" + assert param.usecolnames is True + assert param.force_select is False + assert param.numerical is True + + def test_data_param_no_validation(self): + param = self._parameter_for(xml=""" + <param name="input" type="data"> + </param> + """) + assert len(param.validators) == 1 + param = self._parameter_for(xml=""" + <param name="input" type="data" no_validation="true"> + </param> + """) + assert len(param.validators) == 0 + + def test_data_param_dynamic_options(self): + param = self._parameter_for(xml=""" + <param name="input" type="data" /> + """) + assert param.options is None + assert param.options_filter_attribute is None + + param = self._parameter_for(xml=""" + <param name="input" type="data"> + <options from_data_table="cow"> + </options> + </param> + """) + assert param.options is not None + assert param.options_filter_attribute is None + + param = self._parameter_for(xml=""" + <param name="input" type="data"> + <options from_data_table="cow" options_filter_attribute="cow"> + </options> + </param> + """) + assert param.options is not None + assert param.options_filter_attribute == "cow" + + def test_conversions(self): + param = self._parameter_for(xml=""" + <param name="input" type="data" /> + """) + assert param.conversions == [] + + param = self._parameter_for(xml=""" + <param name="input" type="data"> + <conversion name="foo" type="txt" /> + <conversion name="foo2" type="bam" /> + </param> + """) + assert param.conversions[0][0] == "foo" + assert param.conversions[0][1] == "txt" + assert param.conversions[1][0] == "foo2" + assert param.conversions[1][1] == "bam" + def test_drilldown(self): param = self._parameter_for(xml=""" <param name="some_name" type="drill_down" display="checkbox" hierarchy="recurse" multiple="true"> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. 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[galaxyproject/usegalaxy-playbook] b78a21: Dropped VSU workshop slide from rotation. Almost ...
by GitHub 10 Dec '14

10 Dec '14

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: b78a21b5954c3f89311c4223e403bea47f4ff677 https://github.com/galaxyproject/usegalaxy-playbook/commit/b78a21b5954c3f89… Author: Dave Clements <clements(a)Clements-Galaxy.local> Date: 2014-12-10 (Wed, 10 Dec 2014) Changed paths: M templates/galaxy/common/static/welcome.html.j2 Log Message: ----------- Dropped VSU workshop slide from rotation. Almost full.

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commit/galaxy-central: dannon: Merged in peterjc/galaxy-central-2/peterjc/clearer-error-messages-where-parameter-v-1418233351514 (pull request #604)
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/fc60d0eeb22b/ Changeset: fc60d0eeb22b User: dannon Date: 2014-12-10 21:53:09+00:00 Summary: Merged in peterjc/galaxy-central-2/peterjc/clearer-error-messages-where-parameter-v-1418233351514 (pull request #604) Clearer error messages where parameter validation fails Affected #: 1 file diff -r 0852880c97bdcc5730d0fc396c094fbadd296931 -r fc60d0eeb22b28a2e61db5c6ec672a3dc5663845 lib/galaxy/tools/parameters/basic.py --- a/lib/galaxy/tools/parameters/basic.py +++ b/lib/galaxy/tools/parameters/basic.py @@ -837,13 +837,14 @@ value = value.split() return UnvalidatedValue( value ) legal_values = self.get_legal_values( trans, context ) + assert legal_values, "Parameter %s requires a value, but has no legal values defined" % self.name if isinstance( value, list ): if not(self.repeat): - assert self.multiple, "Multiple values provided but parameter is not expecting multiple values" + assert self.multiple, "Multiple values provided but parameter %s is not expecting multiple values" % self.name rval = [] for v in value: if v not in legal_values: - raise ValueError( "An invalid option was selected, please verify" ) + raise ValueError( "An invalid option was selected for %s, %r, please verify" % (self.name, v)) rval.append( v ) return rval else: @@ -853,9 +854,9 @@ if self.optional: return [] else: - raise ValueError( "No option was selected but input is not optional." ) + raise ValueError( "No option was selected for %s but input is not optional." % self.name) if value not in legal_values: - raise ValueError( "An invalid option was selected, please verify" ) + raise ValueError( "An invalid option was selected for %s, %r, please verify" % (self.name, value)) return value def to_html_value( self, value, app ): @@ -869,7 +870,7 @@ return "None" if isinstance( value, list ): if not( self.repeat ): - assert self.multiple, "Multiple values provided but parameter is not expecting multiple values" + assert self.multiple, "Multiple values provided but parameter %s is not expecting multiple values" % self.name value = map( str, value ) else: value = str( value ) @@ -1522,10 +1523,13 @@ if not isinstance( value, list ): value = [value] if not( self.repeat ) and len( value ) > 1: - assert self.multiple, "Multiple values provided but parameter is not expecting multiple values" + assert self.multiple, "Multiple values provided but parameter %s is not expecting multiple values" % self.name rval = [] + legal_values = self.get_legal_values( trans, other_values ) + assert legal_values, "Parameter %s requires a value, but has no legal values defined" % self.name for val in value: - if val not in self.get_legal_values( trans, other_values ): raise ValueError( "An invalid option was selected, please verify" ) + if val not in legal_values: + raise ValueError( "An invalid option was selected for %s, %r, please verify" % (self.name, val)) rval.append( val ) return rval Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: 3 new changesets
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

3 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/9ba27992bfed/ Changeset: 9ba27992bfed Branch: peterjc/clearer-error-messages-where-parameter-v-1418233351514 User: peterjc Date: 2014-12-10 17:43:03+00:00 Summary: Clearer error messages where parameter validation fails Affected #: 1 file diff -r d66ad58a40e31defb6de0eb8b8b543b7e0f26ae5 -r 9ba27992bfed77dccbe59768d7de587f40f3c64b lib/galaxy/tools/parameters/basic.py --- a/lib/galaxy/tools/parameters/basic.py +++ b/lib/galaxy/tools/parameters/basic.py @@ -839,11 +839,11 @@ legal_values = self.get_legal_values( trans, context ) if isinstance( value, list ): if not(self.repeat): - assert self.multiple, "Multiple values provided but parameter is not expecting multiple values" + assert self.multiple, "Multiple values provided but parameter %s is not expecting multiple values" % self.name rval = [] for v in value: if v not in legal_values: - raise ValueError( "An invalid option was selected, please verify" ) + raise ValueError( "An invalid option was selected for %s, %r, please verify" % (self.name, v)) rval.append( v ) return rval else: @@ -853,9 +853,9 @@ if self.optional: return [] else: - raise ValueError( "No option was selected but input is not optional." ) + raise ValueError( "No option was selected for %s but input is not optional." % self.name) if value not in legal_values: - raise ValueError( "An invalid option was selected, please verify" ) + raise ValueError( "An invalid option was selected for %s, %r, please verify" % (self.name, value)) return value def to_html_value( self, value, app ): @@ -869,7 +869,7 @@ return "None" if isinstance( value, list ): if not( self.repeat ): - assert self.multiple, "Multiple values provided but parameter is not expecting multiple values" + assert self.multiple, "Multiple values provided but parameter %s is not expecting multiple values" % self.name value = map( str, value ) else: value = str( value ) @@ -1522,10 +1522,10 @@ if not isinstance( value, list ): value = [value] if not( self.repeat ) and len( value ) > 1: - assert self.multiple, "Multiple values provided but parameter is not expecting multiple values" + assert self.multiple, "Multiple values provided but parameter %s is not expecting multiple values" % self.name rval = [] for val in value: - if val not in self.get_legal_values( trans, other_values ): raise ValueError( "An invalid option was selected, please verify" ) + if val not in self.get_legal_values( trans, other_values ): raise ValueError( "An invalid option was selected for %s, %r, please verify" % (self.name, val)) rval.append( val ) return rval https://bitbucket.org/galaxy/galaxy-central/commits/f77d82d21050/ Changeset: f77d82d21050 Branch: peterjc/clearer-error-messages-where-parameter-v-1418233351514 User: peterjc Date: 2014-12-10 18:00:21+00:00 Summary: Clearer error messages if parameter as no legal values Affected #: 1 file diff -r 9ba27992bfed77dccbe59768d7de587f40f3c64b -r f77d82d2105034f021c82aee20bdffdaf862915a lib/galaxy/tools/parameters/basic.py --- a/lib/galaxy/tools/parameters/basic.py +++ b/lib/galaxy/tools/parameters/basic.py @@ -837,6 +837,7 @@ value = value.split() return UnvalidatedValue( value ) legal_values = self.get_legal_values( trans, context ) + assert legal_values, "Parameter %s requires a value, but has no legal values defined" % self.name if isinstance( value, list ): if not(self.repeat): assert self.multiple, "Multiple values provided but parameter %s is not expecting multiple values" % self.name @@ -1524,8 +1525,11 @@ if not( self.repeat ) and len( value ) > 1: assert self.multiple, "Multiple values provided but parameter %s is not expecting multiple values" % self.name rval = [] + legal_values = self.get_legal_values( trans, other_values ) + assert legal_values, "Parameter %s requires a value, but has no legal values defined" % self.name for val in value: - if val not in self.get_legal_values( trans, other_values ): raise ValueError( "An invalid option was selected for %s, %r, please verify" % (self.name, val)) + if val not in legal_values: + raise ValueError( "An invalid option was selected for %s, %r, please verify" % (self.name, val)) rval.append( val ) return rval https://bitbucket.org/galaxy/galaxy-central/commits/fc60d0eeb22b/ Changeset: fc60d0eeb22b User: dannon Date: 2014-12-10 21:53:09+00:00 Summary: Merged in peterjc/galaxy-central-2/peterjc/clearer-error-messages-where-parameter-v-1418233351514 (pull request #604) Clearer error messages where parameter validation fails Affected #: 1 file diff -r 0852880c97bdcc5730d0fc396c094fbadd296931 -r fc60d0eeb22b28a2e61db5c6ec672a3dc5663845 lib/galaxy/tools/parameters/basic.py --- a/lib/galaxy/tools/parameters/basic.py +++ b/lib/galaxy/tools/parameters/basic.py @@ -837,13 +837,14 @@ value = value.split() return UnvalidatedValue( value ) legal_values = self.get_legal_values( trans, context ) + assert legal_values, "Parameter %s requires a value, but has no legal values defined" % self.name if isinstance( value, list ): if not(self.repeat): - assert self.multiple, "Multiple values provided but parameter is not expecting multiple values" + assert self.multiple, "Multiple values provided but parameter %s is not expecting multiple values" % self.name rval = [] for v in value: if v not in legal_values: - raise ValueError( "An invalid option was selected, please verify" ) + raise ValueError( "An invalid option was selected for %s, %r, please verify" % (self.name, v)) rval.append( v ) return rval else: @@ -853,9 +854,9 @@ if self.optional: return [] else: - raise ValueError( "No option was selected but input is not optional." ) + raise ValueError( "No option was selected for %s but input is not optional." % self.name) if value not in legal_values: - raise ValueError( "An invalid option was selected, please verify" ) + raise ValueError( "An invalid option was selected for %s, %r, please verify" % (self.name, value)) return value def to_html_value( self, value, app ): @@ -869,7 +870,7 @@ return "None" if isinstance( value, list ): if not( self.repeat ): - assert self.multiple, "Multiple values provided but parameter is not expecting multiple values" + assert self.multiple, "Multiple values provided but parameter %s is not expecting multiple values" % self.name value = map( str, value ) else: value = str( value ) @@ -1522,10 +1523,13 @@ if not isinstance( value, list ): value = [value] if not( self.repeat ) and len( value ) > 1: - assert self.multiple, "Multiple values provided but parameter is not expecting multiple values" + assert self.multiple, "Multiple values provided but parameter %s is not expecting multiple values" % self.name rval = [] + legal_values = self.get_legal_values( trans, other_values ) + assert legal_values, "Parameter %s requires a value, but has no legal values defined" % self.name for val in value: - if val not in self.get_legal_values( trans, other_values ): raise ValueError( "An invalid option was selected, please verify" ) + if val not in legal_values: + raise ValueError( "An invalid option was selected for %s, %r, please verify" % (self.name, val)) rval.append( val ) return rval Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. 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commit/galaxy-central: carlfeberhard: Client: update libs/underscore.js to 1.7
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/0852880c97bd/ Changeset: 0852880c97bd User: carlfeberhard Date: 2014-12-10 21:23:21+00:00 Summary: Client: update libs/underscore.js to 1.7 Affected #: 3 files diff -r d66ad58a40e31defb6de0eb8b8b543b7e0f26ae5 -r 0852880c97bdcc5730d0fc396c094fbadd296931 client/galaxy/scripts/libs/underscore.js --- a/client/galaxy/scripts/libs/underscore.js +++ b/client/galaxy/scripts/libs/underscore.js @@ -1,6 +1,6 @@ -// Underscore.js 1.4.4 +// Underscore.js 1.7.0 // http://underscorejs.org -// (c) 2009-2013 Jeremy Ashkenas, DocumentCloud Inc. +// (c) 2009-2014 Jeremy Ashkenas, DocumentCloud and Investigative Reporters & Editors // Underscore may be freely distributed under the MIT license. (function() { @@ -8,37 +8,26 @@ // Baseline setup // -------------- - // Establish the root object, `window` in the browser, or `global` on the server. + // Establish the root object, `window` in the browser, or `exports` on the server. var root = this; // Save the previous value of the `_` variable. var previousUnderscore = root._; - // Establish the object that gets returned to break out of a loop iteration. - var breaker = {}; - // Save bytes in the minified (but not gzipped) version: var ArrayProto = Array.prototype, ObjProto = Object.prototype, FuncProto = Function.prototype; // Create quick reference variables for speed access to core prototypes. - var push = ArrayProto.push, - slice = ArrayProto.slice, - concat = ArrayProto.concat, - toString = ObjProto.toString, - hasOwnProperty = ObjProto.hasOwnProperty; + var + push = ArrayProto.push, + slice = ArrayProto.slice, + concat = ArrayProto.concat, + toString = ObjProto.toString, + hasOwnProperty = ObjProto.hasOwnProperty; // All **ECMAScript 5** native function implementations that we hope to use // are declared here. var - nativeForEach = ArrayProto.forEach, - nativeMap = ArrayProto.map, - nativeReduce = ArrayProto.reduce, - nativeReduceRight = ArrayProto.reduceRight, - nativeFilter = ArrayProto.filter, - nativeEvery = ArrayProto.every, - nativeSome = ArrayProto.some, - nativeIndexOf = ArrayProto.indexOf, - nativeLastIndexOf = ArrayProto.lastIndexOf, nativeIsArray = Array.isArray, nativeKeys = Object.keys, nativeBind = FuncProto.bind; @@ -52,8 +41,7 @@ // Export the Underscore object for **Node.js**, with // backwards-compatibility for the old `require()` API. If we're in - // the browser, add `_` as a global object via a string identifier, - // for Closure Compiler "advanced" mode. + // the browser, add `_` as a global object. if (typeof exports !== 'undefined') { if (typeof module !== 'undefined' && module.exports) { exports = module.exports = _; @@ -64,98 +52,125 @@ } // Current version. - _.VERSION = '1.4.4'; + _.VERSION = '1.7.0'; + + // Internal function that returns an efficient (for current engines) version + // of the passed-in callback, to be repeatedly applied in other Underscore + // functions. + var createCallback = function(func, context, argCount) { + if (context === void 0) return func; + switch (argCount == null ? 3 : argCount) { + case 1: return function(value) { + return func.call(context, value); + }; + case 2: return function(value, other) { + return func.call(context, value, other); + }; + case 3: return function(value, index, collection) { + return func.call(context, value, index, collection); + }; + case 4: return function(accumulator, value, index, collection) { + return func.call(context, accumulator, value, index, collection); + }; + } + return function() { + return func.apply(context, arguments); + }; + }; + + // A mostly-internal function to generate callbacks that can be applied + // to each element in a collection, returning the desired result — either + // identity, an arbitrary callback, a property matcher, or a property accessor. + _.iteratee = function(value, context, argCount) { + if (value == null) return _.identity; + if (_.isFunction(value)) return createCallback(value, context, argCount); + if (_.isObject(value)) return _.matches(value); + return _.property(value); + }; // Collection Functions // -------------------- // The cornerstone, an `each` implementation, aka `forEach`. - // Handles objects with the built-in `forEach`, arrays, and raw objects. - // Delegates to **ECMAScript 5**'s native `forEach` if available. - var each = _.each = _.forEach = function(obj, iterator, context) { - if (obj == null) return; - if (nativeForEach && obj.forEach === nativeForEach) { - obj.forEach(iterator, context); - } else if (obj.length === +obj.length) { - for (var i = 0, l = obj.length; i < l; i++) { - if (iterator.call(context, obj[i], i, obj) === breaker) return; + // Handles raw objects in addition to array-likes. Treats all + // sparse array-likes as if they were dense. + _.each = _.forEach = function(obj, iteratee, context) { + if (obj == null) return obj; + iteratee = createCallback(iteratee, context); + var i, length = obj.length; + if (length === +length) { + for (i = 0; i < length; i++) { + iteratee(obj[i], i, obj); } } else { - for (var key in obj) { - if (_.has(obj, key)) { - if (iterator.call(context, obj[key], key, obj) === breaker) return; - } + var keys = _.keys(obj); + for (i = 0, length = keys.length; i < length; i++) { + iteratee(obj[keys[i]], keys[i], obj); } } + return obj; }; - // Return the results of applying the iterator to each element. - // Delegates to **ECMAScript 5**'s native `map` if available. - _.map = _.collect = function(obj, iterator, context) { - var results = []; - if (obj == null) return results; - if (nativeMap && obj.map === nativeMap) return obj.map(iterator, context); - each(obj, function(value, index, list) { - results.push(iterator.call(context, value, index, list)); - }); + // Return the results of applying the iteratee to each element. + _.map = _.collect = function(obj, iteratee, context) { + if (obj == null) return []; + iteratee = _.iteratee(iteratee, context); + var keys = obj.length !== +obj.length && _.keys(obj), + length = (keys || obj).length, + results = Array(length), + currentKey; + for (var index = 0; index < length; index++) { + currentKey = keys ? keys[index] : index; + results[index] = iteratee(obj[currentKey], currentKey, obj); + } return results; }; var reduceError = 'Reduce of empty array with no initial value'; // **Reduce** builds up a single result from a list of values, aka `inject`, - // or `foldl`. Delegates to **ECMAScript 5**'s native `reduce` if available. - _.reduce = _.foldl = _.inject = function(obj, iterator, memo, context) { - var initial = arguments.length > 2; + // or `foldl`. + _.reduce = _.foldl = _.inject = function(obj, iteratee, memo, context) { if (obj == null) obj = []; - if (nativeReduce && obj.reduce === nativeReduce) { - if (context) iterator = _.bind(iterator, context); - return initial ? obj.reduce(iterator, memo) : obj.reduce(iterator); + iteratee = createCallback(iteratee, context, 4); + var keys = obj.length !== +obj.length && _.keys(obj), + length = (keys || obj).length, + index = 0, currentKey; + if (arguments.length < 3) { + if (!length) throw new TypeError(reduceError); + memo = obj[keys ? keys[index++] : index++]; } - each(obj, function(value, index, list) { - if (!initial) { - memo = value; - initial = true; - } else { - memo = iterator.call(context, memo, value, index, list); - } - }); - if (!initial) throw new TypeError(reduceError); + for (; index < length; index++) { + currentKey = keys ? keys[index] : index; + memo = iteratee(memo, obj[currentKey], currentKey, obj); + } return memo; }; // The right-associative version of reduce, also known as `foldr`. - // Delegates to **ECMAScript 5**'s native `reduceRight` if available. - _.reduceRight = _.foldr = function(obj, iterator, memo, context) { - var initial = arguments.length > 2; + _.reduceRight = _.foldr = function(obj, iteratee, memo, context) { if (obj == null) obj = []; - if (nativeReduceRight && obj.reduceRight === nativeReduceRight) { - if (context) iterator = _.bind(iterator, context); - return initial ? obj.reduceRight(iterator, memo) : obj.reduceRight(iterator); + iteratee = createCallback(iteratee, context, 4); + var keys = obj.length !== + obj.length && _.keys(obj), + index = (keys || obj).length, + currentKey; + if (arguments.length < 3) { + if (!index) throw new TypeError(reduceError); + memo = obj[keys ? keys[--index] : --index]; } - var length = obj.length; - if (length !== +length) { - var keys = _.keys(obj); - length = keys.length; + while (index--) { + currentKey = keys ? keys[index] : index; + memo = iteratee(memo, obj[currentKey], currentKey, obj); } - each(obj, function(value, index, list) { - index = keys ? keys[--length] : --length; - if (!initial) { - memo = obj[index]; - initial = true; - } else { - memo = iterator.call(context, memo, obj[index], index, list); - } - }); - if (!initial) throw new TypeError(reduceError); return memo; }; // Return the first value which passes a truth test. Aliased as `detect`. - _.find = _.detect = function(obj, iterator, context) { + _.find = _.detect = function(obj, predicate, context) { var result; - any(obj, function(value, index, list) { - if (iterator.call(context, value, index, list)) { + predicate = _.iteratee(predicate, context); + _.some(obj, function(value, index, list) { + if (predicate(value, index, list)) { result = value; return true; } @@ -164,61 +179,58 @@ }; // Return all the elements that pass a truth test. - // Delegates to **ECMAScript 5**'s native `filter` if available. // Aliased as `select`. - _.filter = _.select = function(obj, iterator, context) { + _.filter = _.select = function(obj, predicate, context) { var results = []; if (obj == null) return results; - if (nativeFilter && obj.filter === nativeFilter) return obj.filter(iterator, context); - each(obj, function(value, index, list) { - if (iterator.call(context, value, index, list)) results.push(value); + predicate = _.iteratee(predicate, context); + _.each(obj, function(value, index, list) { + if (predicate(value, index, list)) results.push(value); }); return results; }; // Return all the elements for which a truth test fails. - _.reject = function(obj, iterator, context) { - return _.filter(obj, function(value, index, list) { - return !iterator.call(context, value, index, list); - }, context); + _.reject = function(obj, predicate, context) { + return _.filter(obj, _.negate(_.iteratee(predicate)), context); }; // Determine whether all of the elements match a truth test. - // Delegates to **ECMAScript 5**'s native `every` if available. // Aliased as `all`. - _.every = _.all = function(obj, iterator, context) { - iterator || (iterator = _.identity); - var result = true; - if (obj == null) return result; - if (nativeEvery && obj.every === nativeEvery) return obj.every(iterator, context); - each(obj, function(value, index, list) { - if (!(result = result && iterator.call(context, value, index, list))) return breaker; - }); - return !!result; + _.every = _.all = function(obj, predicate, context) { + if (obj == null) return true; + predicate = _.iteratee(predicate, context); + var keys = obj.length !== +obj.length && _.keys(obj), + length = (keys || obj).length, + index, currentKey; + for (index = 0; index < length; index++) { + currentKey = keys ? keys[index] : index; + if (!predicate(obj[currentKey], currentKey, obj)) return false; + } + return true; }; // Determine if at least one element in the object matches a truth test. - // Delegates to **ECMAScript 5**'s native `some` if available. // Aliased as `any`. - var any = _.some = _.any = function(obj, iterator, context) { - iterator || (iterator = _.identity); - var result = false; - if (obj == null) return result; - if (nativeSome && obj.some === nativeSome) return obj.some(iterator, context); - each(obj, function(value, index, list) { - if (result || (result = iterator.call(context, value, index, list))) return breaker; - }); - return !!result; + _.some = _.any = function(obj, predicate, context) { + if (obj == null) return false; + predicate = _.iteratee(predicate, context); + var keys = obj.length !== +obj.length && _.keys(obj), + length = (keys || obj).length, + index, currentKey; + for (index = 0; index < length; index++) { + currentKey = keys ? keys[index] : index; + if (predicate(obj[currentKey], currentKey, obj)) return true; + } + return false; }; // Determine if the array or object contains a given value (using `===`). // Aliased as `include`. _.contains = _.include = function(obj, target) { if (obj == null) return false; - if (nativeIndexOf && obj.indexOf === nativeIndexOf) return obj.indexOf(target) != -1; - return any(obj, function(value) { - return value === target; - }); + if (obj.length !== +obj.length) obj = _.values(obj); + return _.indexOf(obj, target) >= 0; }; // Invoke a method (with arguments) on every item in a collection. @@ -232,83 +244,104 @@ // Convenience version of a common use case of `map`: fetching a property. _.pluck = function(obj, key) { - return _.map(obj, function(value){ return value[key]; }); + return _.map(obj, _.property(key)); }; // Convenience version of a common use case of `filter`: selecting only objects // containing specific `key:value` pairs. - _.where = function(obj, attrs, first) { - if (_.isEmpty(attrs)) return first ? void 0 : []; - return _[first ? 'find' : 'filter'](obj, function(value) { - for (var key in attrs) { - if (attrs[key] !== value[key]) return false; - } - return true; - }); + _.where = function(obj, attrs) { + return _.filter(obj, _.matches(attrs)); }; // Convenience version of a common use case of `find`: getting the first object // containing specific `key:value` pairs. _.findWhere = function(obj, attrs) { - return _.where(obj, attrs, true); + return _.find(obj, _.matches(attrs)); }; - // Return the maximum element or (element-based computation). - // Can't optimize arrays of integers longer than 65,535 elements. - // See: https://bugs.webkit.org/show_bug.cgi?id=80797 - _.max = function(obj, iterator, context) { - if (!iterator && _.isArray(obj) && obj[0] === +obj[0] && obj.length < 65535) { - return Math.max.apply(Math, obj); + // Return the maximum element (or element-based computation). + _.max = function(obj, iteratee, context) { + var result = -Infinity, lastComputed = -Infinity, + value, computed; + if (iteratee == null && obj != null) { + obj = obj.length === +obj.length ? obj : _.values(obj); + for (var i = 0, length = obj.length; i < length; i++) { + value = obj[i]; + if (value > result) { + result = value; + } + } + } else { + iteratee = _.iteratee(iteratee, context); + _.each(obj, function(value, index, list) { + computed = iteratee(value, index, list); + if (computed > lastComputed || computed === -Infinity && result === -Infinity) { + result = value; + lastComputed = computed; + } + }); } - if (!iterator && _.isEmpty(obj)) return -Infinity; - var result = {computed : -Infinity, value: -Infinity}; - each(obj, function(value, index, list) { - var computed = iterator ? iterator.call(context, value, index, list) : value; - computed >= result.computed && (result = {value : value, computed : computed}); - }); - return result.value; + return result; }; // Return the minimum element (or element-based computation). - _.min = function(obj, iterator, context) { - if (!iterator && _.isArray(obj) && obj[0] === +obj[0] && obj.length < 65535) { - return Math.min.apply(Math, obj); + _.min = function(obj, iteratee, context) { + var result = Infinity, lastComputed = Infinity, + value, computed; + if (iteratee == null && obj != null) { + obj = obj.length === +obj.length ? obj : _.values(obj); + for (var i = 0, length = obj.length; i < length; i++) { + value = obj[i]; + if (value < result) { + result = value; + } + } + } else { + iteratee = _.iteratee(iteratee, context); + _.each(obj, function(value, index, list) { + computed = iteratee(value, index, list); + if (computed < lastComputed || computed === Infinity && result === Infinity) { + result = value; + lastComputed = computed; + } + }); } - if (!iterator && _.isEmpty(obj)) return Infinity; - var result = {computed : Infinity, value: Infinity}; - each(obj, function(value, index, list) { - var computed = iterator ? iterator.call(context, value, index, list) : value; - computed < result.computed && (result = {value : value, computed : computed}); - }); - return result.value; + return result; }; - // Shuffle an array. + // Shuffle a collection, using the modern version of the + // [Fisher-Yates shuffle](http://en.wikipedia.org/wiki/Fisher–Yates_shuffle). _.shuffle = function(obj) { - var rand; - var index = 0; - var shuffled = []; - each(obj, function(value) { - rand = _.random(index++); - shuffled[index - 1] = shuffled[rand]; - shuffled[rand] = value; - }); + var set = obj && obj.length === +obj.length ? obj : _.values(obj); + var length = set.length; + var shuffled = Array(length); + for (var index = 0, rand; index < length; index++) { + rand = _.random(0, index); + if (rand !== index) shuffled[index] = shuffled[rand]; + shuffled[rand] = set[index]; + } return shuffled; }; - // An internal function to generate lookup iterators. - var lookupIterator = function(value) { - return _.isFunction(value) ? value : function(obj){ return obj[value]; }; + // Sample **n** random values from a collection. + // If **n** is not specified, returns a single random element. + // The internal `guard` argument allows it to work with `map`. + _.sample = function(obj, n, guard) { + if (n == null || guard) { + if (obj.length !== +obj.length) obj = _.values(obj); + return obj[_.random(obj.length - 1)]; + } + return _.shuffle(obj).slice(0, Math.max(0, n)); }; - // Sort the object's values by a criterion produced by an iterator. - _.sortBy = function(obj, value, context) { - var iterator = lookupIterator(value); + // Sort the object's values by a criterion produced by an iteratee. + _.sortBy = function(obj, iteratee, context) { + iteratee = _.iteratee(iteratee, context); return _.pluck(_.map(obj, function(value, index, list) { return { - value : value, - index : index, - criteria : iterator.call(context, value, index, list) + value: value, + index: index, + criteria: iteratee(value, index, list) }; }).sort(function(left, right) { var a = left.criteria; @@ -317,53 +350,56 @@ if (a > b || a === void 0) return 1; if (a < b || b === void 0) return -1; } - return left.index < right.index ? -1 : 1; + return left.index - right.index; }), 'value'); }; // An internal function used for aggregate "group by" operations. - var group = function(obj, value, context, behavior) { - var result = {}; - var iterator = lookupIterator(value == null ? _.identity : value); - each(obj, function(value, index) { - var key = iterator.call(context, value, index, obj); - behavior(result, key, value); - }); - return result; + var group = function(behavior) { + return function(obj, iteratee, context) { + var result = {}; + iteratee = _.iteratee(iteratee, context); + _.each(obj, function(value, index) { + var key = iteratee(value, index, obj); + behavior(result, value, key); + }); + return result; + }; }; // Groups the object's values by a criterion. Pass either a string attribute // to group by, or a function that returns the criterion. - _.groupBy = function(obj, value, context) { - return group(obj, value, context, function(result, key, value) { - (_.has(result, key) ? result[key] : (result[key] = [])).push(value); - }); - }; + _.groupBy = group(function(result, value, key) { + if (_.has(result, key)) result[key].push(value); else result[key] = [value]; + }); + + // Indexes the object's values by a criterion, similar to `groupBy`, but for + // when you know that your index values will be unique. + _.indexBy = group(function(result, value, key) { + result[key] = value; + }); // Counts instances of an object that group by a certain criterion. Pass // either a string attribute to count by, or a function that returns the // criterion. - _.countBy = function(obj, value, context) { - return group(obj, value, context, function(result, key) { - if (!_.has(result, key)) result[key] = 0; - result[key]++; - }); - }; + _.countBy = group(function(result, value, key) { + if (_.has(result, key)) result[key]++; else result[key] = 1; + }); // Use a comparator function to figure out the smallest index at which // an object should be inserted so as to maintain order. Uses binary search. - _.sortedIndex = function(array, obj, iterator, context) { - iterator = iterator == null ? _.identity : lookupIterator(iterator); - var value = iterator.call(context, obj); + _.sortedIndex = function(array, obj, iteratee, context) { + iteratee = _.iteratee(iteratee, context, 1); + var value = iteratee(obj); var low = 0, high = array.length; while (low < high) { - var mid = (low + high) >>> 1; - iterator.call(context, array[mid]) < value ? low = mid + 1 : high = mid; + var mid = low + high >>> 1; + if (iteratee(array[mid]) < value) low = mid + 1; else high = mid; } return low; }; - // Safely convert anything iterable into a real, live array. + // Safely create a real, live array from anything iterable. _.toArray = function(obj) { if (!obj) return []; if (_.isArray(obj)) return slice.call(obj); @@ -374,7 +410,18 @@ // Return the number of elements in an object. _.size = function(obj) { if (obj == null) return 0; - return (obj.length === +obj.length) ? obj.length : _.keys(obj).length; + return obj.length === +obj.length ? obj.length : _.keys(obj).length; + }; + + // Split a collection into two arrays: one whose elements all satisfy the given + // predicate, and one whose elements all do not satisfy the predicate. + _.partition = function(obj, predicate, context) { + predicate = _.iteratee(predicate, context); + var pass = [], fail = []; + _.each(obj, function(value, key, obj) { + (predicate(value, key, obj) ? pass : fail).push(value); + }); + return [pass, fail]; }; // Array Functions @@ -385,7 +432,9 @@ // allows it to work with `_.map`. _.first = _.head = _.take = function(array, n, guard) { if (array == null) return void 0; - return (n != null) && !guard ? slice.call(array, 0, n) : array[0]; + if (n == null || guard) return array[0]; + if (n < 0) return []; + return slice.call(array, 0, n); }; // Returns everything but the last entry of the array. Especially useful on @@ -393,18 +442,15 @@ // the array, excluding the last N. The **guard** check allows it to work with // `_.map`. _.initial = function(array, n, guard) { - return slice.call(array, 0, array.length - ((n == null) || guard ? 1 : n)); + return slice.call(array, 0, Math.max(0, array.length - (n == null || guard ? 1 : n))); }; // Get the last element of an array. Passing **n** will return the last N // values in the array. The **guard** check allows it to work with `_.map`. _.last = function(array, n, guard) { if (array == null) return void 0; - if ((n != null) && !guard) { - return slice.call(array, Math.max(array.length - n, 0)); - } else { - return array[array.length - 1]; - } + if (n == null || guard) return array[array.length - 1]; + return slice.call(array, Math.max(array.length - n, 0)); }; // Returns everything but the first entry of the array. Aliased as `tail` and `drop`. @@ -412,7 +458,7 @@ // the rest N values in the array. The **guard** // check allows it to work with `_.map`. _.rest = _.tail = _.drop = function(array, n, guard) { - return slice.call(array, (n == null) || guard ? 1 : n); + return slice.call(array, n == null || guard ? 1 : n); }; // Trim out all falsy values from an array. @@ -421,20 +467,26 @@ }; // Internal implementation of a recursive `flatten` function. - var flatten = function(input, shallow, output) { - each(input, function(value) { - if (_.isArray(value)) { - shallow ? push.apply(output, value) : flatten(value, shallow, output); + var flatten = function(input, shallow, strict, output) { + if (shallow && _.every(input, _.isArray)) { + return concat.apply(output, input); + } + for (var i = 0, length = input.length; i < length; i++) { + var value = input[i]; + if (!_.isArray(value) && !_.isArguments(value)) { + if (!strict) output.push(value); + } else if (shallow) { + push.apply(output, value); } else { - output.push(value); + flatten(value, shallow, strict, output); } - }); + } return output; }; - // Return a completely flattened version of an array. + // Flatten out an array, either recursively (by default), or just one level. _.flatten = function(array, shallow) { - return flatten(array, shallow, []); + return flatten(array, shallow, false, []); }; // Return a version of the array that does not contain the specified value(s). @@ -445,86 +497,85 @@ // Produce a duplicate-free version of the array. If the array has already // been sorted, you have the option of using a faster algorithm. // Aliased as `unique`. - _.uniq = _.unique = function(array, isSorted, iterator, context) { - if (_.isFunction(isSorted)) { - context = iterator; - iterator = isSorted; + _.uniq = _.unique = function(array, isSorted, iteratee, context) { + if (array == null) return []; + if (!_.isBoolean(isSorted)) { + context = iteratee; + iteratee = isSorted; isSorted = false; } - var initial = iterator ? _.map(array, iterator, context) : array; - var results = []; + if (iteratee != null) iteratee = _.iteratee(iteratee, context); + var result = []; var seen = []; - each(initial, function(value, index) { - if (isSorted ? (!index || seen[seen.length - 1] !== value) : !_.contains(seen, value)) { - seen.push(value); - results.push(array[index]); + for (var i = 0, length = array.length; i < length; i++) { + var value = array[i]; + if (isSorted) { + if (!i || seen !== value) result.push(value); + seen = value; + } else if (iteratee) { + var computed = iteratee(value, i, array); + if (_.indexOf(seen, computed) < 0) { + seen.push(computed); + result.push(value); + } + } else if (_.indexOf(result, value) < 0) { + result.push(value); } - }); - return results; + } + return result; }; // Produce an array that contains the union: each distinct element from all of // the passed-in arrays. _.union = function() { - return _.uniq(concat.apply(ArrayProto, arguments)); + return _.uniq(flatten(arguments, true, true, [])); }; // Produce an array that contains every item shared between all the // passed-in arrays. _.intersection = function(array) { - var rest = slice.call(arguments, 1); - return _.filter(_.uniq(array), function(item) { - return _.every(rest, function(other) { - return _.indexOf(other, item) >= 0; - }); - }); + if (array == null) return []; + var result = []; + var argsLength = arguments.length; + for (var i = 0, length = array.length; i < length; i++) { + var item = array[i]; + if (_.contains(result, item)) continue; + for (var j = 1; j < argsLength; j++) { + if (!_.contains(arguments[j], item)) break; + } + if (j === argsLength) result.push(item); + } + return result; }; // Take the difference between one array and a number of other arrays. // Only the elements present in just the first array will remain. _.difference = function(array) { - var rest = concat.apply(ArrayProto, slice.call(arguments, 1)); - return _.filter(array, function(value){ return !_.contains(rest, value); }); + var rest = flatten(slice.call(arguments, 1), true, true, []); + return _.filter(array, function(value){ + return !_.contains(rest, value); + }); }; // Zip together multiple lists into a single array -- elements that share // an index go together. - _.zip = function() { - var args = slice.call(arguments); - var length = _.max(_.pluck(args, 'length')); - var results = new Array(length); + _.zip = function(array) { + if (array == null) return []; + var length = _.max(arguments, 'length').length; + var results = Array(length); for (var i = 0; i < length; i++) { - results[i] = _.pluck(args, "" + i); + results[i] = _.pluck(arguments, i); } return results; }; - // The inverse operation to `_.zip`. If given an array of pairs it - // returns an array of the paired elements split into two left and - // right element arrays, if given an array of triples it returns a - // three element array and so on. For example, `_.unzip` given - // `[['a',1],['b',2],['c',3]]` returns the array - // [['a','b','c'],[1,2,3]]. - _.unzip = function(tuples) { - var results = []; - _.each(tuples, function (tuple, tupleIndex) { - _.each(tuple, function (value, itemIndex) { - if (results.length <= itemIndex) { - results[itemIndex] = []; - } - results[itemIndex][tupleIndex] = value; - }); - }); - return results; - }; - // Converts lists into objects. Pass either a single array of `[key, value]` // pairs, or two parallel arrays of the same length -- one of keys, and one of // the corresponding values. _.object = function(list, values) { if (list == null) return {}; var result = {}; - for (var i = 0, l = list.length; i < l; i++) { + for (var i = 0, length = list.length; i < length; i++) { if (values) { result[list[i]] = values[i]; } else { @@ -534,37 +585,32 @@ return result; }; - // If the browser doesn't supply us with indexOf (I'm looking at you, **MSIE**), - // we need this function. Return the position of the first occurrence of an - // item in an array, or -1 if the item is not included in the array. - // Delegates to **ECMAScript 5**'s native `indexOf` if available. + // Return the position of the first occurrence of an item in an array, + // or -1 if the item is not included in the array. // If the array is large and already in sort order, pass `true` // for **isSorted** to use binary search. _.indexOf = function(array, item, isSorted) { if (array == null) return -1; - var i = 0, l = array.length; + var i = 0, length = array.length; if (isSorted) { if (typeof isSorted == 'number') { - i = (isSorted < 0 ? Math.max(0, l + isSorted) : isSorted); + i = isSorted < 0 ? Math.max(0, length + isSorted) : isSorted; } else { i = _.sortedIndex(array, item); return array[i] === item ? i : -1; } } - if (nativeIndexOf && array.indexOf === nativeIndexOf) return array.indexOf(item, isSorted); - for (; i < l; i++) if (array[i] === item) return i; + for (; i < length; i++) if (array[i] === item) return i; return -1; }; - // Delegates to **ECMAScript 5**'s native `lastIndexOf` if available. _.lastIndexOf = function(array, item, from) { if (array == null) return -1; - var hasIndex = from != null; - if (nativeLastIndexOf && array.lastIndexOf === nativeLastIndexOf) { - return hasIndex ? array.lastIndexOf(item, from) : array.lastIndexOf(item); + var idx = array.length; + if (typeof from == 'number') { + idx = from < 0 ? idx + from + 1 : Math.min(idx, from + 1); } - var i = (hasIndex ? from : array.length); - while (i--) if (array[i] === item) return i; + while (--idx >= 0) if (array[idx] === item) return idx; return -1; }; @@ -576,15 +622,13 @@ stop = start || 0; start = 0; } - step = arguments[2] || 1; + step = step || 1; - var len = Math.max(Math.ceil((stop - start) / step), 0); - var idx = 0; - var range = new Array(len); + var length = Math.max(Math.ceil((stop - start) / step), 0); + var range = Array(length); - while(idx < len) { - range[idx++] = start; - start += step; + for (var idx = 0; idx < length; idx++, start += step) { + range[idx] = start; } return range; @@ -594,60 +638,76 @@ // ------------------ // Reusable constructor function for prototype setting. - var ctor = function(){}; + var Ctor = function(){}; // Create a function bound to a given object (assigning `this`, and arguments, // optionally). Delegates to **ECMAScript 5**'s native `Function.bind` if // available. _.bind = function(func, context) { var args, bound; - if (func.bind === nativeBind && nativeBind) return nativeBind.apply(func, slice.call(arguments, 1)); - if (!_.isFunction(func)) throw new TypeError; + if (nativeBind && func.bind === nativeBind) return nativeBind.apply(func, slice.call(arguments, 1)); + if (!_.isFunction(func)) throw new TypeError('Bind must be called on a function'); args = slice.call(arguments, 2); - return bound = function() { + bound = function() { if (!(this instanceof bound)) return func.apply(context, args.concat(slice.call(arguments))); - ctor.prototype = func.prototype; - var self = new ctor; - ctor.prototype = null; + Ctor.prototype = func.prototype; + var self = new Ctor; + Ctor.prototype = null; var result = func.apply(self, args.concat(slice.call(arguments))); - if (Object(result) === result) return result; + if (_.isObject(result)) return result; return self; }; + return bound; + }; + + // Partially apply a function by creating a version that has had some of its + // arguments pre-filled, without changing its dynamic `this` context. _ acts + // as a placeholder, allowing any combination of arguments to be pre-filled. + _.partial = function(func) { + var boundArgs = slice.call(arguments, 1); + return function() { + var position = 0; + var args = boundArgs.slice(); + for (var i = 0, length = args.length; i < length; i++) { + if (args[i] === _) args[i] = arguments[position++]; + } + while (position < arguments.length) args.push(arguments[position++]); + return func.apply(this, args); + }; }; - // Partially apply a function by creating a version that has had some of its - // arguments pre-filled, without changing its dynamic `this` context. - _.partial = function(func) { - var args = slice.call(arguments, 1); - return function() { - return func.apply(this, args.concat(slice.call(arguments))); - }; - }; - - // Bind all of an object's methods to that object. Useful for ensuring that - // all callbacks defined on an object belong to it. + // Bind a number of an object's methods to that object. Remaining arguments + // are the method names to be bound. Useful for ensuring that all callbacks + // defined on an object belong to it. _.bindAll = function(obj) { - var funcs = slice.call(arguments, 1); - if (funcs.length === 0) throw new Error("bindAll must be passed function names"); - each(funcs, function(f) { obj[f] = _.bind(obj[f], obj); }); + var i, length = arguments.length, key; + if (length <= 1) throw new Error('bindAll must be passed function names'); + for (i = 1; i < length; i++) { + key = arguments[i]; + obj[key] = _.bind(obj[key], obj); + } return obj; }; // Memoize an expensive function by storing its results. _.memoize = function(func, hasher) { - var memo = {}; - hasher || (hasher = _.identity); - return function() { - var key = hasher.apply(this, arguments); - return _.has(memo, key) ? memo[key] : (memo[key] = func.apply(this, arguments)); + var memoize = function(key) { + var cache = memoize.cache; + var address = hasher ? hasher.apply(this, arguments) : key; + if (!_.has(cache, address)) cache[address] = func.apply(this, arguments); + return cache[address]; }; + memoize.cache = {}; + return memoize; }; // Delays a function for the given number of milliseconds, and then calls // it with the arguments supplied. _.delay = function(func, wait) { var args = slice.call(arguments, 2); - return setTimeout(function(){ return func.apply(null, args); }, wait); + return setTimeout(function(){ + return func.apply(null, args); + }, wait); }; // Defers a function, scheduling it to run after the current call stack has @@ -657,27 +717,34 @@ }; // Returns a function, that, when invoked, will only be triggered at most once - // during a given window of time. - _.throttle = function(func, wait, immediate) { - var context, args, timeout, result; + // during a given window of time. Normally, the throttled function will run + // as much as it can, without ever going more than once per `wait` duration; + // but if you'd like to disable the execution on the leading edge, pass + // `{leading: false}`. To disable execution on the trailing edge, ditto. + _.throttle = function(func, wait, options) { + var context, args, result; + var timeout = null; var previous = 0; + if (!options) options = {}; var later = function() { - previous = new Date; + previous = options.leading === false ? 0 : _.now(); timeout = null; result = func.apply(context, args); + if (!timeout) context = args = null; }; return function() { - var now = new Date; - if (!previous && immediate === false) previous = now; + var now = _.now(); + if (!previous && options.leading === false) previous = now; var remaining = wait - (now - previous); context = this; args = arguments; - if (remaining <= 0) { + if (remaining <= 0 || remaining > wait) { clearTimeout(timeout); timeout = null; previous = now; result = func.apply(context, args); - } else if (!timeout) { + if (!timeout) context = args = null; + } else if (!timeout && options.trailing !== false) { timeout = setTimeout(later, remaining); } return result; @@ -689,61 +756,66 @@ // N milliseconds. If `immediate` is passed, trigger the function on the // leading edge, instead of the trailing. _.debounce = function(func, wait, immediate) { - var timeout, result; + var timeout, args, context, timestamp, result; + + var later = function() { + var last = _.now() - timestamp; + + if (last < wait && last > 0) { + timeout = setTimeout(later, wait - last); + } else { + timeout = null; + if (!immediate) { + result = func.apply(context, args); + if (!timeout) context = args = null; + } + } + }; + return function() { - var context = this, args = arguments; - var later = function() { - timeout = null; - if (!immediate) result = func.apply(context, args); - }; + context = this; + args = arguments; + timestamp = _.now(); var callNow = immediate && !timeout; - clearTimeout(timeout); - timeout = setTimeout(later, wait); - if (callNow) result = func.apply(context, args); + if (!timeout) timeout = setTimeout(later, wait); + if (callNow) { + result = func.apply(context, args); + context = args = null; + } + return result; }; }; - // Returns a function that will be executed at most one time, no matter how - // often you call it. Useful for lazy initialization. - _.once = function(func) { - var ran = false, memo; - return function() { - if (ran) return memo; - ran = true; - memo = func.apply(this, arguments); - func = null; - return memo; - }; - }; - // Returns the first function passed as an argument to the second, // allowing you to adjust arguments, run code before and after, and // conditionally execute the original function. _.wrap = function(func, wrapper) { + return _.partial(wrapper, func); + }; + + // Returns a negated version of the passed-in predicate. + _.negate = function(predicate) { return function() { - var args = [func]; - push.apply(args, arguments); - return wrapper.apply(this, args); + return !predicate.apply(this, arguments); }; }; // Returns a function that is the composition of a list of functions, each // consuming the return value of the function that follows. _.compose = function() { - var funcs = arguments; + var args = arguments; + var start = args.length - 1; return function() { - var args = arguments; - for (var i = funcs.length - 1; i >= 0; i--) { - args = [funcs[i].apply(this, args)]; - } - return args[0]; + var i = start; + var result = args[start].apply(this, arguments); + while (i--) result = args[i].call(this, result); + return result; }; }; // Returns a function that will only be executed after being called N times. _.after = function(times, func) { - if (times <= 0) return func(); return function() { if (--times < 1) { return func.apply(this, arguments); @@ -751,13 +823,31 @@ }; }; + // Returns a function that will only be executed before being called N times. + _.before = function(times, func) { + var memo; + return function() { + if (--times > 0) { + memo = func.apply(this, arguments); + } else { + func = null; + } + return memo; + }; + }; + + // Returns a function that will be executed at most one time, no matter how + // often you call it. Useful for lazy initialization. + _.once = _.partial(_.before, 2); + // Object Functions // ---------------- // Retrieve the names of an object's properties. // Delegates to **ECMAScript 5**'s native `Object.keys` - _.keys = nativeKeys || function(obj) { - if (obj !== Object(obj)) throw new TypeError('Invalid object'); + _.keys = function(obj) { + if (!_.isObject(obj)) return []; + if (nativeKeys) return nativeKeys(obj); var keys = []; for (var key in obj) if (_.has(obj, key)) keys.push(key); return keys; @@ -765,22 +855,33 @@ // Retrieve the values of an object's properties. _.values = function(obj) { - var values = []; - for (var key in obj) if (_.has(obj, key)) values.push(obj[key]); + var keys = _.keys(obj); + var length = keys.length; + var values = Array(length); + for (var i = 0; i < length; i++) { + values[i] = obj[keys[i]]; + } return values; }; // Convert an object into a list of `[key, value]` pairs. _.pairs = function(obj) { - var pairs = []; - for (var key in obj) if (_.has(obj, key)) pairs.push([key, obj[key]]); + var keys = _.keys(obj); + var length = keys.length; + var pairs = Array(length); + for (var i = 0; i < length; i++) { + pairs[i] = [keys[i], obj[keys[i]]]; + } return pairs; }; // Invert the keys and values of an object. The values must be serializable. _.invert = function(obj) { var result = {}; - for (var key in obj) if (_.has(obj, key)) result[obj[key]] = key; + var keys = _.keys(obj); + for (var i = 0, length = keys.length; i < length; i++) { + result[obj[keys[i]]] = keys[i]; + } return result; }; @@ -796,45 +897,62 @@ // Extend a given object with all the properties in passed-in object(s). _.extend = function(obj) { - each(slice.call(arguments, 1), function(source) { - if (source) { - for (var prop in source) { - obj[prop] = source[prop]; + if (!_.isObject(obj)) return obj; + var source, prop; + for (var i = 1, length = arguments.length; i < length; i++) { + source = arguments[i]; + for (prop in source) { + if (hasOwnProperty.call(source, prop)) { + obj[prop] = source[prop]; } } - }); + } return obj; }; // Return a copy of the object only containing the whitelisted properties. - _.pick = function(obj) { - var copy = {}; - var keys = concat.apply(ArrayProto, slice.call(arguments, 1)); - each(keys, function(key) { - if (key in obj) copy[key] = obj[key]; - }); - return copy; + _.pick = function(obj, iteratee, context) { + var result = {}, key; + if (obj == null) return result; + if (_.isFunction(iteratee)) { + iteratee = createCallback(iteratee, context); + for (key in obj) { + var value = obj[key]; + if (iteratee(value, key, obj)) result[key] = value; + } + } else { + var keys = concat.apply([], slice.call(arguments, 1)); + obj = new Object(obj); + for (var i = 0, length = keys.length; i < length; i++) { + key = keys[i]; + if (key in obj) result[key] = obj[key]; + } + } + return result; }; // Return a copy of the object without the blacklisted properties. - _.omit = function(obj) { - var copy = {}; - var keys = concat.apply(ArrayProto, slice.call(arguments, 1)); - for (var key in obj) { - if (!_.contains(keys, key)) copy[key] = obj[key]; + _.omit = function(obj, iteratee, context) { + if (_.isFunction(iteratee)) { + iteratee = _.negate(iteratee); + } else { + var keys = _.map(concat.apply([], slice.call(arguments, 1)), String); + iteratee = function(value, key) { + return !_.contains(keys, key); + }; } - return copy; + return _.pick(obj, iteratee, context); }; // Fill in a given object with default properties. _.defaults = function(obj) { - each(slice.call(arguments, 1), function(source) { - if (source) { - for (var prop in source) { - if (obj[prop] === void 0) obj[prop] = source[prop]; - } + if (!_.isObject(obj)) return obj; + for (var i = 1, length = arguments.length; i < length; i++) { + var source = arguments[i]; + for (var prop in source) { + if (obj[prop] === void 0) obj[prop] = source[prop]; } - }); + } return obj; }; @@ -855,8 +973,8 @@ // Internal recursive comparison function for `isEqual`. var eq = function(a, b, aStack, bStack) { // Identical objects are equal. `0 === -0`, but they aren't identical. - // See the Harmony `egal` proposal: http://wiki.ecmascript.org/doku.php?id=harmony:egal. - if (a === b) return a !== 0 || 1 / a == 1 / b; + // See the [Harmony `egal` proposal](http://wiki.ecmascript.org/doku.php?id=harmony:egal). + if (a === b) return a !== 0 || 1 / a === 1 / b; // A strict comparison is necessary because `null == undefined`. if (a == null || b == null) return a === b; // Unwrap any wrapped objects. @@ -864,29 +982,27 @@ if (b instanceof _) b = b._wrapped; // Compare `[[Class]]` names. var className = toString.call(a); - if (className != toString.call(b)) return false; + if (className !== toString.call(b)) return false; switch (className) { - // Strings, numbers, dates, and booleans are compared by value. + // Strings, numbers, regular expressions, dates, and booleans are compared by value. + case '[object RegExp]': + // RegExps are coerced to strings for comparison (Note: '' + /a/i === '/a/i') case '[object String]': // Primitives and their corresponding object wrappers are equivalent; thus, `"5"` is // equivalent to `new String("5")`. - return a == String(b); + return '' + a === '' + b; case '[object Number]': - // `NaN`s are equivalent, but non-reflexive. An `egal` comparison is performed for - // other numeric values. - return a != +a ? b != +b : (a == 0 ? 1 / a == 1 / b : a == +b); + // `NaN`s are equivalent, but non-reflexive. + // Object(NaN) is equivalent to NaN + if (+a !== +a) return +b !== +b; + // An `egal` comparison is performed for other numeric values. + return +a === 0 ? 1 / +a === 1 / b : +a === +b; case '[object Date]': case '[object Boolean]': // Coerce dates and booleans to numeric primitive values. Dates are compared by their // millisecond representations. Note that invalid dates with millisecond representations // of `NaN` are not equivalent. - return +a == +b; - // RegExps are compared by their source patterns and flags. - case '[object RegExp]': - return a.source == b.source && - a.global == b.global && - a.multiline == b.multiline && - a.ignoreCase == b.ignoreCase; + return +a === +b; } if (typeof a != 'object' || typeof b != 'object') return false; // Assume equality for cyclic structures. The algorithm for detecting cyclic @@ -895,17 +1011,29 @@ while (length--) { // Linear search. Performance is inversely proportional to the number of // unique nested structures. - if (aStack[length] == a) return bStack[length] == b; + if (aStack[length] === a) return bStack[length] === b; + } + // Objects with different constructors are not equivalent, but `Object`s + // from different frames are. + var aCtor = a.constructor, bCtor = b.constructor; + if ( + aCtor !== bCtor && + // Handle Object.create(x) cases + 'constructor' in a && 'constructor' in b && + !(_.isFunction(aCtor) && aCtor instanceof aCtor && + _.isFunction(bCtor) && bCtor instanceof bCtor) + ) { + return false; } // Add the first object to the stack of traversed objects. aStack.push(a); bStack.push(b); - var size = 0, result = true; + var size, result; // Recursively compare objects and arrays. - if (className == '[object Array]') { + if (className === '[object Array]') { // Compare array lengths to determine if a deep comparison is necessary. size = a.length; - result = size == b.length; + result = size === b.length; if (result) { // Deep compare the contents, ignoring non-numeric properties. while (size--) { @@ -913,29 +1041,18 @@ } } } else { - // Objects with different constructors are not equivalent, but `Object`s - // from different frames are. - var aCtor = a.constructor, bCtor = b.constructor; - if (aCtor !== bCtor && !(_.isFunction(aCtor) && (aCtor instanceof aCtor) && - _.isFunction(bCtor) && (bCtor instanceof bCtor))) { - return false; - } // Deep compare objects. - for (var key in a) { - if (_.has(a, key)) { - // Count the expected number of properties. - size++; - // Deep compare each member. + var keys = _.keys(a), key; + size = keys.length; + // Ensure that both objects contain the same number of properties before comparing deep equality. + result = _.keys(b).length === size; + if (result) { + while (size--) { + // Deep compare each member + key = keys[size]; if (!(result = _.has(b, key) && eq(a[key], b[key], aStack, bStack))) break; } } - // Ensure that both objects contain the same number of properties. - if (result) { - for (key in b) { - if (_.has(b, key) && !(size--)) break; - } - result = !size; - } } // Remove the first object from the stack of traversed objects. aStack.pop(); @@ -952,7 +1069,7 @@ // An "empty" object has no enumerable own-properties. _.isEmpty = function(obj) { if (obj == null) return true; - if (_.isArray(obj) || _.isString(obj)) return obj.length === 0; + if (_.isArray(obj) || _.isString(obj) || _.isArguments(obj)) return obj.length === 0; for (var key in obj) if (_.has(obj, key)) return false; return true; }; @@ -965,18 +1082,19 @@ // Is a given value an array? // Delegates to ECMA5's native Array.isArray _.isArray = nativeIsArray || function(obj) { - return toString.call(obj) == '[object Array]'; + return toString.call(obj) === '[object Array]'; }; // Is a given variable an object? _.isObject = function(obj) { - return obj === Object(obj); + var type = typeof obj; + return type === 'function' || type === 'object' && !!obj; }; // Add some isType methods: isArguments, isFunction, isString, isNumber, isDate, isRegExp. - each(['Arguments', 'Function', 'String', 'Number', 'Date', 'RegExp'], function(name) { + _.each(['Arguments', 'Function', 'String', 'Number', 'Date', 'RegExp'], function(name) { _['is' + name] = function(obj) { - return toString.call(obj) == '[object ' + name + ']'; + return toString.call(obj) === '[object ' + name + ']'; }; }); @@ -984,14 +1102,14 @@ // there isn't any inspectable "Arguments" type. if (!_.isArguments(arguments)) { _.isArguments = function(obj) { - return !!(obj && _.has(obj, 'callee')); + return _.has(obj, 'callee'); }; } - // Optimize `isFunction` if appropriate. - if (typeof (/./) !== 'function') { + // Optimize `isFunction` if appropriate. Work around an IE 11 bug. + if (typeof /./ !== 'function') { _.isFunction = function(obj) { - return typeof obj === 'function'; + return typeof obj == 'function' || false; }; } @@ -1002,12 +1120,12 @@ // Is the given value `NaN`? (NaN is the only number which does not equal itself). _.isNaN = function(obj) { - return _.isNumber(obj) && obj != +obj; + return _.isNumber(obj) && obj !== +obj; }; // Is a given value a boolean? _.isBoolean = function(obj) { - return obj === true || obj === false || toString.call(obj) == '[object Boolean]'; + return obj === true || obj === false || toString.call(obj) === '[object Boolean]'; }; // Is a given value equal to null? @@ -1023,7 +1141,7 @@ // Shortcut function for checking if an object has a given property directly // on itself (in other words, not on a prototype). _.has = function(obj, key) { - return hasOwnProperty.call(obj, key); + return obj != null && hasOwnProperty.call(obj, key); }; // Utility Functions @@ -1036,15 +1154,45 @@ return this; }; - // Keep the identity function around for default iterators. + // Keep the identity function around for default iteratees. _.identity = function(value) { return value; }; + // Predicate-generating functions. Often useful outside of Underscore. + _.constant = function(value) { + return function() { + return value; + }; + }; + + _.noop = function(){}; + + _.property = function(key) { + return function(obj) { + return obj[key]; + }; + }; + + // Returns a predicate for checking whether an object has a given set of `key:value` pairs. + _.matches = function(attrs) { + var pairs = _.pairs(attrs), length = pairs.length; + return function(obj) { + if (obj == null) return !length; + obj = new Object(obj); + for (var i = 0; i < length; i++) { + var pair = pairs[i], key = pair[0]; + if (pair[1] !== obj[key] || !(key in obj)) return false; + } + return true; + }; + }; + // Run a function **n** times. - _.times = function(n, iterator, context) { - var accum = Array(n); - for (var i = 0; i < n; i++) accum[i] = iterator.call(context, i); + _.times = function(n, iteratee, context) { + var accum = Array(Math.max(0, n)); + iteratee = createCallback(iteratee, context, 1); + for (var i = 0; i < n; i++) accum[i] = iteratee(i); return accum; }; @@ -1057,53 +1205,45 @@ return min + Math.floor(Math.random() * (max - min + 1)); }; - // List of HTML entities for escaping. - var entityMap = { - escape: { - '&': '&', - '<': '<', - '>': '>', - '"': '"', - "'": ''', - '/': '/' - } - }; - entityMap.unescape = _.invert(entityMap.escape); - - // Regexes containing the keys and values listed immediately above. - var entityRegexes = { - escape: new RegExp('[' + _.keys(entityMap.escape).join('') + ']', 'g'), - unescape: new RegExp('(' + _.keys(entityMap.unescape).join('|') + ')', 'g') + // A (possibly faster) way to get the current timestamp as an integer. + _.now = Date.now || function() { + return new Date().getTime(); }; + // List of HTML entities for escaping. + var escapeMap = { + '&': '&', + '<': '<', + '>': '>', + '"': '"', + "'": ''', + '`': '`' + }; + var unescapeMap = _.invert(escapeMap); + // Functions for escaping and unescaping strings to/from HTML interpolation. - _.each(['escape', 'unescape'], function(method) { - _[method] = function(string) { - if (string == null) return ''; - return ('' + string).replace(entityRegexes[method], function(match) { - return entityMap[method][match]; - }); + var createEscaper = function(map) { + var escaper = function(match) { + return map[match]; }; - }); + // Regexes for identifying a key that needs to be escaped + var source = '(?:' + _.keys(map).join('|') + ')'; + var testRegexp = RegExp(source); + var replaceRegexp = RegExp(source, 'g'); + return function(string) { + string = string == null ? '' : '' + string; + return testRegexp.test(string) ? string.replace(replaceRegexp, escaper) : string; + }; + }; + _.escape = createEscaper(escapeMap); + _.unescape = createEscaper(unescapeMap); // If the value of the named `property` is a function then invoke it with the // `object` as context; otherwise, return it. _.result = function(object, property) { if (object == null) return void 0; var value = object[property]; - return _.isFunction(value) ? value.call(object) : value; - }; - - // Add your own custom functions to the Underscore object. - _.mixin = function(obj) { - each(_.functions(obj), function(name){ - var func = _[name] = obj[name]; - _.prototype[name] = function() { - var args = [this._wrapped]; - push.apply(args, arguments); - return result.call(this, func.apply(_, args)); - }; - }); + return _.isFunction(value) ? object[property]() : value; }; // Generate a unique integer id (unique within the entire client session). @@ -1134,22 +1274,26 @@ '\\': '\\', '\r': 'r', '\n': 'n', - '\t': 't', '\u2028': 'u2028', '\u2029': 'u2029' }; - var escaper = /\\|'|\r|\n|\t|\u2028|\u2029/g; + var escaper = /\\|'|\r|\n|\u2028|\u2029/g; + + var escapeChar = function(match) { + return '\\' + escapes[match]; + }; // JavaScript micro-templating, similar to John Resig's implementation. // Underscore templating handles arbitrary delimiters, preserves whitespace, // and correctly escapes quotes within interpolated code. - _.template = function(text, data, settings) { - var render; + // NB: `oldSettings` only exists for backwards compatibility. + _.template = function(text, settings, oldSettings) { + if (!settings && oldSettings) settings = oldSettings; settings = _.defaults({}, settings, _.templateSettings); // Combine delimiters into one regular expression via alternation. - var matcher = new RegExp([ + var matcher = RegExp([ (settings.escape || noMatch).source, (settings.interpolate || noMatch).source, (settings.evaluate || noMatch).source @@ -1159,19 +1303,18 @@ var index = 0; var source = "__p+='"; text.replace(matcher, function(match, escape, interpolate, evaluate, offset) { - source += text.slice(index, offset) - .replace(escaper, function(match) { return '\\' + escapes[match]; }); + source += text.slice(index, offset).replace(escaper, escapeChar); + index = offset + match.length; if (escape) { source += "'+\n((__t=(" + escape + "))==null?'':_.escape(__t))+\n'"; - } - if (interpolate) { + } else if (interpolate) { source += "'+\n((__t=(" + interpolate + "))==null?'':__t)+\n'"; - } - if (evaluate) { + } else if (evaluate) { source += "';\n" + evaluate + "\n__p+='"; } - index = offset + match.length; + + // Adobe VMs need the match returned to produce the correct offest. return match; }); source += "';\n"; @@ -1181,29 +1324,31 @@ source = "var __t,__p='',__j=Array.prototype.join," + "print=function(){__p+=__j.call(arguments,'');};\n" + - source + "return __p;\n"; + source + 'return __p;\n'; try { - render = new Function(settings.variable || 'obj', '_', source); + var render = new Function(settings.variable || 'obj', '_', source); } catch (e) { e.source = source; throw e; } - if (data) return render(data, _); var template = function(data) { return render.call(this, data, _); }; - // Provide the compiled function source as a convenience for precompilation. - template.source = 'function(' + (settings.variable || 'obj') + '){\n' + source + '}'; + // Provide the compiled source as a convenience for precompilation. + var argument = settings.variable || 'obj'; + template.source = 'function(' + argument + '){\n' + source + '}'; return template; }; - // Add a "chain" function, which will delegate to the wrapper. + // Add a "chain" function. Start chaining a wrapped Underscore object. _.chain = function(obj) { - return _(obj).chain(); + var instance = _(obj); + instance._chain = true; + return instance; }; // OOP @@ -1217,41 +1362,55 @@ return this._chain ? _(obj).chain() : obj; }; + // Add your own custom functions to the Underscore object. + _.mixin = function(obj) { + _.each(_.functions(obj), function(name) { + var func = _[name] = obj[name]; + _.prototype[name] = function() { + var args = [this._wrapped]; + push.apply(args, arguments); + return result.call(this, func.apply(_, args)); + }; + }); + }; + // Add all of the Underscore functions to the wrapper object. _.mixin(_); // Add all mutator Array functions to the wrapper. - each(['pop', 'push', 'reverse', 'shift', 'sort', 'splice', 'unshift'], function(name) { + _.each(['pop', 'push', 'reverse', 'shift', 'sort', 'splice', 'unshift'], function(name) { var method = ArrayProto[name]; _.prototype[name] = function() { var obj = this._wrapped; method.apply(obj, arguments); - if ((name == 'shift' || name == 'splice') && obj.length === 0) delete obj[0]; + if ((name === 'shift' || name === 'splice') && obj.length === 0) delete obj[0]; return result.call(this, obj); }; }); // Add all accessor Array functions to the wrapper. - each(['concat', 'join', 'slice'], function(name) { + _.each(['concat', 'join', 'slice'], function(name) { var method = ArrayProto[name]; _.prototype[name] = function() { return result.call(this, method.apply(this._wrapped, arguments)); }; }); - _.extend(_.prototype, { + // Extracts the result from a wrapped and chained object. + _.prototype.value = function() { + return this._wrapped; + }; - // Start chaining a wrapped Underscore object. - chain: function() { - this._chain = true; - return this; - }, - - // Extracts the result from a wrapped and chained object. - value: function() { - return this._wrapped; - } - - }); - -}).call(this); + // AMD registration happens at the end for compatibility with AMD loaders + // that may not enforce next-turn semantics on modules. Even though general + // practice for AMD registration is to be anonymous, underscore registers + // as a named module because, like jQuery, it is a base library that is + // popular enough to be bundled in a third party lib, but not be part of + // an AMD load request. Those cases could generate an error when an + // anonymous define() is called outside of a loader request. + if (typeof define === 'function' && define.amd) { + define('underscore', [], function() { + return _; + }); + } +}.call(this)); This diff is so big that we needed to truncate the remainder. Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: jmchilton: Merged in dannon/galaxy-central/stable (pull request #602)
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/212e1d5e9be5/ Changeset: 212e1d5e9be5 Branch: stable User: jmchilton Date: 2014-12-10 17:20:55+00:00 Summary: Merged in dannon/galaxy-central/stable (pull request #602) [STABLE] Force sanitization of form.title and form.name. Header needs more digging; we actually use html content in the field. Affected #: 1 file diff -r 2db0fb9594d6c315e4e0a4be70f64373cfc708f6 -r 212e1d5e9be5a9a1e12c834bd545de504753c9fe templates/form.mako --- a/templates/form.mako +++ b/templates/form.mako @@ -22,7 +22,7 @@ </%def> -<%def name="title()">${form.title}</%def> +<%def name="title()">${form.title | h}</%def><%def name="javascripts()"> ${parent.javascripts()} @@ -53,7 +53,7 @@ %endif <div class="form" style="margin: 1em"> - <div class="form-title">${util.unicodify( form.title )}</div> + <div class="form-title">${util.unicodify( form.title ) | h }</div><div class="form-body"><% has_file_input = False @@ -62,7 +62,7 @@ has_file_input = True break %> - <form name="${form.name}" action="${form.action}" method="post" + <form name="${form.name | h }" action="${form.action}" method="post" %if has_file_input: enctype="multipart/form-data" %endif @@ -76,28 +76,28 @@ <div class="${cls}"> %if input.use_label: <label> - ${_(input.label)}: + ${_(input.label) | h }: </label> %endif <div class="form-row-input"> %if input.type == 'textarea': - <textarea name="${input.name}">${input.value}</textarea> + <textarea name="${input.name | h }">${input.value | h }</textarea> %elif input.type == 'select': - <select name="${input.name}"> + <select name="${input.name | h}"> %for (name, value) in input.options: - <option value="${value}">${name}</option> + <option value="${value | h }">${name | h }</option> %endfor </select> %else: - <input type="${input.type}" name="${input.name}" value="${input.value}"> + <input type="${input.type}" name="${input.name | h }" value="${input.value | h }"> %endif </div> %if input.error: - <div class="form-row-error-message">${input.error}</div> + <div class="form-row-error-message">${input.error | h }</div> %endif %if input.help: <div class="toolParamHelp" style="clear: both;"> - ${input.help} + ${input.help | h} </div> %endif <div style="clear: both"></div> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: 3 new changesets
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

3 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/2d51d40f07ca/ Changeset: 2d51d40f07ca Branch: stable User: dannon Date: 2014-12-09 19:46:03+00:00 Summary: Force sanitization of form.title and form.name. Header needs more digging; we actually use html content in the field. Affected #: 1 file diff -r fdc7863699d233e2b44d6d42f47dfaaa97e0d80e -r 2d51d40f07ca0d3ca266a33bf39190dfe8b9a6be templates/form.mako --- a/templates/form.mako +++ b/templates/form.mako @@ -22,7 +22,7 @@ </%def> -<%def name="title()">${form.title}</%def> +<%def name="title()">${form.title | h}</%def><%def name="javascripts()"> ${parent.javascripts()} @@ -53,7 +53,7 @@ %endif <div class="form" style="margin: 1em"> - <div class="form-title">${util.unicodify( form.title )}</div> + <div class="form-title">${util.unicodify( form.title ) | h}</div><div class="form-body"><% has_file_input = False @@ -62,7 +62,7 @@ has_file_input = True break %> - <form name="${form.name}" action="${form.action}" method="post" + <form name="${form.name | h}" action="${form.action}" method="post" %if has_file_input: enctype="multipart/form-data" %endif https://bitbucket.org/galaxy/galaxy-central/commits/7adac1842adf/ Changeset: 7adac1842adf Branch: stable User: dannon Date: 2014-12-09 20:44:08+00:00 Summary: Additionally sanitize form input fields (label, name, etc.) Affected #: 1 file diff -r 2d51d40f07ca0d3ca266a33bf39190dfe8b9a6be -r 7adac1842adf8db15183baff73e971aeab3537a9 templates/form.mako --- a/templates/form.mako +++ b/templates/form.mako @@ -53,7 +53,7 @@ %endif <div class="form" style="margin: 1em"> - <div class="form-title">${util.unicodify( form.title ) | h}</div> + <div class="form-title">${util.unicodify( form.title ) | h }</div><div class="form-body"><% has_file_input = False @@ -62,7 +62,7 @@ has_file_input = True break %> - <form name="${form.name | h}" action="${form.action}" method="post" + <form name="${form.name | h }" action="${form.action}" method="post" %if has_file_input: enctype="multipart/form-data" %endif @@ -76,28 +76,28 @@ <div class="${cls}"> %if input.use_label: <label> - ${_(input.label)}: + ${_(input.label) | h }: </label> %endif <div class="form-row-input"> %if input.type == 'textarea': - <textarea name="${input.name}">${input.value}</textarea> + <textarea name="${input.name | h }">${input.value | h }</textarea> %elif input.type == 'select': - <select name="${input.name}"> + <select name="${input.name | h}"> %for (name, value) in input.options: - <option value="${value}">${name}</option> + <option value="${value | h }">${name | h }</option> %endfor </select> %else: - <input type="${input.type}" name="${input.name}" value="${input.value}"> + <input type="${input.type}" name="${input.name | h }" value="${input.value | h }"> %endif </div> %if input.error: - <div class="form-row-error-message">${input.error}</div> + <div class="form-row-error-message">${input.error | h }</div> %endif %if input.help: <div class="toolParamHelp" style="clear: both;"> - ${input.help} + ${input.help | h} </div> %endif <div style="clear: both"></div> https://bitbucket.org/galaxy/galaxy-central/commits/212e1d5e9be5/ Changeset: 212e1d5e9be5 Branch: stable User: jmchilton Date: 2014-12-10 17:20:55+00:00 Summary: Merged in dannon/galaxy-central/stable (pull request #602) [STABLE] Force sanitization of form.title and form.name. Header needs more digging; we actually use html content in the field. Affected #: 1 file diff -r 2db0fb9594d6c315e4e0a4be70f64373cfc708f6 -r 212e1d5e9be5a9a1e12c834bd545de504753c9fe templates/form.mako --- a/templates/form.mako +++ b/templates/form.mako @@ -22,7 +22,7 @@ </%def> -<%def name="title()">${form.title}</%def> +<%def name="title()">${form.title | h}</%def><%def name="javascripts()"> ${parent.javascripts()} @@ -53,7 +53,7 @@ %endif <div class="form" style="margin: 1em"> - <div class="form-title">${util.unicodify( form.title )}</div> + <div class="form-title">${util.unicodify( form.title ) | h }</div><div class="form-body"><% has_file_input = False @@ -62,7 +62,7 @@ has_file_input = True break %> - <form name="${form.name}" action="${form.action}" method="post" + <form name="${form.name | h }" action="${form.action}" method="post" %if has_file_input: enctype="multipart/form-data" %endif @@ -76,28 +76,28 @@ <div class="${cls}"> %if input.use_label: <label> - ${_(input.label)}: + ${_(input.label) | h }: </label> %endif <div class="form-row-input"> %if input.type == 'textarea': - <textarea name="${input.name}">${input.value}</textarea> + <textarea name="${input.name | h }">${input.value | h }</textarea> %elif input.type == 'select': - <select name="${input.name}"> + <select name="${input.name | h}"> %for (name, value) in input.options: - <option value="${value}">${name}</option> + <option value="${value | h }">${name | h }</option> %endfor </select> %else: - <input type="${input.type}" name="${input.name}" value="${input.value}"> + <input type="${input.type}" name="${input.name | h }" value="${input.value | h }"> %endif </div> %if input.error: - <div class="form-row-error-message">${input.error}</div> + <div class="form-row-error-message">${input.error | h }</div> %endif %if input.help: <div class="toolParamHelp" style="clear: both;"> - ${input.help} + ${input.help | h} </div> %endif <div style="clear: both"></div> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: 3 new changesets
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

3 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/7eeb2a0f5a97/ Changeset: 7eeb2a0f5a97 User: jmchilton Date: 2014-12-10 16:49:50+00:00 Summary: force_history_refresh does nothing so I am just setting it False in tool. (TODO: Update planemo linter to mark this as a problem.) Affected #: 1 file diff -r 01a3ff6a376c4b95ca540bc120b5aab47920fd39 -r 7eeb2a0f5a977d88c506bf1365c8bb46b5897354 lib/galaxy/tools/__init__.py --- a/lib/galaxy/tools/__init__.py +++ b/lib/galaxy/tools/__init__.py @@ -1410,10 +1410,8 @@ self.version = "1.0.0" # Support multi-byte tools self.is_multi_byte = string_as_bool( root.get( "is_multi_byte", False ) ) - # Force history to fully refresh after job execution for this tool. - # Useful i.e. when an indeterminate number of outputs are created by - # a tool. - self.force_history_refresh = string_as_bool( root.get( 'force_history_refresh', 'False' ) ) + # Legacy feature, ignored by UI. + self.force_history_refresh = False self.display_interface = string_as_bool( root.get( 'display_interface', str( self.display_interface ) ) ) self.require_login = string_as_bool( root.get( 'require_login', str( self.require_login ) ) ) # Load input translator, used by datasource tools to change names/values of incoming parameters https://bitbucket.org/galaxy/galaxy-central/commits/05533cd3509f/ Changeset: 05533cd3509f User: jmchilton Date: 2014-12-10 16:49:50+00:00 Summary: Small PEP-8 fix for Tool.parse_inputs. Affected #: 1 file diff -r 7eeb2a0f5a977d88c506bf1365c8bb46b5897354 -r 05533cd3509f1e23f514fc5190467580824f0b37 lib/galaxy/tools/__init__.py --- a/lib/galaxy/tools/__init__.py +++ b/lib/galaxy/tools/__init__.py @@ -1580,11 +1580,11 @@ # template. if self.nginx_upload and self.app.config.nginx_upload_path: if '?' in urllib.unquote_plus( self.action ): - raise Exception( 'URL parameters in a non-default tool action can not be used ' \ - 'in conjunction with nginx upload. Please convert them to ' \ + raise Exception( 'URL parameters in a non-default tool action can not be used ' + 'in conjunction with nginx upload. Please convert them to ' 'hidden POST parameters' ) self.action = (self.app.config.nginx_upload_path + '?nginx_redir=', - urllib.unquote_plus(self.action)) + urllib.unquote_plus(self.action)) self.target = input_elem.get( "target", self.target ) self.method = input_elem.get( "method", self.method ) # Parse the actual parameters https://bitbucket.org/galaxy/galaxy-central/commits/d66ad58a40e3/ Changeset: d66ad58a40e3 User: jmchilton Date: 2014-12-10 16:49:50+00:00 Summary: Unit testing explicitly related to parsing of XML for parameters. Cleans up some existing tests and does some de-duplication as well. Affected #: 4 files diff -r 05533cd3509f1e23f514fc5190467580824f0b37 -r d66ad58a40e31defb6de0eb8b8b543b7e0f26ae5 test/unit/tools/test_column_parameters.py --- a/test/unit/tools/test_column_parameters.py +++ b/test/unit/tools/test_column_parameters.py @@ -2,16 +2,12 @@ test_select_parameters.py. """ -from unittest import TestCase -from galaxy.tools.parameters import basic from galaxy.util import bunch from galaxy import model -from elementtree.ElementTree import XML +from .test_parameter_parsing import BaseParameterTestCase -import tools_support - -class DataColumnParameterTestCase( TestCase, tools_support.UsesApp ): +class DataColumnParameterTestCase( BaseParameterTestCase ): def test_not_optional_by_default(self): assert not self.__param_optional() @@ -62,11 +58,7 @@ self.assertEqual( '2', self.param.get_initial_value( self.trans, { "input_tsv": self.build_ready_hda() } ) ) def setUp( self ): - self.setup_app( mock_model=False ) - self.mock_tool = bunch.Bunch( - app=self.app, - tool_type="default", - ) + super(DataColumnParameterTestCase, self).setUp() self.test_history = model.History() self.app.model.context.add( self.test_history ) self.app.model.context.flush() @@ -105,8 +97,8 @@ if self.set_data_ref: data_ref_text = 'data_ref="input_tsv"' template_xml = '''<param name="my_name" type="%s" %s %s %s %s></param>''' - self.param_xml = XML( template_xml % ( self.type, data_ref_text, multi_text, optional_text, self.other_attributes ) ) - self._param = basic.ColumnListParameter( self.mock_tool, self.param_xml ) + param_str = template_xml % ( self.type, data_ref_text, multi_text, optional_text, self.other_attributes ) + self._param = self._parameter_for( xml=param_str ) self._param.ref_input = bunch.Bunch(formats=[model.datatypes_registry.get_datatype_by_extension("tabular")]) return self._param diff -r 05533cd3509f1e23f514fc5190467580824f0b37 -r d66ad58a40e31defb6de0eb8b8b543b7e0f26ae5 test/unit/tools/test_data_parameters.py --- a/test/unit/tools/test_data_parameters.py +++ b/test/unit/tools/test_data_parameters.py @@ -1,15 +1,10 @@ -from unittest import TestCase - from galaxy import model from galaxy.util import bunch -from galaxy.tools.parameters import basic -from elementtree.ElementTree import XML +from .test_parameter_parsing import BaseParameterTestCase -import tools_support - -class DataToolParameterTestCase( TestCase, tools_support.UsesApp ): +class DataToolParameterTestCase( BaseParameterTestCase ): def test_to_python_none_values( self ): assert None is self.param.to_python( None, self.app ) @@ -149,11 +144,7 @@ return hda def setUp( self ): - self.setup_app( mock_model=False ) - self.mock_tool = bunch.Bunch( - app=self.app, - tool_type="default", - ) + super(DataToolParameterTestCase, self).setUp() self.test_history = model.History() self.app.model.context.add( self.test_history ) self.app.model.context.flush() @@ -187,8 +178,8 @@ if self.optional: optional_text = 'optional="True"' template_xml = '''<param name="data2" type="data" ext="txt" %s %s></param>''' - self.param_xml = XML( template_xml % ( multi_text, optional_text ) ) - self._param = basic.DataToolParameter( self.mock_tool, self.param_xml ) + param_str = template_xml % ( multi_text, optional_text ) + self._param = self._parameter_for( tool=self.mock_tool, xml=param_str ) return self._param diff -r 05533cd3509f1e23f514fc5190467580824f0b37 -r d66ad58a40e31defb6de0eb8b8b543b7e0f26ae5 test/unit/tools/test_parameter_parsing.py --- /dev/null +++ b/test/unit/tools/test_parameter_parsing.py @@ -0,0 +1,283 @@ +from unittest import TestCase + +from galaxy.tools.parameters import basic +from galaxy.util import bunch +from elementtree.ElementTree import XML + +import tools_support + + +class BaseParameterTestCase( TestCase, tools_support.UsesApp ): + + def setUp(self): + self.setup_app( mock_model=False ) + self.mock_tool = bunch.Bunch( + app=self.app, + tool_type="default", + ) + + def _parameter_for(self, **kwds): + content = kwds["xml"] + param_xml = XML( content ) + return basic.ToolParameter.build( self.mock_tool, param_xml ) + + +class ParameterParsingTestCase( BaseParameterTestCase ): + """ Test the parsing of XML for most parameter types - in many + ways these are not very good tests since they break the abstraction + established by the tools. The docs tests in basic.py are better but + largely rely on HTML stuff we are moving to the client side so they + those tests may need to be updated anyway. + + It occurs to me that rewriting this stuff to test to_dict would + be much better - since that is a public API of the the tools. + """ + + def test_parse_help_and_label(self): + param = self._parameter_for(xml=""" + <param type="text" name="texti" size="8" value="mydefault" label="x" help="y" /> + """) + assert param.label == "x" + assert param.help == "y" + + param = self._parameter_for(xml=""" + <param type="text" name="texti" size="8" value="mydefault"> + <label>x2</label> + <help>y2</help> + </param> + """) + assert param.label == "x2" + assert param.help == "y2" + + def test_parse_sanitizers(self): + param = self._parameter_for(xml=""" + <param type="text" name="texti" size="8" value="mydefault"> + <sanitizer invalid_char=""> + <valid initial="string.digits"><add value=","/></valid> + </sanitizer> + </param> + """) + sanitizer = param.sanitizer + assert sanitizer is not None + assert sanitizer.sanitize_param("a") == "" + assert sanitizer.sanitize_param(",") == "," + + def test_parse_optional(self): + param = self._parameter_for(xml=""" + <param type="text" name="texti" size="8" value="mydefault" /> + """) + assert param.optional is False + + param = self._parameter_for(xml=""" + <param type="text" name="texti" size="8" value="mydefault" optional="true" /> + """) + assert param.optional is True + + def test_parse_validators(self): + param = self._parameter_for(xml=""" + <param type="text" name="texti" size="8" value="mydefault"> + <validator type="unspecified_build" message="no genome?" /> + </param> + """) + assert param.validators[0].message == "no genome?" + + def test_text_params(self): + param = self._parameter_for(xml=""" + <param type="text" name="texti" size="8" value="mydefault" /> + """) + assert param.size == "8" + assert param.value == "mydefault" + assert param.type == "text" + assert not param.area + + def test_text_area_params(self): + param = self._parameter_for(xml=""" + <param type="text" name="textarea" area="true" /> + """) + assert param.size is None + assert param.value is None + assert param.type == "text" + assert param.area + + def test_integer_params(self): + param = self._parameter_for(xml=""" + <param type="integer" name="intp" min="8" max="9" value="9" /> + """) + assert param.name == "intp" + assert param.value == "9" + assert param.type == "integer" + param.validate( 8 ) + self.assertRaises(Exception, lambda: param.validate( 10 )) + + def test_float_params(self): + param = self._parameter_for(xml=""" + <param type="float" name="floatp" min="7.8" max="9.5" value="9" /> + """) + assert param.name == "floatp" + assert param.value == "9" + assert param.type == "float" + param.validate( 8.1 ) + self.assertRaises(Exception, lambda: param.validate( 10.0 )) + + def test_boolean_params(self): + param = self._parameter_for(xml=""" + <param type="boolean" name="boolp" /> + """) + assert param.name == "boolp" + assert param.truevalue == "true" + assert param.falsevalue == "false" + assert param.type == "boolean" + + param = self._parameter_for(xml=""" + <param type="boolean" name="boolp" truevalue="t" falsevalue="f" /> + """) + assert param.truevalue == "t" + assert param.falsevalue == "f" + + def test_file_params(self): + param = self._parameter_for(xml=""" + <param type="file" name="filep" ajax-upload="true" /> + """) + assert param.name == "filep" + assert param.type == "file" + assert param.ajax + + def test_ftpfile_params(self): + param = self._parameter_for(xml=""" + <param type="ftpfile" name="ftpfilep" /> + """) + assert param.name == "ftpfilep" + assert param.type == "ftpfile" + + def test_hidden(self): + param = self._parameter_for(xml=""" + <param name="hiddenp" type="hidden" value="a hidden value" /> + """) + assert param.name == "hiddenp" + assert param.type == "hidden" + assert param.value == "a hidden value" + + def test_base_url(self): + param = self._parameter_for(xml=""" + <param name="urlp" type="baseurl" value="http://twitter.com/" /> + """) + assert param.name == "urlp" + assert param.type == "baseurl" + assert param.value == "http://twitter.com/" + + param = self._parameter_for(xml=""" + <param name="urlp" type="baseurl" /> + """) + assert param.value == "" + + def test_select_static(self): + param = self._parameter_for(xml=""" + <param name="selectp" type="select" multiple="true"> + <option value="a">A</option> + <option value="b" selected="true">B</option> + </param> + """) + assert param.multiple is True + assert param.name == "selectp" + assert param.type == "select" + + assert param.options is None + assert param.dynamic_options is None + assert not param.is_dynamic + + options = param.static_options + assert options[0][0] == "A" + assert options[0][1] == "a" + assert not options[0][2] + + assert options[1][0] == "B" + assert options[1][1] == "b" + assert options[1][2] + + def test_select_dynamic(self): + param = self._parameter_for(xml=""" + <param name="selectp" type="select" dynamic_options="cow"> + </param> + """) + assert param.multiple is False + assert param.options is None + assert param.dynamic_options == "cow" + ## This should be None or something - not undefined. + # assert not param.static_options + assert param.is_dynamic + + def test_select_options_from(self): + param = self._parameter_for(xml=""" + <param name="selectp" type="select"> + <options from_data_table="cow"> + </options> + </param> + """) + assert param.dynamic_options is None + assert param.is_dynamic + + # More detailed tests of dynamic options should be placed + # in test_select_parameters. + assert param.options.missing_tool_data_table_name == "cow" + + def test_genome_build(self): + param = self._parameter_for(xml=""" + <param name="genomep" type="genomebuild"> + </param> + """) + assert param.type == "genomebuild" + assert param.name == "genomep" + assert param.static_options + + # Column and Data have sufficient test coverage in + # other modules. + def test_drilldown(self): + param = self._parameter_for(xml=""" + <param name="some_name" type="drill_down" display="checkbox" hierarchy="recurse" multiple="true"> + <options> + <option name="Heading 1" value="heading1"> + <option name="Option 1" value="option1"/> + <option name="Option 2" value="option2"/> + <option name="Heading 1" value="heading1"> + <option name="Option 3" value="option3"/> + <option name="Option 4" value="option4"/> + </option> + </option> + <option name="Option 5" value="option5"/> + </options> + </param> + """) + assert param.type == "drill_down" + assert param.name == "some_name" + assert param.options + + heading1 = param.options[0] + assert heading1["selected"] is False + assert heading1["name"] == "Heading 1" + assert heading1["value"] == "heading1" + option1 = heading1["options"][0] + assert option1["selected"] is False + assert option1["name"] == "Option 1" + assert option1["value"] == "option1" + + option5 = param.options[1] + assert option5["selected"] is False + assert option5["name"] == "Option 5" + assert option5["value"] == "option5" + assert len(option5["options"]) == 0 + + def test_tool_collection(self): + param = self._parameter_for(xml=""" + <param name="datac" type="data_collection" collection_type="list" format="txt"> + </param> + """) + assert param.type == "data_collection" + assert param.collection_type == "list" + + def test_library(self): + param = self._parameter_for(xml=""" + <param name="libraryp" type="library_data"> + </param> + """) + assert param.type == "library_data" + assert param.name == "libraryp" diff -r 05533cd3509f1e23f514fc5190467580824f0b37 -r d66ad58a40e31defb6de0eb8b8b543b7e0f26ae5 test/unit/tools/test_select_parameters.py --- a/test/unit/tools/test_select_parameters.py +++ b/test/unit/tools/test_select_parameters.py @@ -1,13 +1,11 @@ -from unittest import TestCase from galaxy.util import bunch from galaxy import model from galaxy.tools.parameters import basic -from elementtree.ElementTree import XML -import tools_support +from .test_parameter_parsing import BaseParameterTestCase -class SelectToolParameterTestCase( TestCase, tools_support.UsesApp ): +class SelectToolParameterTestCase( BaseParameterTestCase ): def test_dep_dummy_datasets_need_late_validation( self ): self.options_xml = '''<options><filter type="data_meta" ref="input_bam" key="dbkey"/></options>''' @@ -51,11 +49,7 @@ # TODO: Good deal of overlap here with DataToolParameterTestCase, # refactor. def setUp( self ): - self.setup_app( mock_model=False ) - self.mock_tool = bunch.Bunch( - app=self.app, - tool_type="default", - ) + super(SelectToolParameterTestCase, self).setUp() self.test_history = model.History() self.app.model.context.add( self.test_history ) self.app.model.context.flush() @@ -88,8 +82,8 @@ if self.set_data_ref: data_ref_text = 'data_ref="input_bam"' template_xml = '''<param name="my_name" type="%s" %s %s %s>%s</param>''' - self.param_xml = XML( template_xml % ( self.type, data_ref_text, multi_text, optional_text, options_text ) ) - self._param = basic.SelectToolParameter( self.mock_tool, self.param_xml ) + param_str = template_xml % ( self.type, data_ref_text, multi_text, optional_text, options_text ) + self._param = self._parameter_for( xml=param_str ) return self._param Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. 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commit/galaxy-central: guerler: ToolForm: Hide current version from version selector
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/01a3ff6a376c/ Changeset: 01a3ff6a376c User: guerler Date: 2014-12-10 16:42:34+00:00 Summary: ToolForm: Hide current version from version selector Affected #: 3 files diff -r 4f46caf59f6c6a8a5dd03a425cc2656f91198fe1 -r 01a3ff6a376c4b95ca540bc120b5aab47920fd39 client/galaxy/scripts/mvc/tools/tools-form.js --- a/client/galaxy/scripts/mvc/tools/tools-form.js +++ b/client/galaxy/scripts/mvc/tools/tools-form.js @@ -342,20 +342,23 @@ }); if (options.versions && options.versions.length > 1) { for (var i in options.versions) { - versions_button.addMenu({ - title : 'Switch to ' + options.versions[i], - version : options.versions[i], - icon : 'fa-cube', - onclick : function() { - // here we update the tool version (some tools encode the version also in the id) - options.id = options.id.replace(options.version, this.version); - options.version = this.version; - - // rebuild the model and form - self.deferred.reset(); - self.deferred.execute(function(){self._buildModel()}); - } - }); + var version = options.versions[i]; + if (version != options.version) { + versions_button.addMenu({ + title : 'Switch to ' + version, + version : version, + icon : 'fa-cube', + onclick : function() { + // here we update the tool version (some tools encode the version also in the id) + options.id = options.id.replace(options.version, this.version); + options.version = this.version; + + // rebuild the model and form + self.deferred.reset(); + self.deferred.execute(function(){self._buildModel()}); + } + }); + } } } else { versions_button.$el.hide(); diff -r 4f46caf59f6c6a8a5dd03a425cc2656f91198fe1 -r 01a3ff6a376c4b95ca540bc120b5aab47920fd39 static/scripts/mvc/tools/tools-form.js --- a/static/scripts/mvc/tools/tools-form.js +++ b/static/scripts/mvc/tools/tools-form.js @@ -342,20 +342,23 @@ }); if (options.versions && options.versions.length > 1) { for (var i in options.versions) { - versions_button.addMenu({ - title : 'Switch to ' + options.versions[i], - version : options.versions[i], - icon : 'fa-cube', - onclick : function() { - // here we update the tool version (some tools encode the version also in the id) - options.id = options.id.replace(options.version, this.version); - options.version = this.version; - - // rebuild the model and form - self.deferred.reset(); - self.deferred.execute(function(){self._buildModel()}); - } - }); + var version = options.versions[i]; + if (version != options.version) { + versions_button.addMenu({ + title : 'Switch to ' + version, + version : version, + icon : 'fa-cube', + onclick : function() { + // here we update the tool version (some tools encode the version also in the id) + options.id = options.id.replace(options.version, this.version); + options.version = this.version; + + // rebuild the model and form + self.deferred.reset(); + self.deferred.execute(function(){self._buildModel()}); + } + }); + } } } else { versions_button.$el.hide(); diff -r 4f46caf59f6c6a8a5dd03a425cc2656f91198fe1 -r 01a3ff6a376c4b95ca540bc120b5aab47920fd39 static/scripts/packed/mvc/tools/tools-form.js --- a/static/scripts/packed/mvc/tools/tools-form.js +++ b/static/scripts/packed/mvc/tools/tools-form.js @@ -1,1 +1,1 @@ -define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.message.update({status:"success",message:"Now you are using '"+n.options.name+"' version "+n.options.version+".",persistent:false});n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var w=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var x=this.options;this.message=new m.Message();var n="This tool requires ";for(var r in x.requirements){var v=x.requirements[r];n+=v.name;if(v.version){n+=" (Version "+v.version+")"}if(r<x.requirements.length-2){n+=", "}if(r==x.requirements.length-2){n+=" and "}}n+=".";var t=new m.ButtonIcon({icon:"fa-info-circle",title:"Requirements",tooltip:"Display tool requirements",onclick:function(){if(!this.visible){this.visible=true;w.message.update({persistent:true,message:n,status:"warning"})}else{this.visible=false;w.message.update({message:""})}}});if(!x.requirements||x.requirements.length==0){t.$el.hide()}var p=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Select another tool version"});if(x.versions&&x.versions.length>1){for(var r in x.versions){p.addMenu({title:"Switch to "+x.versions[r],version:x.versions[r],icon:"fa-cube",onclick:function(){x.id=x.id.replace(x.version,this.version);x.version=this.version;w.deferred.reset();w.deferred.execute(function(){w._buildModel()})}})}}else{p.$el.hide()}var s=new m.ButtonMenu({icon:"fa-gear",title:"Options",tooltip:"View available options"});if(x.biostar_url){s.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/p/new/post/")}});s.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/t/"+x.id+"/")}})}s.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+x.id)}});if(this.is_admin){s.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+x.id+"/download"}})}this.section=new l.View(w,{inputs:x.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+x.name+"</b> "+x.description+" (Version "+x.version+")",cls:"ui-portlet-slim",operations:{requirements:t,menu:s,versions:p},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+x.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){w.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(x.help!=""){this.$el.append(d.help(x.help))}if(x.citations){var u=$("<div/>");var o=new k.ToolCitationCollection();o.tool_id=x.id;var q=new a.CitationListView({el:u,collection:o});q.render();o.fetch();this.$el.append(u)}this.portlet.append(this.message.$el,true);this.portlet.append(this.section.$el);this.rebuild();if(x.message){this.message.update({persistent:true,status:"warning",message:x.message})}}});return{View:b}}); \ No newline at end of file +define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.message.update({status:"success",message:"Now you are using '"+n.options.name+"' version "+n.options.version+".",persistent:false});n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var x=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var y=this.options;this.message=new m.Message();var n="This tool requires ";for(var r in y.requirements){var w=y.requirements[r];n+=w.name;if(w.version){n+=" (Version "+w.version+")"}if(r<y.requirements.length-2){n+=", "}if(r==y.requirements.length-2){n+=" and "}}n+=".";var t=new m.ButtonIcon({icon:"fa-info-circle",title:"Requirements",tooltip:"Display tool requirements",onclick:function(){if(!this.visible){this.visible=true;x.message.update({persistent:true,message:n,status:"warning"})}else{this.visible=false;x.message.update({message:""})}}});if(!y.requirements||y.requirements.length==0){t.$el.hide()}var p=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Select another tool version"});if(y.versions&&y.versions.length>1){for(var r in y.versions){var u=y.versions[r];if(u!=y.version){p.addMenu({title:"Switch to "+u,version:u,icon:"fa-cube",onclick:function(){y.id=y.id.replace(y.version,this.version);y.version=this.version;x.deferred.reset();x.deferred.execute(function(){x._buildModel()})}})}}}else{p.$el.hide()}var s=new m.ButtonMenu({icon:"fa-gear",title:"Options",tooltip:"View available options"});if(y.biostar_url){s.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(y.biostar_url+"/p/new/post/")}});s.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(y.biostar_url+"/t/"+y.id+"/")}})}s.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+y.id)}});if(this.is_admin){s.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+y.id+"/download"}})}this.section=new l.View(x,{inputs:y.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+y.name+"</b> "+y.description+" (Version "+y.version+")",cls:"ui-portlet-slim",operations:{requirements:t,menu:s,versions:p},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+y.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){x.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(y.help!=""){this.$el.append(d.help(y.help))}if(y.citations){var v=$("<div/>");var o=new k.ToolCitationCollection();o.tool_id=y.id;var q=new a.CitationListView({el:v,collection:o});q.render();o.fetch();this.$el.append(v)}this.portlet.append(this.message.$el,true);this.portlet.append(this.section.$el);this.rebuild();if(y.message){this.message.update({persistent:true,status:"warning",message:y.message})}}});return{View:b}}); \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: guerler: ToolForm: Activate tool form
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/4f46caf59f6c/ Changeset: 4f46caf59f6c User: guerler Date: 2014-12-10 16:02:50+00:00 Summary: ToolForm: Activate tool form Affected #: 1 file diff -r eca8b8ed910366a2f72b778ace674e3126832e66 -r 4f46caf59f6c6a8a5dd03a425cc2656f91198fe1 templates/webapps/galaxy/tool_form.mako --- a/templates/webapps/galaxy/tool_form.mako +++ b/templates/webapps/galaxy/tool_form.mako @@ -4,7 +4,7 @@ ${h.css('base', 'jquery-ui/smoothness/jquery-ui')} ## skip new tool form code if disabled -%if trans.app.config.get('toolform_upgrade', False): +##%if trans.app.config.get('toolform_upgrade', False): <% ## TEMPORARY: create tool dictionary in mako while both tool forms are in use. ## This avoids making two separate requests since the classic form requires the mako anyway. @@ -28,9 +28,9 @@ }); </script><div id="tool-form-classic" style="display: none;"> -%else: - <div id="tool-form-classic"> -%endif +##%else: +## <div id="tool-form-classic"> +##%endif <%namespace file="/message.mako" import="render_msg" /><%namespace file="/base_panels.mako" import="overlay" /> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: guerler: Ui: Minor style fix, Charts: Repack scripts
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/eca8b8ed9103/ Changeset: eca8b8ed9103 User: guerler Date: 2014-12-10 15:51:37+00:00 Summary: Ui: Minor style fix, Charts: Repack scripts Affected #: 3 files diff -r a8aa8c67fe5335df93e3195bb46beb62783325bd -r eca8b8ed910366a2f72b778ace674e3126832e66 config/plugins/visualizations/charts/static/build-app.js --- a/config/plugins/visualizations/charts/static/build-app.js +++ b/config/plugins/visualizations/charts/static/build-app.js @@ -3,4 +3,4 @@ // (c) 2009-2013 Jeremy Ashkenas, DocumentCloud Inc. // Underscore may be freely distributed under the MIT license. -define("mvc/ui/ui-modal",[],function(){var e=Backbone.View.extend({elMain:"body",optionsDefault:{title:"ui-modal",body:"",backdrop:!0,height:null,width:null,closing_events:!1,closing_callback:null},buttonList:{},initialize:function(e){e&&this._create(e)},show:function(e){this.initialize(e),this.options.height?(this.$body.css("height",this.options.height),this.$body.css("overflow","hidden")):this.$body.css("max-height",$(window).height()/2),this.options.width&&this.$dialog.css("width",this.options.width),this.visible?this.$el.show():this.$el.fadeIn("fast"),this.visible=!0},hide:function(){this.visible=!1,this.$el.fadeOut("fast"),this.options.closing_callback&&this.options.closing_callback()},enableButton:function(e){var t=this.buttonList[e];this.$buttons.find("#"+t).prop("disabled",!1)},disableButton:function(e){var t=this.buttonList[e];this.$buttons.find("#"+t).prop("disabled",!0)},showButton:function(e){var t=this.buttonList[e];this.$buttons.find("#"+t).show()},hideButton:function(e){var 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i="button-"+n++;t.$buttons.append($('<button id="'+i+'"></button>').text(e).click(r)).append(" "),t.buttonList[e]=i})}else this.$footer.hide();$(this.elMain).append($(this.el)),this.options.closing_events&&($(document).on("keyup.ui-modal",function(e){e.keyCode==27&&t.hide()}),this.$el.find(".modal-backdrop").on("click",function(){t.hide()}))},_template:function(e){return'<div class="ui-modal modal"><div class="modal-backdrop fade in" style="z-index: -1;"></div><div class="modal-dialog"><div class="modal-content"><div class="modal-header"><button type="button" class="close" style="display: none;">×</button><h4 class="title">'+e+"</h4>"+"</div>"+'<div class="modal-body" style="position: static;"></div>'+'<div class="modal-footer">'+'<div class="buttons" style="float: right;"></div>'+"</div>"+"</div"+"</div>"+"</div>"}});return{View:e}}),function(){var 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wait..."},this.options=e.merge(t,this.optionsDefault),this.setElement("<div/>"),this.$message=$("<div/>"),this.$options=$(this._template(t)),this.$el.append(this.$message),this.$el.append(this.$options),this.options.visible||this.$el.hide(),this.update(this.options.data),this.options.value&&this.value(this.options.value);var n=this;this.on("change",function(){n._change()})},update:function(e){var t=this._getValue();this.$el.find(".ui-option").remove();for(var n in e){var r=$(this._templateOption(e[n]));r.addClass("ui-option"),this.$options.append(r)}var i=this;this.$el.find("input").on("change",function(){i.value(i._getValue()),i._change()}),this._refresh(),this.value(t)},exists:function(e){typeof e=="string"&&(e=[e]);for(var t in e)if(this.$el.find('input[value="'+e[t]+'"]').length>0)return!0;return!1},first:function(){var e=this.$el.find("input");return e.length>0?e.val():undefined},validate:function(){var e=this.value();e instanceof Array||(e=[e]);for(var t in e)if([null,"null",undefined].indexOf(e[t])>-1)return!1;return!0},wait:function(){this._size()==0&&(this._messageShow(this.options.waitText,"info"),this.$options.hide())},unwait:function(){this._messageHide(),this._refresh()},_change:function(){this.options.onchange&&this.options.onchange(this._getValue())},_refresh:function(){this._size()==0?(this._messageShow(this.options.errorText,"danger"),this.$options.hide()):(this._messageHide(),this.$options.css("display","inline-block"))},_getValue:function(){var e=this.$el.find(":checked");if(e.length==0)return"null";if(this.options.multiple){var t=[];return e.each(function(){t.push($(this).val())}),t}return e.val()},_size:function(){return this.$el.find(".ui-option").length},_messageShow:function(e,t){this.$message.show(),this.$message.removeClass(),this.$message.addClass("ui-message alert alert-"+t),this.$message.html(e)},_messageHide:function(){this.$message.hide()}}),n={};n.View=t.extend({initialize:function(e){t.prototype.initialize.call(this,e)},value:function(e){typeof e=="string"&&(e=[e]);if(e!==undefined){this.$el.find("input").prop("checked",!1);for(var t in e)this.$el.find('input[value="'+e[t]+'"]').prop("checked",!0)}return this._getValue()},_templateOption:function(e){return'<div><input type="radio" name="'+this.options.id+'" value="'+e.value+'"/>'+e.label+"<br>"+"</div>"},_template:function(){return'<div class="ui-options"/>'}});var r={};r.View=n.View.extend({initialize:function(e){e.multiple=!0,n.View.prototype.initialize.call(this,e)},_templateOption:function(e){return'<div><input type="checkbox" name="'+this.options.id+'" value="'+e.value+'"/>'+e.label+"<br>"+"</div>"}});var i={};return i.View=t.extend({initialize:function(e){t.prototype.initialize.call(this,e)},value:function(e){return e!==undefined&&(this.$el.find("input").prop("checked",!1),this.$el.find("label").removeClass("active"),this.$el.find('[value="'+e+'"]').prop("checked",!0).closest("label").addClass("active")),this._getValue()},_templateOption:function(e){var t='<label class="btn btn-default">';return e.icon&&(t+='<i class="fa '+e.icon+'"/>'),t+='<input type="radio" name="'+this.options.id+'" value="'+e.value+'">'+e.label+"</label>",t},_template:function(){return'<div class="btn-group ui-radiobutton" data-toggle="buttons"/>'}}),{Radio:n,RadioButton:i,Checkbox:r}}),define("mvc/ui/ui-button-menu",["utils/utils"],function(e){return Backbone.View.extend({optionsDefault:{id:"",title:"",floating:"right",icon:null,onclick:null,cls:"ui-button-icon ui-button-menu",tooltip:"",target:"",href:"",onunload:null,visible:!0,tag:""},$menu:null,initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement($(this._template(this.options)));var n=$(this.el).find(".root"),r=this;n.on("click",function(e){$(".tooltip").hide(),e.preventDefault(),r.options.onclick&&r.options.onclick()}),this.options.visible||this.hide(),n.tooltip({title:t.tooltip,placement:"bottom"})},show:function(){$(this.el).show()},hide:function(){$(this.el).hide()},addMenu:function(t){var n={title:"",target:"",href:"",onclick:null,divider:!1,icon:null,cls:"button-menu btn-group"};n=e.merge(t,n),this.$menu||($(this.el).append(this._templateMenu()),this.$menu=$(this.el).find(".menu"));var r=$(this._templateMenuItem(n));r.on("click",function(e){e.preventDefault(),n.onclick&&n.onclick()}),this.$menu.append(r),n.divider&&this.$menu.append($(this._templateDivider()))},_templateMenuItem:function(e){var t='<li><a class="dropdown-item" href="'+e.href+'" target="'+e.target+'">';return e.icon&&(t+='<i class="fa '+e.icon+'"></i>'),t+=" "+e.title+"</a>"+"</li>",t},_templateMenu:function(){return'<ul class="menu dropdown-menu pull-right" role="menu"></ul>'},_templateDivider:function(){return'<li class="divider"></li>'},_template:function(e){var t="",n="";e.title?t="width: auto;":n="margin: 0px;";var r='<div id="'+e.id+'" style="float: '+e.floating+"; "+t+'" class="dropdown '+e.cls+'">'+'<div class="root button dropdown-toggle" data-toggle="dropdown" style="'+n+'">'+'<i class="icon fa '+e.icon+'"/>';return e.title&&(r+=' <span class="title">'+e.title+"</span>"),r+="</div></div>",r}})}),define("mvc/ui/ui-misc",["utils/utils","mvc/ui/ui-select-default","mvc/ui/ui-slider","mvc/ui/ui-options","mvc/ui/ui-button-menu","mvc/ui/ui-modal"],function(e,t,n,r,i,s){var o=Backbone.View.extend({optionsDefault:{url:"",cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options))},_template:function(e){return'<img class="ui-image '+e.cls+'" src="'+e.url+'"/>'}}),u=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options))},title:function(e){this.$el.html(e)},_template:function(e){return'<label class="ui-label '+e.cls+'">'+e.title+"</label>"},value:function(){return options.title}}),a=Backbone.View.extend({optionsDefault:{floating:"right",icon:"",tooltip:"",placement:"bottom",title:"",cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),$(this.el).tooltip({title:t.tooltip,placement:"bottom"})},_template:function(e){return'<div><span class="fa '+e.icon+'" class="ui-icon"/> '+e.title+"</div>"}}),f=Backbone.View.extend({optionsDefault:{id:null,title:"",floating:"right",cls:"ui-button btn btn-default",icon:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),$(this.el).on("click",function(){$(".tooltip").hide(),t.onclick&&t.onclick()}),$(this.el).tooltip({title:t.tooltip,placement:"bottom"})},_template:function(e){var t='<button id="'+e.id+'" type="submit" style="float: '+e.floating+';" type="button" class="'+e.cls+'">';return e.icon&&(t+='<i class="icon fa '+e.icon+'"></i> '),t+=e.title+"</button>",t}}),l=Backbone.View.extend({optionsDefault:{id:null,title:"",floating:"right",cls:"ui-button-icon",icon:"",tooltip:"",onclick:null},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),this.$button=this.$el.find(".button");var n=this;$(this.el).on("click",function(){$(".tooltip").hide(),t.onclick&&!n.disabled&&t.onclick()}),$(this.el).tooltip({title:t.tooltip,placement:"bottom"})},disable:function(){this.$button.addClass("disabled"),this.disabled=!0},enable:function(){this.$button.removeClass("disabled"),this.disabled=!1},_template:function(e){var t="";e.title&&(t="width: auto;");var n='<div id="'+e.id+'" style="float: '+e.floating+"; "+t+'" class="'+e.cls+'">';return e.title?n+='<div class="button"><i class="icon fa '+e.icon+'"/> '+'<span class="title">'+e.title+"</span>"+"</div>":n+='<i class="icon fa '+e.icon+'"/>',n+="</div>",n}}),c=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),$(this.el).on("click",t.onclick)},_template:function(e){return'<div><a href="javascript:void(0)" class="ui-anchor '+e.cls+'">'+e.title+"</a></div>"}}),h=Backbone.View.extend({optionsDefault:{message:"",status:"info",persistent:!1},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement("<div></div>")},update:function(t){this.options=e.merge(t,this.optionsDefault);if(t.message!=""){this.$el.html(this._template(this.options)),this.$el.find(".alert").append(t.message),this.$el.fadeIn();if(!t.persistent){var n=this;window.setTimeout(function(){n.$el.is(":visible")?n.$el.fadeOut():n.$el.hide()},3e3)}}else this.$el.fadeOut()},_template:function(e){return'<div class="ui-message alert alert-'+e.status+'"/>'}}),p=Backbone.View.extend({optionsDefault:{onclick:null,searchword:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options));var n=this;this.options.onclick&&this.$el.on("submit",function(e){var t=n.$el.find("#search");n.options.onclick(t.val())})},_template:function(e){return'<div class="ui-search"><form onsubmit="return false;"><input id="search" class="form-control input-sm" type="text" name="search" placeholder="Search..." value="'+e.searchword+'">'+'<button type="submit" class="btn search-btn">'+'<i class="fa fa-search"></i>'+"</button>"+"</form>"+"</div>"}}),d=Backbone.View.extend({optionsDefault:{value:"",type:"text",placeholder:"",disabled:!1,visible:!0,cls:"",area:!1},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),this.options.disabled&&this.$el.prop("disabled",!0),this.options.visible||this.$el.hide();var n=this;this.$el.on("input",function(){n.options.onchange&&n.options.onchange(n.$el.val())})},value:function(e){return e!==undefined&&this.$el.val(e),this.$el.val()},_template:function(e){return e.area?'<textarea id="'+e.id+'" class="ui-textarea '+e.cls+'"></textarea>':'<input id="'+e.id+'" type="'+e.type+'" value="'+e.value+'" placeholder="'+e.placeholder+'" class="ui-input '+e.cls+'">'}}),v=Backbone.View.extend({optionsDefault:{value:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options))},value:function(e){return e!==undefined&&this.$el.val(e),this.$el.val()},_template:function(e){return'<hidden id="'+e.id+'" value="'+e.value+'"/>'}});return{Anchor:c,Button:f,ButtonIcon:l,ButtonMenu:i,Icon:a,Image:o,Input:d,Label:u,Message:h,Modal:s,RadioButton:r.RadioButton,Checkbox:r.Checkbox,Radio:r.Radio,Searchbox:p,Select:t,Hidden:v,Slider:n}}),define("plugin/library/jobs",["utils/utils"],function(e){return Backbone.Model.extend({initialize:function(t,n){this.app=t,this.options=e.merge(n,this.optionsDefault)},request:function(e,t,n,r,i){var s=this;e.state("wait","Requesting job results...");var o=e.get("dataset_id_job");o!=""?s._wait(e,r,i):s._submit(e,t,n,r,i)},cleanup:function(t){var n=this,r=t.get("dataset_id_job");r!=""&&(e.request({type:"PUT",url:config.root+"api/histories/none/contents/"+r,data:{deleted:!0},success:function(){n._refreshHdas()}}),t.set("dataset_id_job",""))},_submit:function(t,n,r,i,s){var o=this,u=t.id,a=t.get("type"),f=t.definition;data={tool_id:"charts",inputs:{input:{id:t.get("dataset_id"),src:"hda"},module:f.execute,columns:r,settings:n}},t.state("wait","Sending job request..."),e.request({type:"POST",url:config.root+"api/tools",data:data,success:function(e){if(!e.outputs||e.outputs.length==0)t.state("failed","Job submission failed. No response."),s&&s();else{o._refreshHdas();var n=e.outputs[0];t.state("wait","Your job has been queued. You may close the browser window. The job will run in the background."),t.set("dataset_id_job",n.id),o.app.storage.save(),o._wait(t,i,s)}},error:function(e){var n="";e&&e.message&&e.message.data&&e.message.data.input&&(n=e.message.data.input+"."),t.state("failed","This visualization requires the 'charts' tool. Please make sure it is installed. "+n),s&&s()}})},_wait:function(t,n,r){var i=this;e.request({type:"GET",url:config.root+"api/datasets/"+t.get("dataset_id_job"),data:{},success:function(e){var s=!1;switch(e.state){case"ok":t.state("wait","Job completed successfully..."),n&&n(e),s=!0;break;case"error":t.state("failed","Job has failed. Please check the history for details."),r&&r(e),s=!0;break;case"running":t.state("wait","Your job is running. You may close the browser window. The job will continue in the background.")}s||setTimeout(function(){i._wait(t,n,r)},i.app.config.get("query_timeout"))}})},_refreshHdas:function(){Galaxy&&Galaxy.currHistoryPanel&&Galaxy.currHistoryPanel.refreshContents()}})}),define("plugin/library/datasets",["utils/utils"],function(e){return Backbone.Collection.extend({list:{},cache:{},initialize:function(t,n){this.app=t,this.options=e.merge(n,this.optionsDefault)},request:function(e){e.groups?this._get_blocks(e):this._get_dataset(e.id,e.success,e.error)},_get_blocks:function(e){function c(i){l._get(i,function(){var s=!1;for(var o in e.groups){destination_group=e.groups[o],source_group=i.groups[o],destination_group.values||(destination_group.values=[]),destination_group.values=destination_group.values.concat(source_group.values);if(source_group.values.length==0){s=!0;break}}if(++f<u&&!s){n&&n(parseInt(f/u*100));var l=i.start+r;i=$.extend(!0,a,{start:l}),c(i)}else t()})}var t=e.success,n=e.progress,r=this.app.config.get("query_limit"),i=e.start||0,s=i+e.query_limit||i+this.app.config.get("query_limit"),o=Math.abs(s-i);if(o<=0){console.debug("FAILED - Datasets::request() - Invalid query range.");return}var u=Math.ceil(o/r)||1,a=$.extend(!0,{},e),f=0,l=this,h=$.extend(!0,a,{start:i});this._get_dataset(e.id,function(){c(h)})},_get_dataset:function(t,n,r){var i=this.list[t];if(i){n(i);return}var s=this;e.request({type:"GET",url:config.root+"api/datasets/"+t,success:function(e){switch(e.state){case"error":r&&r(e);break;default:s.list[t]=e,n(e)}}})},_block_id:function(e,t){return e.id+"_"+e.start+"_"+e.start+this.app.config.get("query_limit")+"_"+t},_get:function(e,t){e.start=e.start||0;var n=[],r={},i=0;for(var s in e.groups){var o=e.groups[s];for(var u in o.columns){var a=o.columns[u].index,f=this._block_id(e,a);if(this.cache[f]||a==="auto"||a==="zero")continue;!r[a]&&a!==undefined&&(r[a]=i,n.push(a),i++)}}if(n.length==0){this._fill_from_cache(e),t(e);return}var l={dataset_id:e.id,start:e.start,columns:n},c=this;this._fetch(l,function(r){for(var i in r){var s=n[i],o=c._block_id(e,s);c.cache[o]=r[i]}c._fill_from_cache(e),t(e)})},_fill_from_cache:function(e){var t=e.start;console.debug("Datasets::_fill_from_cache() - Filling request from cache at "+t+".");var n=0;for(var r in e.groups){var i=e.groups[r];for(var s in i.columns){var o=i.columns[s],u=this._block_id(e,o.index),a=this.cache[u];a&&(n=Math.max(n,a.length))}}n==0&&console.debug("Datasets::_fill_from_cache() - Reached data range limit.");for(var r in e.groups){var i=e.groups[r];i.values=[];for(var f=0;f<n;f++)i.values[f]={x:parseInt(f)+t}}for(var r in e.groups){var i=e.groups[r];for(var s in i.columns){var o=i.columns[s];switch(o.index){case"auto":for(var f=0;f<n;f++){var l=i.values[f];l[s]=parseInt(f)+t}break;case"zero":for(var f=0;f<n;f++){var l=i.values[f];l[s]=0}break;default:var u=this._block_id(e,o.index),a=this.cache[u];for(var f=0;f<n;f++){var l=i.values[f],c=a[f];isNaN(c)&&!o.is_label&&(c=0),l[s]=c}}}}},_fetch:function(t,n){var r=t.start?t.start:0,i=this.app.config.get("query_limit"),s=0;t.columns&&(s=t.columns.length,console.debug("Datasets::_fetch() - Fetching "+s+" column(s) at "+r+".")),s==0&&console.debug("Datasets::_fetch() - No columns requested");var o="";for(var u in t.columns)o+=t.columns[u]+",";o=o.substring(0,o.length-1);var a=this;e.request({type:"GET",url:config.root+"api/datasets/"+t.dataset_id,data:{data_type:"raw_data",provider:"dataset-column",limit:i,offset:r,indeces:o},success:function(e){var t=new Array(s);for(var r=0;r<s;r++)t[r]=[];for(var r in e.data){var i=e.data[r];for(var o in i){var u=i[o];u!==undefined&&u!=2147483647&&t[o].push(u)}}console.debug("Datasets::_fetch() - Fetching complete."),n(t)}})}})}),define("plugin/models/group",[],function(){return Backbone.Model.extend({defaults:{key:"Data label",date:""},reset:function(){this.clear({silent:!0}).set(this.defaults),this.trigger("reset",this)}})}),define("plugin/models/groups",["plugin/models/group"],function(e){return Backbone.Collection.extend({model:e})}),define("plugin/models/chart",["plugin/models/groups"],function(e){return Backbone.Model.extend({defaults:{id:null,title:"",type:"",date:null,state:"",state_info:"",modified:!1,dataset_id:"",dataset_id_job:""},initialize:function(t){this.groups=new e,this.settings=new Backbone.Model},reset:function(){this.clear({silent:!0}).set(this.defaults),this.groups.reset(),this.settings.clear(),this.trigger("reset",this)},copy:function(e){var t=this;t.clear({silent:!0}).set(this.defaults),t.set(e.attributes),t.settings=e.settings.clone(),t.groups.reset(),e.groups.each(function(e){t.groups.add(e.clone())}),t.trigger("change",t)},state:function(e,t){this.set("state",e),this.set("state_info",t),this.trigger("set:state"),console.debug("Chart:state() - "+t+" ("+e+")")}})});var Visualization=Backbone.Model.extend({defaults:{config:{}},urlRoot:function(){var e="/api/visualizations";return window.galaxy_config&&galaxy_config.root?galaxy_config.root+e:e},initialize:function(e){_.isObject(e.config)&&_.isObject(this.defaults.config)&&_.defaults(e.config,this.defaults.config),this._setUpListeners()},_setUpListeners:function(){},set:function(e,t){if(e==="config"){var n=this.get("config");_.isObject(n)&&(t=_.extend(_.clone(n),t))}return Backbone.Model.prototype.set.call(this,e,t),this},toString:function(){var e=this.get("id")||"";return this.get("title")&&(e+=":"+this.get("title")),"Visualization("+e+")"}}),VisualizationCollection=Backbone.Collection.extend({model:Visualization,url:function(){return galaxy_config.root+"api/visualizations"},initialize:function(e,t){t=t||{}},set:function(e,t){var n=this;e=_.map(e,function(e){var t=n.get(e.id);if(!t)return e;var r=t.toJSON();return _.extend(r,e),r}),Backbone.Collection.prototype.set.call(this,e,t)},toString:function(){return["VisualizationCollection(",[this.historyId,this.length].join(),")"].join("")}});define("mvc/visualization/visualization-model",function(){}),define("plugin/library/storage",["utils/utils","plugin/models/chart","plugin/models/group","mvc/visualization/visualization-model"],function(e,t,n){return Backbone.Model.extend({vis:null,initialize:function(e){this.app=e,this.chart=this.app.chart,this.options=this.app.options,this.id=this.options.id,this.vis=new Visualization({type:"charts",config:{dataset_id:this.options.config.dataset_id,chart_dict:{}}}),this.id&&(this.vis.id=this.id);var t=this.options.config.chart_dict;t&&(this.vis.get("config").chart_dict=t)},save:function(){var e=this.app.chart;this.vis.get("config").chart_dict={};var t=e.get("title");t!=""&&this.vis.set("title",t);var n={attributes:e.attributes,settings:e.settings.attributes,groups:[]};e.groups.each(function(e){n.groups.push(e.attributes)}),this.vis.get("config").chart_dict=n;var r=this;this.vis.save().fail(function(e,t,n){console.error(e,t,n)}).then(function(e){e&&e.id&&(r.id=e.id)})},load:function(){var e=this.vis.get("config").chart_dict;if(!e.attributes)return!1;var t=e.attributes.type;if(!t)return console.debug("Storage::load() - Chart type not provided. Invalid format."),!1;var r=this.app.types.get(t);if(!r)return console.debug("Storage::load() - Chart type not supported. Please re-configure the chart. Resetting chart."),!1;console.debug("Storage::load() - Loading chart type "+t+"."),this.chart.definition=r,this.chart.set(e.attributes),this.chart.state("ok","Loading saved visualization..."),this.chart.settings.set(e.settings);for(var i in e.groups)this.chart.groups.add(new n(e.groups[i]));return this.chart.set("modified",!1),!0}})}),define("utils/deferred",["utils/utils"],function(e){return Backbone.Model.extend({queue:[],process:{},counter:0,initialize:function(){this.on("refresh",function(){if(this.queue.length>0&&this.ready()){var e=this.queue[0];this.queue.splice(0,1),e&&e()}})},execute:function(e){this.queue.push(e),this.trigger("refresh")},register:function(){var t=e.uuid();return this.process[t]=!0,this.counter++,console.debug("Deferred:register() - Registering "+t),t},done:function(e){this.process[e]&&(delete this.process[e],this.counter--,console.debug("Deferred:done() - Unregistering "+e),this.trigger("refresh"))},reset:function(){this.queue=[]},ready:function(){return this.counter==0}})}),define("plugin/views/viewport",["mvc/ui/ui-portlet","mvc/ui/ui-misc","utils/utils"],function(e,t,n){return Backbone.View.extend({container_list:[],canvas_list:[],initialize:function(e,t){this.app=e,this.chart=this.app.chart,this.options=n.merge(t,this.optionsDefault),this.setElement($(this._template())),this._fullscreen(this.$el,100),this._createContainer("div");var r=this;this.chart.on("redraw",function(){r._draw(r.chart)}),this.chart.on("set:state",function(){var e=r.$el.find("#info"),t=r.$el.find(".charts-viewport-container"),n=e.find("#icon");n.removeClass(),e.show(),e.find("#text").html(r.chart.get("state_info"));var i=r.chart.get("state");switch(i){case"ok":e.hide(),t.show();break;case"failed":n.addClass("icon fa fa-warning"),t.hide();break;default:n.addClass("icon fa fa-spinner fa-spin"),t.show()}})},show:function(){this.$el.show()},hide:function(){this.$el.hide()},_fullscreen:function(e,t){e.css("height",$(window).height()-t),$(window).resize(function(){e.css("height",$(window).height()-t)})},_createContainer:function(e,t){t=t||1;for(var n in this.container_list)this.container_list[n].remove();this.container_list=[],this.canvas_list=[];for(var n=0;n<t;n++){var r=$(this._templateContainer(e,parseInt(100/t)));this.$el.append(r),this.container_list[n]=r,this.canvas_list[n]=r.find(".charts-viewport-canvas").attr("id")}},_draw:function(e){var t=this,n=this.app.deferred.register(),r=e.get("type");this.chart_definition=e.definition;var i=1;e.settings.get("use_panels")==="true"&&(i=e.groups.length),this._createContainer(this.chart_definition.tag,i),e.state("wait","Please wait...");if(!this.chart_definition.execute||this.chart_definition.execute&&e.get("modified"))this.app.jobs.cleanup(e),e.set("modified",!1);var t=this;require(["plugin/charts/"+this.app.chartPath(r)+"/wrapper"],function(r){if(t.chart_definition.execute)t.app.jobs.request(e,t._defaultSettingsString(e),t._defaultRequestString(e),function(){var i=new r(t.app,{process_id:n,chart:e,request_dictionary:t._defaultRequestDictionary(e),canvas_list:t.canvas_list})},function(){this.app.deferred.done(n)});else var i=new r(t.app,{process_id:n,chart:e,request_dictionary:t._defaultRequestDictionary(e),canvas_list:t.canvas_list})})},_defaultRequestString:function(e){var t="",n=0,r=this;return e.groups.each(function(e){n++;for(var i in r.chart_definition.columns)t+=i+"_"+n+":"+(parseInt(e.get(i))+1)+", "}),t.substring(0,t.length-2)},_defaultSettingsString:function(e){var t="";for(key in e.settings.attributes)t+=key+":"+e.settings.get(key)+", ";return t.substring(0,t.length-2)},_defaultRequestDictionary:function(e){var t={groups:[]};this.chart_definition.execute?t.id=e.get("dataset_id_job"):t.id=e.get("dataset_id");var r=0,i=this;return e.groups.each(function(e){var s={};for(var o in i.chart_definition.columns){var u=i.chart_definition.columns[o];s[o]=n.merge({index:e.get(o)},u)}t.groups.push({key:++r+":"+e.get("key"),columns:s})}),t},_template:function(){return'<div class="charts-viewport"><div id="info" class="info"><span id="icon" class="icon"/><span id="text" class="text" /></div></div>'},_templateContainer:function(e,t){return'<div class="charts-viewport-container" style="width:'+t+'%;">'+'<div id="menu"/>'+"<"+e+' id="'+n.uuid()+'" class="charts-viewport-canvas">'+"</div>"}})}),define("plugin/library/screenshot",["libs/underscore"],function(e){function t(e){e.$el.find("svg").length>0?r(e):n(e)}function n(e){try{var t=e.$el.find(".jqplot-target"),n=t.jqplotToImageStr({});n&&(window.location.href=n.replace("image/png","image/octet-stream"))}catch(r){console.debug("FAILED - Screenshot::_fromCanvas() - "+r),e.error&&e.error("Please reduce your chart to a single panel and try again.")}}function r(e){var t=e.$el,n=e.url,r=e.name,s=new XMLSerializer,o=document.createElement("canvas"),u=$(o),a=t.find("svg").length,f=t.find("svg").first(),l=parseInt(f.css("height")),c=parseInt(f.css("width"));u.attr("width",c*a),u.attr("height",l),(!o.getContext||!o.getContext("2d"))&&alert("Your browser doesn't support this feature, please use a modern browser");var h=o.getContext("2d"),p=0;t.find("svg").each(function(){var e=$(this);e.attr({version:"1.1",xmlns:"http://www.w3.org/2000/svg",width:c,height:l});var t=s.serializeToString(this);h.drawSvg(t,p,0,c,l),p+=c}),window.location.href=i(o,o.getContext("2d"),"white").replace("image/png","image/octet-stream")}function i(e,t,n){var r=e.width,i=e.height,s;if(n){s=t.getImageData(0,0,r,i);var o=t.globalCompositeOperation;t.globalCompositeOperation="destination-over",t.fillStyle=n,t.fillRect(0,0,r,i)}var u=e.toDataURL("image/png");return n&&(t.clearRect(0,0,r,i),t.putImageData(s,0,0),t.globalCompositeOperation=o),u}function s(e){window.location.href="data:none/none;base64,"+btoa(a(e).string)}function o(e){for(var t in document.styleSheets){var n=document.styleSheets[t],r=n.cssRules;if(r)for(var i=0,s=r.length;i<s;i++)try{e.find(r[i].selectorText).each(function(e,t){t.style.cssText+=r[i].style.cssText})}catch(o){}}}function u(e){var t=a(e),n={filename:name||"chart",type:"application/pdf",height:t.height,width:t.width,scale:2,svg:t.string},r=$("body"),i=r.find("#viewport-form");i.length===0&&(i=$("<form>",{id:"viewport-form",method:"post",action:"http://export.highcharts.com/",display:"none"}),r.append(i)),i.empty();for(name in n){var s=$("<input/>",{type:"hidden",name:name,value:n[name]});i.append(s)}try{i.submit()}catch(o){console.log(o)}}function a(e){if(e.$el.find("svg").length==0&&e.error){e.error("No SVG found. This chart type does not support SVG/PDF export.");return}var t=e.$el,n=t.find("svg").length,r=parseInt(t.find("svg").first().css("height")),i=parseInt(t.find("svg").first().css("width")),s=new XMLSerializer,u=$("<svg/>");u.attr({version:"1.1",xmlns:"http://www.w3.org/2000/svg",width:i*n,height:r});var a="",f=0;return t.find("svg").each(function(){var e=$(this).clone();o(e);var t=$('<g transform="translate('+f+', 0)">');t.append(e.find("g").first()),u.append(t),f+=i}),{string:s.serializeToString(u[0]),height:r,width:i}}return{createPNG:t,createSVG:s,createPDF:u}}),define("plugin/views/viewer",["utils/utils","mvc/ui/ui-misc","mvc/ui/ui-portlet","plugin/views/viewport","plugin/library/screenshot"],function(e,t,n,r,i){return Backbone.View.extend({initialize:function(e,s){this.app=e,this.chart=this.app.chart,this.viewport_view=new r(e);var o=this;this.message=new t.Message;var u=new t.ButtonMenu({icon:"fa-camera",title:"Screenshot",tooltip:"Download as PNG, SVG or PDF file"});u.addMenu({id:"button-png",title:"Save as PNG",icon:"fa-file",onclick:function(){o._wait(o.chart,function(){i.createPNG({$el:o.viewport_view.$el,title:o.chart.get("title"),error:function(e){o.message.update({message:e,status:"danger"})}})})}}),u.addMenu({id:"button-svg",title:"Save as SVG",icon:"fa-file-text-o",onclick:function(){o._wait(o.chart,function(){i.createSVG({$el:o.viewport_view.$el,title:o.chart.get("title"),error:function(e){o.message.update({message:e,status:"danger"})}})})}}),u.addMenu({id:"button-png",title:"Save as PDF",icon:"fa-file-o",onclick:function(){o.app.modal.show({title:"Send chart data for PDF creation",body:"Galaxy does not provide integrated PDF export scripts. You may click 'Continue' to create the PDF by using a 3rd party service (https://export.highcharts.com)",buttons:{Cancel:function(){o.app.modal.hide()},Continue:function(){o.app.modal.hide(),o._wait(o.chart,function(){i.createPDF({$el:o.viewport_view.$el,title:o.chart.get("title"),error:function(e){o.message.update({message:e,status:"danger"})}})})}}})}}),this.portlet=new n.View({icon:"fa-bar-chart-o",title:"Viewport",scrollable:!1,operations:{edit_button:new t.ButtonIcon({icon:"fa-edit",tooltip:"Customize this chart",title:"Editor",onclick:function(){o._wait(o.chart,function(){o.app.go("editor")})}}),picture_button_menu:u}}),this.portlet.append(this.message.$el),this.portlet.append(this.viewport_view.$el),this.setElement(this.portlet.$el);var o=this;this.chart.on("change:title",function(){o._refreshTitle()})},show:function(){this.$el.show(),$(window).trigger("resize")},hide:function(){this.$el.hide()},_refreshTitle:function(){var e=this.chart.get("title");this.portlet.title(e)},_wait:function(e,t){this.app.deferred.ready()?t():this.message.update({message:"Your chart is currently being processed. Please wait and try again."})}})}),define("mvc/ui/ui-tabs",["utils/utils"],function(e){var t=Backbone.View.extend({optionsDefault:{title_new:"",operations:null,onnew:null,max:null,onchange:null},initialize:function(t){this.visible=!1,this.$nav=null,this.$content=null,this.first_tab=null,this.current_id=null,this.options=e.merge(t,this.optionsDefault);var n=$(this._template(this.options));this.$nav=n.find(".tab-navigation"),this.$content=n.find(".tab-content"),this.setElement(n),this.list={};var r=this;this.options.operations&&$.each(this.options.operations,function(e,t){t.$el.prop("id",e),r.$nav.find(".operations").append(t.$el)});if(this.options.onnew){var i=$(this._template_tab_new(this.options));this.$nav.append(i),i.tooltip({title:"Add a new tab",placement:"bottom",container:r.$el}),i.on("click",function(e){i.tooltip("hide"),r.options.onnew()})}},size:function(){return _.size(this.list)},current:function(){return this.$el.find(".tab-pane.active").attr("id")},add:function(e){var t=this,n=e.id,r=$(this._template_tab(e)),i=$(this._template_tab_content(e));this.list[n]=e.ondel?!0:!1,this.options.onnew?this.$nav.find("#new-tab").before(r):this.$nav.append(r),i.append(e.$el),this.$content.append(i),this.size()==1&&(r.addClass("active"),i.addClass("active"),this.first_tab=n),this.options.max&&this.size()>=this.options.max&&this.$el.find("#new-tab").hide();if(e.ondel){var s=r.find("#delete");s.tooltip({title:"Delete this tab",placement:"bottom",container:t.$el}),s.on("click",function(){return s.tooltip("destroy"),t.$el.find(".tooltip").remove(),e.ondel(),!1})}r.on("click",function(r){r.preventDefault(),e.onclick?e.onclick():t.show(n)}),this.current_id||(this.current_id=n)},del:function(e){this.$el.find("#tab-"+e).remove(),this.$el.find("#"+e).remove(),this.first_tab==e&&(this.first_tab=null),this.first_tab!=null&&this.show(this.first_tab),this.list[e]&&delete this.list[e],this.size()<this.options.max&&this.$el.find("#new-tab").show()},delRemovable:function(){for(var e in this.list)this.del(e)},show:function(e){this.$el.fadeIn("fast"),this.visible=!0,e&&(this.$el.find("#tab-"+this.current_id).removeClass("active"),this.$el.find("#"+this.current_id).removeClass("active"),this.$el.find("#tab-"+e).addClass("active"),this.$el.find("#"+e).addClass("active"),this.current_id=e),this.options.onchange&&this.options.onchange(e)},hide:function(){this.$el.fadeOut("fast"),this.visible=!1},hideOperation:function(e){this.$nav.find("#"+e).hide()},showOperation:function(e){this.$nav.find("#"+e).show()},setOperation:function(e,t){var n=this.$nav.find("#"+e);n.off("click"),n.on("click",t)},title:function(e,t){var n=this.$el.find("#tab-title-text-"+e);return t&&n.html(t),n.html()},retitle:function(e){var t=0;for(var n in this.list)this.title(n,++t+": "+e)},_template:function(e){return'<div class="ui-tabs tabbable tabs-left"><ul id="tab-navigation" class="tab-navigation nav nav-tabs"><div class="operations" style="float: right; margin-bottom: 4px;"></div></ul><div id="tab-content" class="tab-content"/></div>'},_template_tab_new:function(e){return'<li id="new-tab"><a href="javascript:void(0);"><i class="ui-tabs-add fa fa-plus-circle"/>'+e.title_new+"</a>"+"</li>"},_template_tab:function(e){var t='<li id="tab-'+e.id+'" class="tab-element">'+'<a id="tab-title-link-'+e.id+'" title="" href="#'+e.id+'" data-original-title="">'+'<span id="tab-title-text-'+e.id+'" class="tab-title-text">'+e.title+"</span>";return e.ondel&&(t+='<i id="delete" class="ui-tabs-delete fa fa-minus-circle"/>'),t+="</a></li>",t},_template_tab_content:function(e){return'<div id="'+e.id+'" class="tab-pane"/>'}});return{View:t}}),define("mvc/ui/ui-table",["utils/utils"],function(e){var t=Backbone.View.extend({row:null,row_count:0,optionsDefault:{content:"No content available.",onchange:null,ondblclick:null,onconfirm:null,cls:"ui-table",cls_tr:""},events:{click:"_onclick",dblclick:"_ondblclick"},initialize:function(t){this.options=e.merge(t,this.optionsDefault);var n=$(this._template(this.options));this.$thead=n.find("thead"),this.$tbody=n.find("tbody"),this.$tmessage=n.find("tmessage"),this.setElement(n),this.row=this._row()},addHeader:function(e){var t=$("<th></th>");t.append(e),this.row.append(t)},appendHeader:function(){this.$thead.append(this.row),this.row=$("<tr></tr>")},add:function(e,t,n){var r=$("<td></td>");t&&r.css("width",t),n&&r.css("text-align",n),r.append(e),this.row.append(r)},append:function(e,t){this._commit(e,t,!1)},prepend:function(e,t){this._commit(e,t,!0)},get:function(e){return this.$el.find("#"+e)},del:function(e){var t=this.$tbody.find("#"+e);t.length>0&&(t.remove(),this.row_count--,this._refresh())},delAll:function(){this.$tbody.empty(),this.row_count=0,this._refresh()},value:function(e){this.before=this.$tbody.find(".current").attr("id"),e!==undefined&&(this.$tbody.find("tr").removeClass("current"),e&&this.$tbody.find("#"+e).addClass("current"));var t=this.$tbody.find(".current").attr("id");return t===undefined?null:(t!=this.before&&this.options.onchange&&this.options.onchange(e),t)},size:function(){return this.$tbody.find("tr").length},_commit:function(e,t,n){this.del(e),this.row.attr("id",e),n?this.$tbody.prepend(this.row):this.$tbody.append(this.row),t&&(this.row.hide(),this.row.fadeIn()),this.row=this._row(),this.row_count++,this._refresh()},_row:function(){return $('<tr class="'+this.options.cls_tr+'"></tr>')},_onclick:function(e){var t=this.value(),n=$(e.target).closest("tr").attr("id");n!=""&&n&&t!=n&&(this.options.onconfirm?this.options.onconfirm(n):this.value(n))},_ondblclick:function(e){var t=this.value();t&&this.options.ondblclick&&this.options.ondblclick(t)},_refresh:function(){this.row_count==0?this.$tmessage.show():this.$tmessage.hide()},_template:function(e){return'<div><table class="'+e.cls+'">'+"<thead></thead>"+"<tbody></tbody>"+"</table>"+"<tmessage>"+e.content+"</tmessage>"+"<div>"}});return{View:t}}),define("plugin/views/group",["mvc/ui/ui-table","mvc/ui/ui-misc","utils/utils"],function(e,t,n){return Backbone.View.extend({initialize:function(r,i){this.app=r;var s=this;this.chart=this.app.chart,this.group=i.group,this.group_key=new t.Input({placeholder:"Data label",onchange:function(e){s.group.set("key",e)}}),this.table=new e.View({content:"No data column."});var o=$("<div/>");o.append(n.wrap((new t.Label({title:"Provide a label:"})).$el)),o.append(n.wrap(this.group_key.$el)),o.append(n.wrap((new t.Label({title:"Select columns:"})).$el)),o.append(n.wrap(this.table.$el)),this.setElement(o);var s=this;this.chart.on("change:dataset_id",function(){s._refreshTable()}),this.chart.on("change:type",function(){s._refreshTable()}),this.group.on("change:key",function(){s._refreshGroupKey()}),this.group.on("change",function(){s._refreshGroup()}),this._refreshTable(),this._refreshGroupKey(),this._refreshGroup()},_refreshTable:function(){var e=this.chart.get("dataset_id"),n=this.chart.get("type");if(!e||!n)return;var r=this,i=this.chart.definition;this.table.delAll();var s={};for(var o in i.columns){var u=i.columns[o];if(!u){console.debug("Group::_refreshTable() - Skipping column definition.");continue}var a=new t.Select.View({id:"select_"+o,wait:!0}),f=u.title;u.is_unique&&(f+=" (all data labels)"),this.table.add(f,"25%"),this.table.add(a.$el),this.table.append(o),s[o]=a}this.chart.state("wait","Loading metadata...");var l=this.app.deferred.register(),c={id:e,success:function(e){for(var t in s)r._addRow(t,e,s,i.columns[t]);r.chart.state("ok","Metadata initialized..."),r.app.deferred.done(l)}};this.app.datasets.request(c)},_addRow:function(e,t,n,r){var i=this,s=r.is_label,o=r.is_auto,u=r.is_numeric,a=r.is_unique,f=r.is_zero,l=[],c=n[e];o&&l.push({label:"Column: Row Number",value:"auto"}),f&&l.push({label:"Column: None",value:"zero"});var h=t.metadata_column_types;for(var p in h){var d=!1;h[p]=="int"||h[p]=="float"?d=u:d=s,d&&l.push({label:"Column: "+(parseInt(p)+1)+" ["+h[p]+"]",value:p})}c.update(l),a&&this.chart.groups.first()&&this.group.set(e,this.chart.groups.first().get(e));if(!c.exists(this.group.get(e))){var v=c.first();console.debug('Group()::_addRow() - Switching model value from "'+this.group.get(e)+'" to "'+v+'".'),this.group.set(e,v)}c.value(this.group.get(e)),this.group.off("change:"+e),this.group.on("change:"+e,function(){c.value(i.group.get(e))}),c.setOnChange(function(t){a?i.chart.groups.each(function(n){n.set(e,t)}):i.group.set(e,t),i.chart.set("modified",!0)}),c.show()},_refreshGroup:function(){this.group.set("date",n.time())},_refreshGroupKey:function(){var e=this.group.get("key");e===undefined&&(e=""),this.group_key.value(e)}})}),define("plugin/library/ui-table-form",["mvc/ui/ui-table","mvc/ui/ui-misc","utils/utils"],function(e,t,n){var r=Backbone.View.extend({optionsDefault:{title:"",content:"",mode:""},list:[],initialize:function(r,i){this.app=r,this.options=n.merge(i,this.optionsDefault),this.table_title=new t.Label({title:this.options.title}),this.table=new e.View({content:this.options.content});var s=$('<div class="ui-table-form"/>');this.options.title&&s.append(n.wrap(this.table_title.$el)),s.append(n.wrap(this.table.$el)),this.setElement(s)},title:function(e){this.table_title.title(e)},update:function(e,t){this.table.delAll(),this.list=[];for(var n in e)this._add(e[n].id||n,e[n],t);for(var n in this.list)this.list[n].trigger("change")},_add:function(e,n,r){var i=this,s=null,o=n.type;switch(o){case"text":s=new t.Input({id:"field-"+e,placeholder:n.placeholder,value:r.get(e),onchange:function(t){r.set(e,t)}});break;case"radiobutton":s=new t.RadioButton.View({id:"field-"+e,data:n.data,value:r.get(e),onchange:function(t){r.set(e,t);var s=_.findWhere(n.data,{value:t});if(s&&s.operations){var o=s.operations;for(var u in o.show){var a=o.show[u];i.table.get(a).show()}for(var u in o.hide){var a=o.hide[u];i.table.get(a).hide()}}}});break;case"select":s=new t.Select.View({id:"field-"+e,data:n.data,value:r.get(e),onchange:function(t){r.set(e,t);var s=_.findWhere(n.data,{value:t});if(s&&s.operations){var o=s.operations;for(var u in o.show){var a=o.show[u];i.table.get(a).show()}for(var u in o.hide){var a=o.hide[u];i.table.get(a).hide()}}}});break;case"dataset":s=new t.Select.View({id:"field-"+e,onchange:function(t){r.set(e,t)}}),i.app.datasets.on("all",function(){var t=[];i.app.datasets.each(function(e){e.get("datatype_id")==n.data&&t.push({value:e.get("id"),label:e.get("name")})}),s.update(t),r.get(e)||r.set(e,s.first()),s.value(r.get(e))}),i.app.datasets.trigger("all.datasets");break;case"textarea":s=new t.Textarea({id:"field-"+e,onchange:function(){r.set(e,s.value())}});break;case"separator":s=$("<div/>");break;default:s=new t.Input({id:"field-"+e,placeholder:n.placeholder,type:n.type,onchange:function(){r.set(e,s.value())}})}if(o!="separator"){r.get(e)||r.set(e,n.init),s.value(r.get(e)),this.list[e]=s;var u=$("<div/>");u.append(s.$el),n.info&&u.append('<div 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o=i.pos[0]+(s.offsetLeft||0),u=i.pos[1]+(s.offsetTop||0),f=i.pos[0]+(s.offsetLeft||0),l=p.range()[0]+a.top+(s.offsetTop||0),c=h.range()[0]+a.left+(s.offsetLeft||0),d=i.pos[1]+(s.offsetTop||0),v=n.tickFormat()(t.x()(i.point,i.pointIndex)),m=r.tickFormat()(t.y()(i.point,i.pointIndex));T!=null&&e.tooltip.show([f,l],T(i.series.key,v,m,i,B),"n",1,s,"x-nvtooltip"),N!=null&&e.tooltip.show([c,d],N(i.series.key,v,m,i,B),"e",1,s,"y-nvtooltip"),C!=null&&e.tooltip.show([o,u],C(i.series.key,v,m,i.point.tooltip,i,B),i.value<0?"n":"s",null,s)},H=[{key:"Magnify",disabled:!0}];return t.dispatch.on("elementMouseout.tooltip",function(e){A.tooltipHide(e),d3.select(".nv-chart-"+t.id()+" .nv-series-"+e.seriesIndex+" .nv-distx-"+e.pointIndex).attr("y1",0),d3.select(".nv-chart-"+t.id()+" .nv-series-"+e.seriesIndex+" 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v.size(2.2).sizeDomain([2.2,2.2]),v.dispatch.on("elementClick.area",function(e){m.areaClick(e)}),v.dispatch.on("elementMouseover.tooltip",function(e){e.pos=[e.pos[0]+t.left,e.pos[1]+t.top],m.tooltipShow(e)}),v.dispatch.on("elementMouseout.tooltip",function(e){m.tooltipHide(e)}),g.dispatch=m,g.scatter=v,d3.rebind(g,v,"interactive","size","xScale","yScale","zScale","xDomain","yDomain","xRange","yRange","sizeDomain","forceX","forceY","forceSize","clipVoronoi","useVoronoi","clipRadius","highlightPoint","clearHighlights"),g.options=e.utils.optionsFunc.bind(g),g.x=function(e){return arguments.length?(o=d3.functor(e),g):o},g.y=function(e){return arguments.length?(u=d3.functor(e),g):u},g.margin=function(e){return arguments.length?(t.top=typeof e.top!="undefined"?e.top:t.top,t.right=typeof e.right!="undefined"?e.right:t.right,t.bottom=typeof e.bottom!="undefined"?e.bottom:t.bottom,t.left=typeof e.left!="undefined"?e.left:t.left,g):t},g.width=function(e){return 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t=Backbone.View.extend({visible:!1,optionsDefault:{title:"",icon:"",buttons:null,body:null,scrollable:!0,nopadding:!1,operations:null,placement:"bottom",cls:"ui-portlet",operations_flt:"right"},$title:null,$content:null,$buttons:null,$operations:null,initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),this.$content=this.$el.find("#content"),this.$title=this.$el.find("#portlet-title-text");var n=this.$el.find("#portlet-content");this.options.scrollable?n.addClass("scroll"):this.options.title?n.addClass("no-scroll"):n.addClass("no-scroll-no-title"),this.options.nopadding&&(n.css("padding","0px"),this.$content.css("padding","0px")),this.$buttons=$(this.el).find("#buttons");if(this.options.buttons){var r=this;$.each(this.options.buttons,function(e,t){t.$el.prop("id",e),r.$buttons.append(t.$el)})}else this.$buttons.remove();this.$operations=$(this.el).find("#operations");if(this.options.operations){var r=this;$.each(this.options.operations,function(e,t){t.$el.prop("id",e),r.$operations.append(t.$el)})}this.options.body&&this.append(this.options.body)},append:function(t,n){n?this.$content.append(t):this.$content.append(e.wrap(t))},content:function(){return this.$content},show:function(){this.$el.fadeIn("fast"),this.visible=!0},hide:function(){this.$el.fadeOut("fast"),this.visible=!1},enableButton:function(e){this.$buttons.find("#"+e).prop("disabled",!1)},disableButton:function(e){this.$buttons.find("#"+e).prop("disabled",!0)},hideOperation:function(e){this.$operations.find("#"+e).hide()},showOperation:function(e){this.$operations.find("#"+e).show()},setOperation:function(e,t){var n=this.$operations.find("#"+e);n.off("click"),n.on("click",t)},title:function(e){var t=this.$title;return e&&t.html(e),t.html()},_template:function(e){var t='<div id="'+e.id+'" class="'+e.cls+'">';return e.title&&(t+='<div id="portlet-header" class="portlet-header"><div id="operations" style="float: 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available",visible:!0,wait:!1,multiple:!1,searchable:!1},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),this.$select=this.$el.find(".select"),this.$icon=this.$el.find(".icon"),this.$button=this.$el.find(".button"),this.options.multiple?(this.$select.prop("multiple",!0),this.$select.addClass("ui-select-multiple"),this.$icon.remove()):this.$el.addClass("ui-select"),this.update(this.options.data),this.options.value!==undefined&&this.value(this.options.value),this.options.visible||this.hide(),this.options.wait?this.wait():this.show();var n=this;this.$select.on("change",function(){n._change()}),this.on("change",function(){n._change()})},value:function(e){return e!==undefined&&(this.$select.val(e),this.$select.select2&&this.$select.select2("val",e)),this.$select.val()},first:function(){var e=this.$select.find("option");return e.length>0?e.val():undefined},validate:function(){var e=this.value();e instanceof 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e)this.$select.append(this._templateOption(e[n]));this._refresh(),this.$select.val(t),this.$select.val()||this.$select.val(this.first()),this.options.searchable&&(this.$button.hide(),this.$select.select2("destroy"),this.$select.select2())},setOnChange:function(e){this.options.onchange=e},exists:function(e){return this.$select.find('option[value="'+e+'"]').length>0},_change:function(){this.options.onchange&&this.options.onchange(this.$select.val())},_refresh:function(){this.$select.find("option[value=null]").remove();var e=this.$select.find("option").length;e==0?(this.disable(),this.$select.append(this._templateOption({value:"null",label:this.options.error_text}))):this.enable()},_templateOption:function(e){return'<option value="'+e.value+'">'+e.label+"</option>"},_template:function(e){return'<div id="'+e.id+'">'+'<select id="select" class="select '+e.cls+" "+e.id+'"></select>'+'<div class="button">'+'<i class="icon"/>'+"</div>"+"</div>"}});return{View:t}}),define("mvc/ui/ui-slider",["utils/utils"],function(e){var t=Backbone.View.extend({optionsDefault:{min:null,max:null,step:null,precise:!1,split:1e4},initialize:function(t){var n=this;this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),this.useslider=this.options.max!==null&&this.options.min!==null&&this.options.max>this.options.min,this.options.step===null&&(this.options.step=1,this.options.precise&&this.useslider&&(this.options.step=(this.options.max-this.options.min)/this.options.split)),this.useslider?(this.$slider=this.$el.find("#slider"),this.$slider.slider(this.options),this.$slider.on("slide",function(e,t){n.value(t.value)})):this.$el.find(".ui-form-slider-text").css("width","100%"),this.$text=this.$el.find("#text"),this.options.value!==undefined&&this.value(this.options.value),this.$text.on("change",function(){n.value($(this).val())});var r=[];this.$text.on("keyup",function(e){r[e.which]=!1}),this.$text.on("keydown",function(e){var t=e.which;r[t]=!0,t==8||t==9||t==13||t==37||t==39||t>=48&&t<=57||t==190&&$(this).val().indexOf(".")==-1&&n.options.precise||t==189&&$(this).val().indexOf("-")==-1||r[91]||r[17]||event.preventDefault()})},value:function(e){return e!==undefined&&(isNaN(e)&&(e=0),this.options.max!==null&&(e=Math.min(e,this.options.max)),this.options.min!==null&&(e=Math.max(e,this.options.min)),this.options.onchange&&this.options.onchange(e),this.$slider&&this.$slider.slider("value",e),this.$text.val(e)),this.$text.val()},_template:function(e){return'<div id="'+e.id+'" class="ui-form-slider">'+'<input id="text" type="text" class="ui-form-slider-text"/>'+'<div id="slider" class="ui-form-slider-element"/>'+"</div>"}});return{View:t}}),define("mvc/ui/ui-options",["utils/utils"],function(e){var t=Backbone.View.extend({initialize:function(t){this.optionsDefault={visible:!0,data:[],id:e.uuid(),error_text:"No data available.",wait_text:"Please wait..."},this.options=e.merge(t,this.optionsDefault),this.setElement("<div/>"),this.$message=$("<div/>"),this.$options=$(this._template(t)),this.$el.append(this.$message),this.$el.append(this.$options),this.options.visible||this.$el.hide(),this.update(this.options.data),this.options.value!==undefined&&this.value(this.options.value);var n=this;this.on("change",function(){n._change()})},update:function(e){var t=this._getValue();this.$options.empty();if(this._templateOptions)this.$options.append(this._templateOptions(e));else for(var n in e){var r=$(this._templateOption(e[n]));r.addClass("ui-option"),this.$options.append(r)}var i=this;this.$el.find("input").on("change",function(){i.value(i._getValue()),i._change()}),this._refresh(),this.value(t)},value:function(e){if(e!==undefined){e instanceof Array||(e=[e]),this.$el.find("input").prop("checked",!1);for(var t in e)this.$el.find('input[value="'+e[t]+'"]').first().prop("checked",!0)}return this._getValue()},exists:function(e){if(e!==undefined){e instanceof Array||(e=[e]);for(var t in e)if(this.$el.find('input[value="'+e[t]+'"]').length>0)return!0}return!1},first:function(){var e=this.$el.find("input");return e.length>0?e.val():undefined},validate:function(){var e=this.value();e instanceof Array||(e=[e]);for(var t in e)if([null,"null",undefined].indexOf(e[t])>-1)return!1;return!0},wait:function(){this._size()==0&&(this._messageShow(this.options.wait_text,"info"),this.$options.hide())},unwait:function(){this._messageHide(),this._refresh()},_change:function(){this.options.onchange&&this.options.onchange(this._getValue())},_refresh:function(){this._size()==0?(this._messageShow(this.options.error_text,"danger"),this.$options.hide()):(this._messageHide(),this.$options.css("display","inline-block"))},_getValue:function(){var e=this.$el.find(":checked");if(e.length==0)return"null";if(this.options.multiple){var t=[];return e.each(function(){t.push($(this).val())}),t}return e.val()},_size:function(){return this.$el.find(".ui-option").length},_messageShow:function(e,t){this.$message.show(),this.$message.removeClass(),this.$message.addClass("ui-message alert alert-"+t),this.$message.html(e)},_messageHide:function(){this.$message.hide()},_template:function(){return'<div class="ui-options"/>'}}),n={};n.View=t.extend({initialize:function(e){t.prototype.initialize.call(this,e)},_templateOption:function(e){return'<div><input type="radio" name="'+this.options.id+'" value="'+e.value+'"/>'+e.label+"<br>"+"</div>"}});var r={};r.View=t.extend({initialize:function(e){e.multiple=!0,t.prototype.initialize.call(this,e)},_templateOption:function(e){return'<div><input type="checkbox" name="'+this.options.id+'" value="'+e.value+'"/>'+e.label+"<br>"+"</div>"}});var i={};return i.View=t.extend({initialize:function(e){t.prototype.initialize.call(this,e)},value:function(e){return e!==undefined&&(this.$el.find("input").prop("checked",!1),this.$el.find("label").removeClass("active"),this.$el.find('[value="'+e+'"]').prop("checked",!0).closest("label").addClass("active")),this._getValue()},_templateOption:function(e){var t='<label class="btn btn-default">';return e.icon&&(t+='<i class="fa '+e.icon+'"/>'),t+='<input type="radio" name="'+this.options.id+'" value="'+e.value+'">'+e.label+"</label>",t},_template:function(){return'<div class="btn-group ui-radiobutton" data-toggle="buttons"/>'}}),{Base:t,Radio:n,RadioButton:i,Checkbox:r}}),define("mvc/ui/ui-drilldown",["utils/utils","mvc/ui/ui-options"],function(e,t){var n=t.Base.extend({initialize:function(e){this.display=e.display||"checkbox",e.multiple=this.display=="checkbox",t.Base.prototype.initialize.call(this,e)},_templateOption:function(e,t,n){return'<div><input name="'+this.options.id+'" class="ui-option" type="'+this.display+'" value="'+t+'">'+e+"<div/>"},_templateOptions:function(e){function n(e,t){function n(n){n?(t.fadeIn("fast"),e.removeClass("toggle-expand"),e.addClass("toggle"),e.is_expanded=!0):(t.hide(),e.removeClass("toggle"),e.addClass("toggle-expand"),e.is_expanded=!1)}e.on("click",function(){n(!e.is_expanded)})}function r(e,s){for(i in s){var o=s[i],u=o.options.length>0,a=$("<div/>");if(u){var f=$('<span class="ui-drilldown-button form-toggle icon-button toggle-expand" style="position: relative; top: 2px;"/>'),l=$("<div/>");l.append(f),l.append(t._templateOption(o.name,o.value)),a.append(l);var c=$('<div style="display: none; margin-left: 25px;"/>');r(c,o.options),a.append(c),n(f,c)}else a.append(t._templateOption(o.name,o.value));e.append(a)}}var t=this,s=$("<div/>");return r(s,e),s},_template:function(e){return'<div class="ui-options drilldown-container" id="'+e.id+'"/>'}});return{View:n}}),define("mvc/ui/ui-button-menu",["utils/utils"],function(e){return Backbone.View.extend({optionsDefault:{id:"",title:"",floating:"right",icon:null,onclick:null,cls:"ui-button-icon ui-button-menu",tooltip:"",target:"",href:"",onunload:null,visible:!0,tag:""},$menu:null,initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement($(this._template(this.options)));var n=$(this.el).find(".root"),r=this;n.on("click",function(e){$(".tooltip").hide(),e.preventDefault(),r.options.onclick&&r.options.onclick()}),this.options.visible||this.hide(),n.tooltip({title:t.tooltip,placement:"bottom"})},show:function(){$(this.el).show()},hide:function(){$(this.el).hide()},addMenu:function(t){var n={title:"",target:"",href:"",onclick:null,divider:!1,icon:null,cls:"button-menu btn-group"};n=e.merge(t,n),this.$menu||($(this.el).append(this._templateMenu()),this.$menu=$(this.el).find(".menu"));var r=$(this._templateMenuItem(n));r.on("click",function(e){e.preventDefault(),n.onclick&&n.onclick()}),this.$menu.append(r),n.divider&&this.$menu.append($(this._templateDivider()))},_templateMenuItem:function(e){var t='<li><a class="dropdown-item" href="'+e.href+'" target="'+e.target+'">';return e.icon&&(t+='<i class="fa '+e.icon+'"></i>'),t+=" "+e.title+"</a>"+"</li>",t},_templateMenu:function(){return'<ul class="menu dropdown-menu pull-right" role="menu"></ul>'},_templateDivider:function(){return'<li class="divider"></li>'},_template:function(e){var t="",n="";e.title?t="width: auto;":n="margin: 0px;";var r='<div id="'+e.id+'" style="float: '+e.floating+"; "+t+'" class="dropdown '+e.cls+'">'+'<div class="root button dropdown-toggle" data-toggle="dropdown" style="'+n+'">'+'<i class="icon fa '+e.icon+'"/>';return e.title&&(r+=' <span class="title">'+e.title+"</span>"),r+="</div></div>",r}})}),define("mvc/ui/ui-misc",["utils/utils","mvc/ui/ui-select-default","mvc/ui/ui-slider","mvc/ui/ui-options","mvc/ui/ui-drilldown","mvc/ui/ui-button-menu","mvc/ui/ui-modal"],function(e,t,n,r,i,s,o){var u=Backbone.View.extend({optionsDefault:{url:"",cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options))},_template:function(e){return'<img class="ui-image '+e.cls+'" src="'+e.url+'"/>'}}),a=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options))},title:function(e){this.$el.html(e)},_template:function(e){return'<label class="ui-label '+e.cls+'">'+e.title+"</label>"},value:function(){return options.title}}),f=Backbone.View.extend({optionsDefault:{floating:"right",icon:"",tooltip:"",placement:"bottom",title:"",cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),$(this.el).tooltip({title:t.tooltip,placement:"bottom"})},_template:function(e){return'<div><span class="fa '+e.icon+'" class="ui-icon"/> '+e.title+"</div>"}}),l=Backbone.View.extend({optionsDefault:{id:null,title:"",floating:"right",cls:"ui-button btn btn-default",icon:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),$(this.el).on("click",function(){$(".tooltip").hide(),t.onclick&&t.onclick()}),$(this.el).tooltip({title:t.tooltip,placement:"bottom"})},_template:function(e){var t='<button id="'+e.id+'" type="submit" style="float: '+e.floating+';" type="button" class="'+e.cls+'">';return e.icon&&(t+='<i class="icon fa '+e.icon+'"></i> '),t+=e.title+"</button>",t}}),c=Backbone.View.extend({optionsDefault:{id:null,title:"",floating:"right",cls:"ui-button-icon",icon:"",tooltip:"",onclick:null},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),this.$button=this.$el.find(".button");var n=this;$(this.el).on("click",function(){$(".tooltip").hide(),t.onclick&&!n.disabled&&t.onclick()}),$(this.el).tooltip({title:t.tooltip,placement:"bottom"})},disable:function(){this.$button.addClass("disabled"),this.disabled=!0},enable:function(){this.$button.removeClass("disabled"),this.disabled=!1},_template:function(e){var t="";e.title&&(t="width: auto;");var n='<div id="'+e.id+'" style="float: '+e.floating+"; "+t+'" class="'+e.cls+'">';return e.title?n+='<div class="button"><i class="icon fa '+e.icon+'"/> '+'<span class="title">'+e.title+"</span>"+"</div>":n+='<i class="icon fa '+e.icon+'"/>',n+="</div>",n}}),h=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),$(this.el).on("click",t.onclick)},_template:function(e){return'<div><a href="javascript:void(0)" class="ui-anchor '+e.cls+'">'+e.title+"</a></div>"}}),p=Backbone.View.extend({optionsDefault:{message:null,status:"info",persistent:!1},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement("<div></div>"),this.options.message&&this.update(this.options)},update:function(t){this.options=e.merge(t,this.optionsDefault);if(t.message!=""){this.$el.html(this._template(this.options)),this.$el.find(".alert").append(t.message),this.$el.fadeIn(),this.timeout&&window.clearTimeout(this.timeout);if(!t.persistent){var n=this;this.timeout=window.setTimeout(function(){n.$el.is(":visible")?n.$el.fadeOut():n.$el.hide()},3e3)}}else this.$el.fadeOut()},_template:function(e){return'<div class="ui-message alert alert-'+e.status+'"/>'}}),d=Backbone.View.extend({optionsDefault:{onclick:null,searchword:""},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options));var n=this;this.options.onclick&&this.$el.on("submit",function(e){var t=n.$el.find("#search");n.options.onclick(t.val())})},_template:function(e){return'<div class="ui-search"><form onsubmit="return false;"><input id="search" class="form-control input-sm" type="text" name="search" placeholder="Search..." value="'+e.searchword+'">'+'<button type="submit" class="btn search-btn">'+'<i class="fa fa-search"></i>'+"</button>"+"</form>"+"</div>"}}),v=Backbone.View.extend({optionsDefault:{type:"text",placeholder:"",disabled:!1,visible:!0,cls:"",area:!1},initialize:function(t){this.options=e.merge(t,this.optionsDefault),this.setElement(this._template(this.options)),this.options.value!==undefined&&this.value(this.options.value),this.options.disabled&&this.$el.prop("disabled",!0),this.options.visible||this.$el.hide();var n=this;this.$el.on("input",function(){n.options.onchange&&n.options.onchange(n.$el.val())})},value:function(e){return e!==undefined&&this.$el.val(e),this.$el.val()},_template:function(e){return e.area?'<textarea id="'+e.id+'" class="ui-textarea '+e.cls+'"></textarea>':'<input id="'+e.id+'" type="'+e.type+'" value="'+e.value+'" placeholder="'+e.placeholder+'" class="ui-input '+e.cls+'">'}}),m=Backbone.View.extend({initialize:function(e){this.options=e,this.setElement(this._template(this.options)),this.options.value!==undefined&&this.value(this.options.value)},value:function(e){return e!==undefined&&this.$el.val(e),this.$el.val()},_template:function(e){return'<hidden id="'+e.id+'" value="'+e.value+'"/>'}});return{Anchor:h,Button:l,ButtonIcon:c,ButtonMenu:s,Icon:f,Image:u,Input:v,Label:a,Message:p,Modal:o,RadioButton:r.RadioButton,Checkbox:r.Checkbox,Radio:r.Radio,Searchbox:d,Select:t,Hidden:m,Slider:n,Drilldown:i}}),define("plugin/library/jobs",["utils/utils"],function(e){return Backbone.Model.extend({initialize:function(t,n){this.app=t,this.options=e.merge(n,this.optionsDefault)},request:function(e,t,n,r,i){var s=this;e.state("wait","Requesting job results...");var o=e.get("dataset_id_job");o!=""?s._wait(e,r,i):s._submit(e,t,n,r,i)},cleanup:function(t){var n=this,r=t.get("dataset_id_job");r!=""&&(e.request({type:"PUT",url:config.root+"api/histories/none/contents/"+r,data:{deleted:!0},success:function(){n._refreshHdas()}}),t.set("dataset_id_job",""))},_submit:function(t,n,r,i,s){var o=this,u=t.id,a=t.get("type"),f=t.definition;data={tool_id:"charts",inputs:{input:{id:t.get("dataset_id"),src:"hda"},module:f.execute,columns:r,settings:n}},t.state("wait","Sending job request..."),e.request({type:"POST",url:config.root+"api/tools",data:data,success:function(e){if(!e.outputs||e.outputs.length==0)t.state("failed","Job submission failed. No response."),s&&s();else{o._refreshHdas();var n=e.outputs[0];t.state("wait","Your job has been queued. You may close the browser window. The job will run in the background."),t.set("dataset_id_job",n.id),o.app.storage.save(),o._wait(t,i,s)}},error:function(e){var n="";e&&e.message&&e.message.data&&e.message.data.input&&(n=e.message.data.input+"."),t.state("failed","This visualization requires the 'charts' tool. Please make sure it is installed. "+n),s&&s()}})},_wait:function(t,n,r){var i=this;e.request({type:"GET",url:config.root+"api/datasets/"+t.get("dataset_id_job"),data:{},success:function(e){var s=!1;switch(e.state){case"ok":t.state("wait","Job completed successfully..."),n&&n(e),s=!0;break;case"error":t.state("failed","Job has failed. Please check the history for details."),r&&r(e),s=!0;break;case"running":t.state("wait","Your job is running. You may close the browser window. The job will continue in the background.")}s||setTimeout(function(){i._wait(t,n,r)},i.app.config.get("query_timeout"))}})},_refreshHdas:function(){Galaxy&&Galaxy.currHistoryPanel&&Galaxy.currHistoryPanel.refreshContents()}})}),define("plugin/library/datasets",["utils/utils"],function(e){return Backbone.Collection.extend({list:{},cache:{},initialize:function(t,n){this.app=t,this.options=e.merge(n,this.optionsDefault)},request:function(e){e.groups?this._get_blocks(e):this._get_dataset(e.id,e.success,e.error)},_get_blocks:function(e){function c(i){l._get(i,function(){var s=!1;for(var o in e.groups){destination_group=e.groups[o],source_group=i.groups[o],destination_group.values||(destination_group.values=[]),destination_group.values=destination_group.values.concat(source_group.values);if(source_group.values.length==0){s=!0;break}}if(++f<u&&!s){n&&n(parseInt(f/u*100));var l=i.start+r;i=$.extend(!0,a,{start:l}),c(i)}else t()})}var t=e.success,n=e.progress,r=this.app.config.get("query_limit"),i=e.start||0,s=i+e.query_limit||i+this.app.config.get("query_limit"),o=Math.abs(s-i);if(o<=0){console.debug("FAILED - Datasets::request() - Invalid query range.");return}var u=Math.ceil(o/r)||1,a=$.extend(!0,{},e),f=0,l=this,h=$.extend(!0,a,{start:i});this._get_dataset(e.id,function(){c(h)})},_get_dataset:function(t,n,r){var i=this.list[t];if(i){n(i);return}var s=this;e.request({type:"GET",url:config.root+"api/datasets/"+t,success:function(e){switch(e.state){case"error":r&&r(e);break;default:s.list[t]=e,n(e)}}})},_block_id:function(e,t){return e.id+"_"+e.start+"_"+e.start+this.app.config.get("query_limit")+"_"+t},_get:function(e,t){e.start=e.start||0;var n=[],r={},i=0;for(var s in e.groups){var o=e.groups[s];for(var u in o.columns){var a=o.columns[u].index,f=this._block_id(e,a);if(this.cache[f]||a==="auto"||a==="zero")continue;!r[a]&&a!==undefined&&(r[a]=i,n.push(a),i++)}}if(n.length==0){this._fill_from_cache(e),t(e);return}var l={dataset_id:e.id,start:e.start,columns:n},c=this;this._fetch(l,function(r){for(var i in r){var s=n[i],o=c._block_id(e,s);c.cache[o]=r[i]}c._fill_from_cache(e),t(e)})},_fill_from_cache:function(e){var t=e.start;console.debug("Datasets::_fill_from_cache() - Filling request from cache at "+t+".");var n=0;for(var r in e.groups){var i=e.groups[r];for(var s in i.columns){var o=i.columns[s],u=this._block_id(e,o.index),a=this.cache[u];a&&(n=Math.max(n,a.length))}}n==0&&console.debug("Datasets::_fill_from_cache() - Reached data range limit.");for(var r in e.groups){var i=e.groups[r];i.values=[];for(var f=0;f<n;f++)i.values[f]={x:parseInt(f)+t}}for(var r in e.groups){var i=e.groups[r];for(var s in i.columns){var o=i.columns[s];switch(o.index){case"auto":for(var f=0;f<n;f++){var l=i.values[f];l[s]=parseInt(f)+t}break;case"zero":for(var f=0;f<n;f++){var l=i.values[f];l[s]=0}break;default:var u=this._block_id(e,o.index),a=this.cache[u];for(var f=0;f<n;f++){var l=i.values[f],c=a[f];isNaN(c)&&!o.is_label&&(c=0),l[s]=c}}}}},_fetch:function(t,n){var r=t.start?t.start:0,i=this.app.config.get("query_limit"),s=0;t.columns&&(s=t.columns.length,console.debug("Datasets::_fetch() - Fetching "+s+" column(s) at "+r+".")),s==0&&console.debug("Datasets::_fetch() - No columns requested");var o="";for(var u in t.columns)o+=t.columns[u]+",";o=o.substring(0,o.length-1);var a=this;e.request({type:"GET",url:config.root+"api/datasets/"+t.dataset_id,data:{data_type:"raw_data",provider:"dataset-column",limit:i,offset:r,indeces:o},success:function(e){var t=new Array(s);for(var r=0;r<s;r++)t[r]=[];for(var r in e.data){var i=e.data[r];for(var o in i){var u=i[o];u!==undefined&&u!=2147483647&&t[o].push(u)}}console.debug("Datasets::_fetch() - Fetching complete."),n(t)}})}})}),define("plugin/models/group",[],function(){return Backbone.Model.extend({defaults:{key:"Data label",date:""},reset:function(){this.clear({silent:!0}).set(this.defaults),this.trigger("reset",this)}})}),define("plugin/models/groups",["plugin/models/group"],function(e){return Backbone.Collection.extend({model:e})}),define("plugin/models/chart",["plugin/models/groups"],function(e){return Backbone.Model.extend({defaults:{id:null,title:"",type:"",date:null,state:"",state_info:"",modified:!1,dataset_id:"",dataset_id_job:""},initialize:function(t){this.groups=new e,this.settings=new Backbone.Model},reset:function(){this.clear({silent:!0}).set(this.defaults),this.groups.reset(),this.settings.clear(),this.trigger("reset",this)},copy:function(e){var t=this;t.clear({silent:!0}).set(this.defaults),t.set(e.attributes),t.settings=e.settings.clone(),t.groups.reset(),e.groups.each(function(e){t.groups.add(e.clone())}),t.trigger("change",t)},state:function(e,t){this.set("state",e),this.set("state_info",t),this.trigger("set:state"),console.debug("Chart:state() - "+t+" ("+e+")")}})});var Visualization=Backbone.Model.extend({defaults:{config:{}},urlRoot:function(){var e="/api/visualizations";return window.galaxy_config&&galaxy_config.root?galaxy_config.root+e:e},initialize:function(e){_.isObject(e.config)&&_.isObject(this.defaults.config)&&_.defaults(e.config,this.defaults.config),this._setUpListeners()},_setUpListeners:function(){},set:function(e,t){if(e==="config"){var n=this.get("config");_.isObject(n)&&(t=_.extend(_.clone(n),t))}return Backbone.Model.prototype.set.call(this,e,t),this},toString:function(){var e=this.get("id")||"";return this.get("title")&&(e+=":"+this.get("title")),"Visualization("+e+")"}}),VisualizationCollection=Backbone.Collection.extend({model:Visualization,url:function(){return galaxy_config.root+"api/visualizations"},initialize:function(e,t){t=t||{}},set:function(e,t){var n=this;e=_.map(e,function(e){var t=n.get(e.id);if(!t)return e;var r=t.toJSON();return _.extend(r,e),r}),Backbone.Collection.prototype.set.call(this,e,t)},toString:function(){return["VisualizationCollection(",[this.historyId,this.length].join(),")"].join("")}});define("mvc/visualization/visualization-model",function(){}),define("plugin/library/storage",["utils/utils","plugin/models/chart","plugin/models/group","mvc/visualization/visualization-model"],function(e,t,n){return Backbone.Model.extend({vis:null,initialize:function(e){this.app=e,this.chart=this.app.chart,this.options=this.app.options,this.id=this.options.id,this.vis=new Visualization({type:"charts",config:{dataset_id:this.options.config.dataset_id,chart_dict:{}}}),this.id&&(this.vis.id=this.id);var t=this.options.config.chart_dict;t&&(this.vis.get("config").chart_dict=t)},save:function(){var e=this.app.chart;this.vis.get("config").chart_dict={};var t=e.get("title");t!=""&&this.vis.set("title",t);var n={attributes:e.attributes,settings:e.settings.attributes,groups:[]};e.groups.each(function(e){n.groups.push(e.attributes)}),this.vis.get("config").chart_dict=n;var r=this;this.vis.save().fail(function(e,t,n){console.error(e,t,n)}).then(function(e){e&&e.id&&(r.id=e.id)})},load:function(){var e=this.vis.get("config").chart_dict;if(!e.attributes)return!1;var t=e.attributes.type;if(!t)return console.debug("Storage::load() - Chart type not provided. Invalid format."),!1;var r=this.app.types.get(t);if(!r)return console.debug("Storage::load() - Chart type not supported. Please re-configure the chart. Resetting chart."),!1;console.debug("Storage::load() - Loading chart type "+t+"."),this.chart.definition=r,this.chart.set(e.attributes),this.chart.state("ok","Loading saved visualization..."),this.chart.settings.set(e.settings);for(var i in e.groups)this.chart.groups.add(new n(e.groups[i]));return this.chart.set("modified",!1),!0}})}),define("utils/deferred",["utils/utils"],function(e){return Backbone.Model.extend({queue:[],process:{},counter:0,initialize:function(){this.on("refresh",function(){if(this.queue.length>0&&this.ready()){var e=this.queue[0];this.queue.splice(0,1),e&&e()}})},execute:function(e){this.queue.push(e),this.trigger("refresh")},register:function(){var t=e.uuid();return this.process[t]=!0,this.counter++,console.debug("Deferred:register() - Registering "+t),t},done:function(e){this.process[e]&&(delete this.process[e],this.counter--,console.debug("Deferred:done() - Unregistering "+e),this.trigger("refresh"))},reset:function(){this.queue=[]},ready:function(){return this.counter==0}})}),define("plugin/views/viewport",["mvc/ui/ui-portlet","mvc/ui/ui-misc","utils/utils"],function(e,t,n){return Backbone.View.extend({container_list:[],canvas_list:[],initialize:function(e,t){this.app=e,this.chart=this.app.chart,this.options=n.merge(t,this.optionsDefault),this.setElement($(this._template())),this._fullscreen(this.$el,100),this._createContainer("div");var r=this;this.chart.on("redraw",function(){r._draw(r.chart)}),this.chart.on("set:state",function(){var e=r.$el.find("#info"),t=r.$el.find(".charts-viewport-container"),n=e.find("#icon");n.removeClass(),e.show(),e.find("#text").html(r.chart.get("state_info"));var i=r.chart.get("state");switch(i){case"ok":e.hide(),t.show();break;case"failed":n.addClass("icon fa fa-warning"),t.hide();break;default:n.addClass("icon fa fa-spinner fa-spin"),t.show()}})},show:function(){this.$el.show()},hide:function(){this.$el.hide()},_fullscreen:function(e,t){e.css("height",$(window).height()-t),$(window).resize(function(){e.css("height",$(window).height()-t)})},_createContainer:function(e,t){t=t||1;for(var n in this.container_list)this.container_list[n].remove();this.container_list=[],this.canvas_list=[];for(var n=0;n<t;n++){var r=$(this._templateContainer(e,parseInt(100/t)));this.$el.append(r),this.container_list[n]=r,this.canvas_list[n]=r.find(".charts-viewport-canvas").attr("id")}},_draw:function(e){var t=this,n=this.app.deferred.register(),r=e.get("type");this.chart_definition=e.definition;var i=1;e.settings.get("use_panels")==="true"&&(i=e.groups.length),this._createContainer(this.chart_definition.tag,i),e.state("wait","Please wait...");if(!this.chart_definition.execute||this.chart_definition.execute&&e.get("modified"))this.app.jobs.cleanup(e),e.set("modified",!1);var t=this;require(["plugin/charts/"+this.app.chartPath(r)+"/wrapper"],function(r){if(t.chart_definition.execute)t.app.jobs.request(e,t._defaultSettingsString(e),t._defaultRequestString(e),function(){var i=new r(t.app,{process_id:n,chart:e,request_dictionary:t._defaultRequestDictionary(e),canvas_list:t.canvas_list})},function(){this.app.deferred.done(n)});else var i=new r(t.app,{process_id:n,chart:e,request_dictionary:t._defaultRequestDictionary(e),canvas_list:t.canvas_list})})},_defaultRequestString:function(e){var t="",n=0,r=this;return e.groups.each(function(e){n++;for(var i in r.chart_definition.columns)t+=i+"_"+n+":"+(parseInt(e.get(i))+1)+", "}),t.substring(0,t.length-2)},_defaultSettingsString:function(e){var t="";for(key in e.settings.attributes)t+=key+":"+e.settings.get(key)+", ";return t.substring(0,t.length-2)},_defaultRequestDictionary:function(e){var t={groups:[]};this.chart_definition.execute?t.id=e.get("dataset_id_job"):t.id=e.get("dataset_id");var r=0,i=this;return e.groups.each(function(e){var s={};for(var o in i.chart_definition.columns){var u=i.chart_definition.columns[o];s[o]=n.merge({index:e.get(o)},u)}t.groups.push({key:++r+":"+e.get("key"),columns:s})}),t},_template:function(){return'<div class="charts-viewport"><div id="info" class="info"><span id="icon" class="icon"/><span id="text" class="text" /></div></div>'},_templateContainer:function(e,t){return'<div class="charts-viewport-container" style="width:'+t+'%;">'+'<div id="menu"/>'+"<"+e+' id="'+n.uuid()+'" class="charts-viewport-canvas">'+"</div>"}})}),define("plugin/library/screenshot",["libs/underscore"],function(e){function t(e){e.$el.find("svg").length>0?r(e):n(e)}function n(e){try{var t=e.$el.find(".jqplot-target"),n=t.jqplotToImageStr({});n&&(window.location.href=n.replace("image/png","image/octet-stream"))}catch(r){console.debug("FAILED - Screenshot::_fromCanvas() - "+r),e.error&&e.error("Please reduce your chart to a single panel and try again.")}}function r(e){var t=e.$el,n=e.url,r=e.name,s=new XMLSerializer,o=document.createElement("canvas"),u=$(o),a=t.find("svg").length,f=t.find("svg").first(),l=parseInt(f.css("height")),c=parseInt(f.css("width"));u.attr("width",c*a),u.attr("height",l),(!o.getContext||!o.getContext("2d"))&&alert("Your browser doesn't support this feature, please use a modern browser");var h=o.getContext("2d"),p=0;t.find("svg").each(function(){var e=$(this);e.attr({version:"1.1",xmlns:"http://www.w3.org/2000/svg",width:c,height:l});var t=s.serializeToString(this);h.drawSvg(t,p,0,c,l),p+=c}),window.location.href=i(o,o.getContext("2d"),"white").replace("image/png","image/octet-stream")}function i(e,t,n){var r=e.width,i=e.height,s;if(n){s=t.getImageData(0,0,r,i);var o=t.globalCompositeOperation;t.globalCompositeOperation="destination-over",t.fillStyle=n,t.fillRect(0,0,r,i)}var u=e.toDataURL("image/png");return n&&(t.clearRect(0,0,r,i),t.putImageData(s,0,0),t.globalCompositeOperation=o),u}function s(e){window.location.href="data:none/none;base64,"+btoa(a(e).string)}function o(e){for(var t in document.styleSheets){var n=document.styleSheets[t],r=n.cssRules;if(r)for(var i=0,s=r.length;i<s;i++)try{e.find(r[i].selectorText).each(function(e,t){t.style.cssText+=r[i].style.cssText})}catch(o){}}}function u(e){var t=a(e),n={filename:name||"chart",type:"application/pdf",height:t.height,width:t.width,scale:2,svg:t.string},r=$("body"),i=r.find("#viewport-form");i.length===0&&(i=$("<form>",{id:"viewport-form",method:"post",action:"http://export.highcharts.com/",display:"none"}),r.append(i)),i.empty();for(name in n){var s=$("<input/>",{type:"hidden",name:name,value:n[name]});i.append(s)}try{i.submit()}catch(o){console.log(o)}}function a(e){if(e.$el.find("svg").length==0&&e.error){e.error("No SVG found. This chart type does not support SVG/PDF export.");return}var t=e.$el,n=t.find("svg").length,r=parseInt(t.find("svg").first().css("height")),i=parseInt(t.find("svg").first().css("width")),s=new XMLSerializer,u=$("<svg/>");u.attr({version:"1.1",xmlns:"http://www.w3.org/2000/svg",width:i*n,height:r});var a="",f=0;return t.find("svg").each(function(){var e=$(this).clone();o(e);var t=$('<g transform="translate('+f+', 0)">');t.append(e.find("g").first()),u.append(t),f+=i}),{string:s.serializeToString(u[0]),height:r,width:i}}return{createPNG:t,createSVG:s,createPDF:u}}),define("plugin/views/viewer",["utils/utils","mvc/ui/ui-misc","mvc/ui/ui-portlet","plugin/views/viewport","plugin/library/screenshot"],function(e,t,n,r,i){return Backbone.View.extend({initialize:function(e,s){this.app=e,this.chart=this.app.chart,this.viewport_view=new r(e);var o=this;this.message=new t.Message;var u=new t.ButtonMenu({icon:"fa-camera",title:"Screenshot",tooltip:"Download as PNG, SVG or PDF file"});u.addMenu({id:"button-png",title:"Save as PNG",icon:"fa-file",onclick:function(){o._wait(o.chart,function(){i.createPNG({$el:o.viewport_view.$el,title:o.chart.get("title"),error:function(e){o.message.update({message:e,status:"danger"})}})})}}),u.addMenu({id:"button-svg",title:"Save as SVG",icon:"fa-file-text-o",onclick:function(){o._wait(o.chart,function(){i.createSVG({$el:o.viewport_view.$el,title:o.chart.get("title"),error:function(e){o.message.update({message:e,status:"danger"})}})})}}),u.addMenu({id:"button-png",title:"Save as PDF",icon:"fa-file-o",onclick:function(){o.app.modal.show({title:"Send chart data for PDF creation",body:"Galaxy does not provide integrated PDF export scripts. You may click 'Continue' to create the PDF by using a 3rd party service (https://export.highcharts.com)",buttons:{Cancel:function(){o.app.modal.hide()},Continue:function(){o.app.modal.hide(),o._wait(o.chart,function(){i.createPDF({$el:o.viewport_view.$el,title:o.chart.get("title"),error:function(e){o.message.update({message:e,status:"danger"})}})})}}})}}),this.portlet=new n.View({icon:"fa-bar-chart-o",title:"Viewport",scrollable:!1,operations:{edit_button:new t.ButtonIcon({icon:"fa-edit",tooltip:"Customize this chart",title:"Editor",onclick:function(){o._wait(o.chart,function(){o.app.go("editor")})}}),picture_button_menu:u}}),this.portlet.append(this.message.$el),this.portlet.append(this.viewport_view.$el),this.setElement(this.portlet.$el);var o=this;this.chart.on("change:title",function(){o._refreshTitle()})},show:function(){this.$el.show(),$(window).trigger("resize")},hide:function(){this.$el.hide()},_refreshTitle:function(){var e=this.chart.get("title");this.portlet.title(e)},_wait:function(e,t){this.app.deferred.ready()?t():this.message.update({message:"Your chart is currently being processed. Please wait and try again."})}})}),define("mvc/ui/ui-tabs",["utils/utils"],function(e){var t=Backbone.View.extend({optionsDefault:{title_new:"",operations:null,onnew:null,max:null,onchange:null},initialize:function(t){this.visible=!1,this.$nav=null,this.$content=null,this.first_tab=null,this.current_id=null,this.options=e.merge(t,this.optionsDefault);var n=$(this._template(this.options));this.$nav=n.find(".tab-navigation"),this.$content=n.find(".tab-content"),this.setElement(n),this.list={};var r=this;this.options.operations&&$.each(this.options.operations,function(e,t){t.$el.prop("id",e),r.$nav.find(".operations").append(t.$el)});if(this.options.onnew){var i=$(this._template_tab_new(this.options));this.$nav.append(i),i.tooltip({title:"Add a new tab",placement:"bottom",container:r.$el}),i.on("click",function(e){i.tooltip("hide"),r.options.onnew()})}},size:function(){return _.size(this.list)},current:function(){return this.$el.find(".tab-pane.active").attr("id")},add:function(e){var t=this,n=e.id,r=$(this._template_tab(e)),i=$(this._template_tab_content(e));this.list[n]=e.ondel?!0:!1,this.options.onnew?this.$nav.find("#new-tab").before(r):this.$nav.append(r),i.append(e.$el),this.$content.append(i),this.size()==1&&(r.addClass("active"),i.addClass("active"),this.first_tab=n),this.options.max&&this.size()>=this.options.max&&this.$el.find("#new-tab").hide();if(e.ondel){var s=r.find("#delete");s.tooltip({title:"Delete this tab",placement:"bottom",container:t.$el}),s.on("click",function(){return s.tooltip("destroy"),t.$el.find(".tooltip").remove(),e.ondel(),!1})}r.on("click",function(r){r.preventDefault(),e.onclick?e.onclick():t.show(n)}),this.current_id||(this.current_id=n)},del:function(e){this.$el.find("#tab-"+e).remove(),this.$el.find("#"+e).remove(),this.first_tab==e&&(this.first_tab=null),this.first_tab!=null&&this.show(this.first_tab),this.list[e]&&delete this.list[e],this.size()<this.options.max&&this.$el.find("#new-tab").show()},delRemovable:function(){for(var e in this.list)this.del(e)},show:function(e){this.$el.fadeIn("fast"),this.visible=!0,e&&(this.$el.find("#tab-"+this.current_id).removeClass("active"),this.$el.find("#"+this.current_id).removeClass("active"),this.$el.find("#tab-"+e).addClass("active"),this.$el.find("#"+e).addClass("active"),this.current_id=e),this.options.onchange&&this.options.onchange(e)},hide:function(){this.$el.fadeOut("fast"),this.visible=!1},hideOperation:function(e){this.$nav.find("#"+e).hide()},showOperation:function(e){this.$nav.find("#"+e).show()},setOperation:function(e,t){var n=this.$nav.find("#"+e);n.off("click"),n.on("click",t)},title:function(e,t){var n=this.$el.find("#tab-title-text-"+e);return t&&n.html(t),n.html()},retitle:function(e){var t=0;for(var n in this.list)this.title(n,++t+": "+e)},_template:function(e){return'<div class="ui-tabs tabbable tabs-left"><ul id="tab-navigation" class="tab-navigation nav nav-tabs"><div class="operations" style="float: right; margin-bottom: 4px;"></div></ul><div id="tab-content" class="tab-content"/></div>'},_template_tab_new:function(e){return'<li id="new-tab"><a href="javascript:void(0);"><i class="ui-tabs-add fa fa-plus-circle"/>'+e.title_new+"</a>"+"</li>"},_template_tab:function(e){var t='<li id="tab-'+e.id+'" class="tab-element">'+'<a id="tab-title-link-'+e.id+'" title="" href="#'+e.id+'" data-original-title="">'+'<span id="tab-title-text-'+e.id+'" class="tab-title-text">'+e.title+"</span>";return e.ondel&&(t+='<i id="delete" class="ui-tabs-delete fa fa-minus-circle"/>'),t+="</a></li>",t},_template_tab_content:function(e){return'<div id="'+e.id+'" class="tab-pane"/>'}});return{View:t}}),define("mvc/ui/ui-table",["utils/utils"],function(e){var t=Backbone.View.extend({row:null,row_count:0,optionsDefault:{content:"No content available.",onchange:null,ondblclick:null,onconfirm:null,cls:"ui-table",cls_tr:""},events:{click:"_onclick",dblclick:"_ondblclick"},initialize:function(t){this.options=e.merge(t,this.optionsDefault);var n=$(this._template(this.options));this.$thead=n.find("thead"),this.$tbody=n.find("tbody"),this.$tmessage=n.find("tmessage"),this.setElement(n),this.row=this._row()},addHeader:function(e){var t=$("<th></th>");t.append(e),this.row.append(t)},appendHeader:function(){this.$thead.append(this.row),this.row=$("<tr></tr>")},add:function(e,t,n){var r=$("<td></td>");t&&r.css("width",t),n&&r.css("text-align",n),r.append(e),this.row.append(r)},append:function(e,t){this._commit(e,t,!1)},prepend:function(e,t){this._commit(e,t,!0)},get:function(e){return this.$el.find("#"+e)},del:function(e){var t=this.$tbody.find("#"+e);t.length>0&&(t.remove(),this.row_count--,this._refresh())},delAll:function(){this.$tbody.empty(),this.row_count=0,this._refresh()},value:function(e){this.before=this.$tbody.find(".current").attr("id"),e!==undefined&&(this.$tbody.find("tr").removeClass("current"),e&&this.$tbody.find("#"+e).addClass("current"));var t=this.$tbody.find(".current").attr("id");return t===undefined?null:(t!=this.before&&this.options.onchange&&this.options.onchange(e),t)},size:function(){return this.$tbody.find("tr").length},_commit:function(e,t,n){this.del(e),this.row.attr("id",e),n?this.$tbody.prepend(this.row):this.$tbody.append(this.row),t&&(this.row.hide(),this.row.fadeIn()),this.row=this._row(),this.row_count++,this._refresh()},_row:function(){return $('<tr class="'+this.options.cls_tr+'"></tr>')},_onclick:function(e){var t=this.value(),n=$(e.target).closest("tr").attr("id");n!=""&&n&&t!=n&&(this.options.onconfirm?this.options.onconfirm(n):this.value(n))},_ondblclick:function(e){var t=this.value();t&&this.options.ondblclick&&this.options.ondblclick(t)},_refresh:function(){this.row_count==0?this.$tmessage.show():this.$tmessage.hide()},_template:function(e){return'<div><table class="'+e.cls+'">'+"<thead></thead>"+"<tbody></tbody>"+"</table>"+"<tmessage>"+e.content+"</tmessage>"+"<div>"}});return{View:t}}),define("plugin/views/group",["mvc/ui/ui-table","mvc/ui/ui-misc","utils/utils"],function(e,t,n){return Backbone.View.extend({initialize:function(r,i){this.app=r;var s=this;this.chart=this.app.chart,this.group=i.group,this.group_key=new t.Input({placeholder:"Data label",onchange:function(e){s.group.set("key",e)}}),this.table=new e.View({content:"No data column."});var o=$("<div/>");o.append(n.wrap((new t.Label({title:"Provide a label:"})).$el)),o.append(n.wrap(this.group_key.$el)),o.append(n.wrap((new t.Label({title:"Select columns:"})).$el)),o.append(n.wrap(this.table.$el)),this.setElement(o);var s=this;this.chart.on("change:dataset_id",function(){s._refreshTable()}),this.chart.on("change:type",function(){s._refreshTable()}),this.group.on("change:key",function(){s._refreshGroupKey()}),this.group.on("change",function(){s._refreshGroup()}),this._refreshTable(),this._refreshGroupKey(),this._refreshGroup()},_refreshTable:function(){var e=this.chart.get("dataset_id"),n=this.chart.get("type");if(!e||!n)return;var r=this,i=this.chart.definition;this.table.delAll();var s={};for(var o in i.columns){var u=i.columns[o];if(!u){console.debug("Group::_refreshTable() - Skipping column definition.");continue}var a=new t.Select.View({id:"select_"+o,wait:!0}),f=u.title;u.is_unique&&(f+=" (all data labels)"),this.table.add(f,"25%"),this.table.add(a.$el),this.table.append(o),s[o]=a}this.chart.state("wait","Loading metadata...");var l=this.app.deferred.register(),c={id:e,success:function(e){for(var t in s)r._addRow(t,e,s,i.columns[t]);r.chart.state("ok","Metadata initialized..."),r.app.deferred.done(l)}};this.app.datasets.request(c)},_addRow:function(e,t,n,r){var i=this,s=r.is_label,o=r.is_auto,u=r.is_numeric,a=r.is_unique,f=r.is_zero,l=[],c=n[e];o&&l.push({label:"Column: Row Number",value:"auto"}),f&&l.push({label:"Column: None",value:"zero"});var h=t.metadata_column_types;for(var p in h){var d=!1;h[p]=="int"||h[p]=="float"?d=u:d=s,d&&l.push({label:"Column: "+(parseInt(p)+1)+" ["+h[p]+"]",value:p})}c.update(l),a&&this.chart.groups.first()&&this.group.set(e,this.chart.groups.first().get(e));if(!c.exists(this.group.get(e))){var v=c.first();console.debug('Group()::_addRow() - Switching model value from "'+this.group.get(e)+'" to "'+v+'".'),this.group.set(e,v)}c.value(this.group.get(e)),this.group.off("change:"+e),this.group.on("change:"+e,function(){c.value(i.group.get(e))}),c.setOnChange(function(t){a?i.chart.groups.each(function(n){n.set(e,t)}):i.group.set(e,t),i.chart.set("modified",!0)}),c.show()},_refreshGroup:function(){this.group.set("date",n.time())},_refreshGroupKey:function(){var e=this.group.get("key");e===undefined&&(e=""),this.group_key.value(e)}})}),define("plugin/library/ui-table-form",["mvc/ui/ui-table","mvc/ui/ui-misc","utils/utils"],function(e,t,n){var r=Backbone.View.extend({optionsDefault:{title:"",content:"",mode:""},list:[],initialize:function(r,i){this.app=r,this.options=n.merge(i,this.optionsDefault),this.table_title=new t.Label({title:this.options.title}),this.table=new e.View({content:this.options.content});var s=$('<div class="ui-table-form"/>');this.options.title&&s.append(n.wrap(this.table_title.$el)),s.append(n.wrap(this.table.$el)),this.setElement(s)},title:function(e){this.table_title.title(e)},update:function(e,t){this.table.delAll(),this.list=[];for(var n in e)this._add(e[n].id||n,e[n],t);for(var n in this.list)this.list[n].trigger("change")},_add:function(e,n,r){var i=this,s=null,o=n.type;switch(o){case"text":s=new t.Input({id:"field-"+e,placeholder:n.placeholder,value:r.get(e),onchange:function(t){r.set(e,t)}});break;case"radiobutton":s=new t.RadioButton.View({id:"field-"+e,data:n.data,value:r.get(e),onchange:function(t){r.set(e,t);var s=_.findWhere(n.data,{value:t});if(s&&s.operations){var o=s.operations;for(var u in o.show){var a=o.show[u];i.table.get(a).show()}for(var u in o.hide){var a=o.hide[u];i.table.get(a).hide()}}}});break;case"select":s=new t.Select.View({id:"field-"+e,data:n.data,value:r.get(e),onchange:function(t){r.set(e,t);var s=_.findWhere(n.data,{value:t});if(s&&s.operations){var o=s.operations;for(var u in o.show){var a=o.show[u];i.table.get(a).show()}for(var u in o.hide){var a=o.hide[u];i.table.get(a).hide()}}}});break;case"dataset":s=new t.Select.View({id:"field-"+e,onchange:function(t){r.set(e,t)}}),i.app.datasets.on("all",function(){var t=[];i.app.datasets.each(function(e){e.get("datatype_id")==n.data&&t.push({value:e.get("id"),label:e.get("name")})}),s.update(t),r.get(e)||r.set(e,s.first()),s.value(r.get(e))}),i.app.datasets.trigger("all.datasets");break;case"textarea":s=new t.Textarea({id:"field-"+e,onchange:function(){r.set(e,s.value())}});break;case"separator":s=$("<div/>");break;default:s=new t.Input({id:"field-"+e,placeholder:n.placeholder,type:n.type,onchange:function(){r.set(e,s.value())}})}if(o!="separator"){r.get(e)||r.set(e,n.init),s.value(r.get(e)),this.list[e]=s;var u=$("<div/>");u.append(s.$el),n.info&&u.append('<div class="ui-table-form-info">'+n.info+"</div>"),this.options.style=="bold"?(this.table.add((new t.Label({title:n.title,cls:"form-label"})).$el),this.table.add(u)):(this.table.add('<span class="ui-table-form-title">'+n.title+"</span>","25%"),this.table.add(u))}else this.table.add('<div class="ui-table-form-separator">'+n.title+":<div/>"),this.table.add($("<div/>"));this.table.append(e),n.hide&&this.table.get(e).hide()}});return{View:r}}),define("plugin/views/settings",["mvc/ui/ui-misc","plugin/library/ui-table-form","utils/utils"],function(e,t,n){return Backbone.View.extend({initialize:function(e,n){this.app=e;var r=this;this.chart=this.app.chart,this.form=new t.View(e,{title:"Configuration",content:"This chart type does not provide any options."}),this.setElement(this.form.$el);var r=this;this.chart.on("change",function(){r._refresh()})},_refresh:function(){var e=this.chart.definition;if(!e)return;this.form.title(e.category+" - "+e.title+":"),this.form.update(e.settings,this.chart.settings)}})}),define("plugin/views/types",["utils/utils","mvc/ui/ui-misc"],function(e,t){return Backbone.View.extend({optionsDefault:{onchange:null,ondblclick:null},events:{click:"_onclick",dblclick:"_ondblclick"},initialize:function(n,r){var i=this;this.app=n,this.options=e.merge(r,this.optionsDefault);var s=$('<div class="charts-grid"/>');s.append(e.wrap((new t.Label({title:"How many data points would you like to analyze?"})).$el)),this.library=new t.RadioButton.View({data:[{label:"Few (<500)",value:"small"},{label:"Some (<10k)",value:"medium"},{label:"Many (>10k)",value:"large"}],onchange:function(e){i._filter(e)}}),s.append(e.wrap(this.library.$el)),this.setElement(s),this._render(),this.library.value("small"),this.library.trigger("change")},value:function(e){var t=this.$el.find(".current").attr("id");e!==undefined&&(this.$el.find(".current").removeClass("current"),this.$el.find("#"+e).addClass("current"));var n=this.$el.find(".current").attr("id");return n===undefined?null:(n!=t&&this.options.onchange&&this.options.onchange(e),n)},_filter:function(e){this.$el.find(".header").hide();var t=this.app.types.attributes;for(var n in t){var r=t[n],i=this.$el.find("#"+n),s=this.$el.find("#types-header-"+this.categories_index[r.category]),o=r.keywords||"";o.indexOf(e)>=0?(i.show(),s.show()):i.hide()}},_render:function(){this.categories={},this.categories_index={};var e=0,t=this.app.types.attributes;for(var n in t){var r=t[n],i=r.category;this.categories[i]||(this.categories[i]={},this.categories_index[i]=e++),this.categories[i][n]=r}for(var i in this.categories){var s=$('<div style="clear: both;"/>');s.append(this._template_header({id:"types-header-"+this.categories_index[i],title:i}));for(var n in this.categories[i]){var r=this.categories[i][n],o=r.title+" ("+r.library+")";r.zoomable&&(o='<span class="fa fa-search-plus"/>'+o),s.append(this._template_item({id:n,title:o,url:config.app_root+"charts/"+this.app.chartPath(n)+"/logo.png"}))}this.$el.append(s)}},_onclick:function(e){var t=this.value(),n=$(e.target).closest(".item").attr("id");n!=""&&n&&t!=n&&this.value(n)},_ondblclick:function(e){var t=this.value();t&&this.options.ondblclick&&this.options.ondblclick(t)},_template_header:function(e){return'<div id="'+e.id+'" class="header">'+"• "+e.title+"<div>"},_template_item:function(e){return'<div id="'+e.id+'" class="item">'+'<img class="image" src="'+e.url+'">'+'<div class="title">'+e.title+"</div>"+"<div>"}})}),define("plugin/views/editor",["mvc/ui/ui-tabs","mvc/ui/ui-misc","mvc/ui/ui-portlet","utils/utils","plugin/models/chart","plugin/models/group","plugin/views/group","plugin/views/settings","plugin/views/types"],function(e,t,n,r,i,s,o,u,a){return Backbone.View.extend({initialize:function(i,s){var o=this;this.app=i,this.chart=this.app.chart,this.message=new t.Message,this.portlet=new n.View({icon:"fa-bar-chart-o",title:"Editor",operations:{save:new t.ButtonIcon({icon:"fa-save",tooltip:"Draw Chart",title:"Draw",onclick:function(){o._saveChart()}}),back:new t.ButtonIcon({icon:"fa-caret-left",tooltip:"Return to Viewer",title:"Cancel",onclick:function(){o.app.go("viewer"),o.app.storage.load()}})}}),this.types=new a(i,{onchange:function(e){var t=o.app.types.get(e);t||console.debug("FAILED - Editor::onchange() - Chart type not supported."),o.chart.definition=t,o.chart.settings.clear(),o.chart.set({type:e}),o.chart.set("modified",!0),console.debug("Editor::onchange() - Switched chart type.")},ondblclick:function(e){o._saveChart()}}),this.tabs=new e.View({title_new:"Add Data",onnew:function(){var e=o._addGroupModel();o.tabs.show(e.id)}}),this.title=new t.Input({placeholder:"Chart title",onchange:function(){o.chart.set("title",o.title.value())}});var f=$("<div/>");f.append(r.wrap((new t.Label({title:"Provide a chart title:"})).$el)),f.append(r.wrap(this.title.$el)),f.append(r.wrap(this.types.$el)),this.tabs.add({id:"main",title:"Start",$el:f}),this.settings=new u(this.app),this.tabs.add({id:"settings",title:"Configuration",$el:this.settings.$el}),this.portlet.append(this.message.$el),this.portlet.append(this.tabs.$el),this.setElement(this.portlet.$el),this.tabs.hideOperation("back");var o=this;this.chart.on("change:title",function(e){o._refreshTitle()}),this.chart.on("change:type",function(e){o.types.value(e.get("type"))}),this.chart.on("reset",function(e){o._resetChart()}),this.app.chart.on("redraw",function(e){o.portlet.showOperation("back")}),this.app.chart.groups.on("add",function(e){o._addGroup(e)}),this.app.chart.groups.on("remove",function(e){o._removeGroup(e)}),this.app.chart.groups.on("reset",function(e){o._removeAllGroups()}),this.app.chart.groups.on("change:key",function(e){o._refreshGroupKey()}),this._resetChart()},show:function(){this.$el.show()},hide:function(){this.$el.hide()},_refreshTitle:function(){var e=this.chart.get("title");this.portlet.title(e),this.title.value(e)},_refreshGroupKey:function(){var e=this,t=0;this.chart.groups.each(function(n){var r=n.get("key","");r==""&&(r="Data label"),e.tabs.title(n.id,++t+": "+r)})},_addGroupModel:function(){var e=new s({id:r.uuid()});return this.chart.groups.add(e),e},_addGroup:function(e){var t=this,n=new o(this.app,{group:e});this.tabs.add({id:e.id,$el:n.$el,ondel:function(){t.chart.groups.remove(e.id)}}),this._refreshGroupKey(),this.chart.set("modified",!0)},_removeGroup:function(e){this.tabs.del(e.id),this._refreshGroupKey(),this.chart.set("modified",!0)},_removeAllGroups:function(e){this.tabs.delRemovable()},_resetChart:function(){this.chart.set("id",r.uuid()),this.chart.set("type","nvd3_bar"),this.chart.set("dataset_id",this.app.options.config.dataset_id),this.chart.set("title","New Chart"),this.portlet.hideOperation("back")},_saveChart:function(){this.chart.set({type:this.types.value(),title:this.title.value(),date:r.time()});if(this.chart.groups.length==0){this.message.update({message:"Please select data columns before drawing the chart."});var e=this._addGroupModel();this.tabs.show(e.id);return}var t=this,n=!0,i=this.chart.definition;this.chart.groups.each(function(e){if(!n)return;for(var r in i.columns)if(e.attributes[r]=="null"){t.message.update({status:"danger",message:"This chart type requires column types not found in your tabular file."}),t.tabs.show(e.id),n=!1;return}});if(!n)return;this.app.go("viewer");var t=this;this.app.deferred.execute(function(){t.app.storage.save(),t.chart.trigger("redraw")})}})}),define("plugin/models/config",[],function(){return Backbone.Model.extend({defaults:{query_limit:1e4,query_timeout:100}})}),define("plugin/charts/forms/default",[],function(){return{title:"",category:"",library:"",tag:"",keywords:"",settings:{separator_x:{title:"X axis",type:"separator"},x_axis_label:{title:"Axis label",info:"Provide a label for the axis.",type:"text",init:"X-axis",placeholder:"Axis label"},x_axis_type:{title:"Axis value type",info:"Select the value type of the axis.",type:"select",init:"auto",data:[{label:"-- Do not show values --",value:"hide",operations:{hide:["x_axis_precision"]}},{label:"Auto",value:"auto",operations:{hide:["x_axis_precision"]}},{label:"Float",value:"f",operations:{show:["x_axis_precision"]}},{label:"Exponent",value:"e",operations:{show:["x_axis_precision"]}},{label:"Integer",value:"d",operations:{hide:["x_axis_precision"]}},{label:"Percentage",value:"p",operations:{show:["x_axis_precision"]}},{label:"SI-prefix",value:"s",operations:{hide:["x_axis_precision"]}}]},x_axis_precision:{title:"Axis tick format",info:"Select the tick format for the axis.",type:"select",init:"1",data:[{label:"0.00001",value:"5"},{label:"0.0001",value:"4"},{label:"0.001",value:"3"},{label:"0.01",value:"2"},{label:"0.1",value:"1"},{label:"1",value:"0"}]},separator_y:{title:"Y axis",type:"separator"},y_axis_label:{title:"Axis label",info:"Provide a label for the axis.",type:"text",init:"Y-axis",placeholder:"Axis label"},y_axis_type:{title:"Axis value type",info:"Select the value type of the 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arguments.length?(v=e,E):v},E.yRange=function(e){return arguments.length?(m=e,E):m},E.forceY=function(e){return arguments.length?(f=e,E):f},E.color=function(t){return arguments.length?(l=e.utils.getColor(t),E):l},E.id=function(e){return arguments.length?(i=e,E):i},E.showValues=function(e){return arguments.length?(c=e,E):c},E.valueFormat=function(e){return arguments.length?(h=e,E):h},E.rectClass=function(e){return arguments.length?(y=e,E):y},E},e.models.discreteBarChart=function(){function w(e){return e.each(function(e){var u=d3.select(this),p=this,y=(s||parseInt(u.style("width"))||960)-i.left-i.right,E=(o||parseInt(u.style("height"))||400)-i.top-i.bottom;w.update=function(){g.beforeUpdate(),u.call(w)},w.container=this;if(!e||!e.length||!e.filter(function(e){return e.values.length}).length){var S=u.selectAll(".nv-noData").data([m]);return S.enter().append("text").attr("class","nvd3 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arguments.length?(o=e,t.x(e),m):o},m.y=function(e){return arguments.length?(u=e,t.y(e),m):u},m.clipEdge=function(e){return arguments.length?(l=e,m):l},m.color=function(n){return arguments.length?(s=e.utils.getColor(n),t.color(s),m):s},m.interpolate=function(e){return arguments.length?(p=e,m):p},m.defined=function(e){return arguments.length?(a=e,m):a},m.isArea=function(e){return arguments.length?(f=d3.functor(e),m):f},m},e.models.lineChart=function(){function N(m){return m.each(function(m){var x=d3.select(this),C=this,k=(a||parseInt(x.style("width"))||960)-o.left-o.right,L=(f||parseInt(x.style("height"))||400)-o.top-o.bottom;N.update=function(){x.call(N)},N.container=this,b.disabled=m.map(function(e){return!!e.disabled});if(!w){var A;w={};for(A in b)b[A]instanceof Array?w[A]=b[A].slice(0):w[A]=b[A]}if(!m||!m.length||!m.filter(function(e){return e.values.length}).length){var O=x.selectAll(".nv-noData").data([E]);return O.enter().append("text").attr("class","nvd3 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t=e.models.line(),n=e.models.line(),r=e.models.axis(),i=e.models.axis(),s=e.models.axis(),o=e.models.axis(),u=e.models.legend(),a=d3.svg.brush(),f={top:30,right:30,bottom:30,left:60},l={top:0,right:30,bottom:20,left:60},c=e.utils.defaultColor(),h=null,p=null,d=100,v,m,g,y,b=!0,w=null,E=!0,S=function(e,t,n,r,i){return"<h3>"+e+"</h3>"+"<p>"+n+" at "+t+"</p>"},x="No Data Available.",T=d3.dispatch("tooltipShow","tooltipHide","brush"),N=0;t.clipEdge(!0),n.interactive(!1),r.orient("bottom").tickPadding(5),i.orient("left"),s.orient("bottom").tickPadding(5),o.orient("left");var C=function(n,s){var o=n.pos[0]+(s.offsetLeft||0),u=n.pos[1]+(s.offsetTop||0),a=r.tickFormat()(t.x()(n.point,n.pointIndex)),f=i.tickFormat()(t.y()(n.point,n.pointIndex)),l=S(n.series.key,a,f,n,k);e.tooltip.show([o,u],l,null,null,s)};return t.dispatch.on("elementMouseover.tooltip",function(e){e.pos=[e.pos[0]+f.left,e.pos[1]+f.top],T.tooltipShow(e)}),t.dispatch.on("elementMouseout.tooltip",function(e){T.tooltipHide(e)}),T.on("tooltipHide",function(){E&&e.tooltip.cleanup()}),k.dispatch=T,k.legend=u,k.lines=t,k.lines2=n,k.xAxis=r,k.yAxis=i,k.x2Axis=s,k.y2Axis=o,d3.rebind(k,t,"defined","isArea","size","xDomain","yDomain","xRange","yRange","forceX","forceY","interactive","clipEdge","clipVoronoi","id"),k.options=e.utils.optionsFunc.bind(k),k.x=function(e){return arguments.length?(t.x(e),n.x(e),k):t.x},k.y=function(e){return arguments.length?(t.y(e),n.y(e),k):t.y},k.margin=function(e){return arguments.length?(f.top=typeof e.top!="undefined"?e.top:f.top,f.right=typeof e.right!="undefined"?e.right:f.right,f.bottom=typeof e.bottom!="undefined"?e.bottom:f.bottom,f.left=typeof e.left!="undefined"?e.left:f.left,k):f},k.margin2=function(e){return arguments.length?(l=e,k):l},k.width=function(e){return 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t.dispatch.on("elementMouseover.tooltip",function(e){e.pos=[e.pos[0]+o.left,e.pos[1]+o.top],S.tooltipShow(e)}),t.dispatch.on("elementMouseout.tooltip",function(e){S.tooltipHide(e)}),S.on("tooltipHide",function(){v&&e.tooltip.cleanup()}),C.dispatch=S,C.multibar=t,C.legend=i,C.xAxis=n,C.yAxis=r,d3.rebind(C,t,"x","y","xDomain","yDomain","xRange","yRange","forceX","forceY","clipEdge","id","delay","showValues","showBarLabels","valueFormat","stacked","barColor"),C.options=e.utils.optionsFunc.bind(C),C.margin=function(e){return arguments.length?(o.top=typeof e.top!="undefined"?e.top:o.top,o.right=typeof e.right!="undefined"?e.right:o.right,o.bottom=typeof e.bottom!="undefined"?e.bottom:o.bottom,o.left=typeof e.left!="undefined"?e.left:o.left,C):o},C.width=function(e){return arguments.length?(u=e,C):u},C.height=function(e){return arguments.length?(a=e,C):a},C.color=function(t){return arguments.length?(f=e.utils.getColor(t),i.color(f),C):f},C.showControls=function(e){return arguments.length?(l=e,C):l},C.showLegend=function(e){return arguments.length?(c=e,C):c},C.showXAxis=function(e){return arguments.length?(h=e,C):h},C.showYAxis=function(e){return arguments.length?(p=e,C):p},C.tooltip=function(e){return arguments.length?(m=e,C):m},C.tooltips=function(e){return arguments.length?(v=e,C):v},C.tooltipContent=function(e){return arguments.length?(m=e,C):m},C.state=function(e){return arguments.length?(b=e,C):b},C.defaultState=function(e){return arguments.length?(w=e,C):w},C.noData=function(e){return arguments.length?(E=e,C):E},C.transitionDuration=function(e){return arguments.length?(T=e,C):T},C},e.models.multiChart=function(){function C(e){return e.each(function(e){var u=d3.select(this),f=this;C.update=function(){u.call(C)},C.container=this;var 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o=i.pos[0]+(s.offsetLeft||0),u=i.pos[1]+(s.offsetTop||0),f=i.pos[0]+(s.offsetLeft||0),l=p.range()[0]+a.top+(s.offsetTop||0),c=h.range()[0]+a.left+(s.offsetLeft||0),d=i.pos[1]+(s.offsetTop||0),v=n.tickFormat()(t.x()(i.point,i.pointIndex)),m=r.tickFormat()(t.y()(i.point,i.pointIndex));T!=null&&e.tooltip.show([f,l],T(i.series.key,v,m,i,B),"n",1,s,"x-nvtooltip"),N!=null&&e.tooltip.show([c,d],N(i.series.key,v,m,i,B),"e",1,s,"y-nvtooltip"),C!=null&&e.tooltip.show([o,u],C(i.series.key,v,m,i.point.tooltip,i,B),i.value<0?"n":"s",null,s)},H=[{key:"Magnify",disabled:!0}];return t.dispatch.on("elementMouseout.tooltip",function(e){A.tooltipHide(e),d3.select(".nv-chart-"+t.id()+" .nv-series-"+e.seriesIndex+" .nv-distx-"+e.pointIndex).attr("y1",0),d3.select(".nv-chart-"+t.id()+" .nv-series-"+e.seriesIndex+" 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small",showmaxmin:!0,columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0,is_unique:!0},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/nvd3/histogram/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Histogram",category:"Data processing (requires 'charts' tool from Toolshed)",execute:"histogram",keywords:"small medium large",columns:{y:{title:"Observations",is_numeric:!0}},settings:{x_axis_label:{init:"Values"},y_axis_label:{init:"Density"},y_axis_type:{init:"f"},y_axis_precision:{init:".2"}}})}),define("plugin/charts/nvd3/line/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Line chart",category:"Others",zoomable:!0,columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0,is_unique:!0},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/nvd3/scatter/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Scatter plot",category:"Others",zoomable:!0,columns:{x:{title:"Values for x-axis",is_numeric:!0},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/nvd3/stackedarea/config",["plugin/charts/nvd3/common/config"],function(e){return $.extend(!0,{},e,{title:"Regular",zoomable:!0,category:"Area charts",keywords:"default small",columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0,is_unique:!0},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/jqplot/common/config",["plugin/charts/forms/default"],function(e){return $.extend(!0,{},e,{title:"",category:"",library:"jqPlot",tag:"div",zoomable:!0,keywords:"medium",settings:{separator_grid:{title:"Grids",type:"separator"},x_axis_grid:{title:"Axis grid",info:"Would you like to show grid lines for the X axis?",type:"radiobutton",init:"false",data:[{label:"On",value:"true"},{label:"Off",value:"false"}]},y_axis_grid:{title:"Axis grid",info:"Would you like to show grid lines for the Y axis?",type:"radiobutton",init:"true",data:[{label:"On",value:"true"},{label:"Off",value:"false"}]}}})}),define("plugin/charts/jqplot/bar/config",["plugin/charts/jqplot/common/config"],function(e){return $.extend(!0,{},e,{title:"Regular",category:"Bar diagrams",columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0,is_unique:!0},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/jqplot/line/config",["plugin/charts/jqplot/common/config"],function(e){return $.extend(!0,{},e,{title:"Line chart",category:"Others",columns:{x:{title:"Values for x-axis",is_label:!0,is_auto:!0,is_unique:!0},y:{title:"Values for y-axis",is_numeric:!0}}})}),define("plugin/charts/jqplot/scatter/config",["plugin/charts/jqplot/common/config"],function(e){return $.extend(!0,{},e,{title:"Scatter plot",category:"Others",columns:{x:{title:"Values for x-axis",is_numeric:!0},y:{title:"Values for y-axis",is_numeric:!0}},settings:{x_axis_grid:{init:"true"}}})}),define("plugin/charts/jqplot/boxplot/config",["plugin/charts/jqplot/common/config"],function(e){return $.extend(!0,{},e,{title:"Box plot",category:"Data processing (requires 'charts' tool from Toolshed)",library:"jqPlot",tag:"div",execute:"boxplot",keywords:"small medium large",columns:{y:{title:"Observations",is_numeric:!0}},settings:{show_legend:{init:"false"}}})}),define("plugin/charts/jqplot/histogram_discrete/config",["plugin/charts/jqplot/common/config"],function(e){return $.extend(!0,{},e,{title:"Discrete Histogram",category:"Data processing (requires 'charts' tool from Toolshed)",execute:"histogramdiscrete",keywords:"small medium large",columns:{x:{title:"Observations",is_label:!0}},settings:{x_axis_label:{init:"Breaks"},y_axis_label:{init:"Density"}}})}),define("plugin/charts/others/heatmap/config",["plugin/charts/forms/default"],function(e){return $.extend(!0,{},e,{title:"Heatmap",category:"Others",library:"Custom",tag:"svg",keywords:"small",zoomable:!0,columns:{x:{title:"Column labels",is_label:!0,is_numeric:!0,is_unique:!0},y:{title:"Row labels",is_label:!0,is_numeric:!0,is_unique:!0},z:{title:"Observation",is_numeric:!0}},settings:{use_panels:{init:"true",hide:!0},color_set:{title:"Color scheme",info:"Select a color scheme for your heatmap",type:"select",init:"jet",data:[{label:"Cold-to-Hot",value:"hot"},{label:"Cool",value:"cool"},{label:"Copper",value:"copper"},{label:"Gray scale",value:"gray"},{label:"Jet",value:"jet"},{label:"No-Green",value:"no_green"},{label:"Ocean",value:"ocean"},{label:"Polar",value:"polar"},{label:"Red-to-Green",value:"redgreen"},{label:"Red-to-green (saturated)",value:"red2green"},{label:"Relief",value:"relief"},{label:"Seismograph",value:"seis"},{label:"Sealand",value:"sealand"},{label:"Split",value:"split"},{label:"Wysiwyg",value:"wysiwyg"}]},url_template:{title:"Url template",info:"Enter a url to link the labels with external sources. Use __LABEL__ as placeholder.",type:"text",init:"",placeholder:"http://someurl.com?id=__LABEL__"}}})}),define("plugin/charts/others/heatmap_cluster/config",["plugin/charts/others/heatmap/config"],function(e){return $.extend(!0,{},e,{title:"Clustered Heatmap",category:"Data processing (requires 'charts' tool from Toolshed)",execute:"heatmap",keywords:"small medium large"})}),define("plugin/charts/types",["plugin/charts/nvd3/bar/config","plugin/charts/nvd3/bar_stacked/config","plugin/charts/nvd3/bar_horizontal/config","plugin/charts/nvd3/bar_horizontal_stacked/config","plugin/charts/nvd3/line_focus/config","plugin/charts/nvd3/pie/config","plugin/charts/nvd3/stackedarea_full/config","plugin/charts/nvd3/stackedarea_stream/config","plugin/charts/nvd3/histogram/config","plugin/charts/nvd3/line/config","plugin/charts/nvd3/scatter/config","plugin/charts/nvd3/stackedarea/config","plugin/charts/jqplot/bar/config","plugin/charts/jqplot/line/config","plugin/charts/jqplot/scatter/config","plugin/charts/jqplot/boxplot/config","plugin/charts/jqplot/histogram_discrete/config","plugin/charts/others/heatmap/config","plugin/charts/others/heatmap_cluster/config"],function(e,t,n,r,i,s,o,u,a,f,l,c,h,p,d,v,m,g,y){return Backbone.Model.extend({defaults:{nvd3_bar:e,nvd3_bar_stacked:t,nvd3_bar_horizontal:n,nvd3_bar_horizontal_stacked:r,nvd3_line_focus:i,nvd3_stackedarea:c,nvd3_stackedarea_full:o,nvd3_stackedarea_stream:u,nvd3_pie:s,nvd3_line:f,nvd3_scatter:l,nvd3_histogram:a,jqplot_bar:h,jqplot_histogram_discrete:m,jqplot_line:p,jqplot_scatter:d,jqplot_boxplot:v,others_heatmap:g,others_heatmap_cluster:y}})}),define("plugin/app",["mvc/ui/ui-modal","mvc/ui/ui-portlet","mvc/ui/ui-misc","utils/utils","plugin/library/jobs","plugin/library/datasets","plugin/library/storage","utils/deferred","plugin/views/viewer","plugin/views/editor","plugin/models/config","plugin/models/chart","plugin/charts/types"],function(e,t,n,r,i,s,o,u,a,f,l,c,h){return Backbone.View.extend({initialize:function(t){this.options=t,Galaxy&&Galaxy.modal?this.modal=Galaxy.modal:this.modal=new e.View,this.config=new l,this.types=new h,this.chart=new c,this.jobs=new i(this),this.datasets=new s(this),this.storage=new o(this),this.deferred=new u,this.viewer_view=new a(this),this.editor_view=new f(this),this.$el.append(this.viewer_view.$el),this.$el.append(this.editor_view.$el);if(!this.storage.load())this.go("editor");else{this.go("viewer");var n=this;this.deferred.execute(function(){n.chart.trigger("redraw")})}},go:function(e){$(".tooltip").hide();switch(e){case"editor":this.editor_view.show(),this.viewer_view.hide();break;case"viewer":this.editor_view.hide(),this.viewer_view.show()}},chartPath:function(e){var t=e.split(/_(.+)/);return t.length>=2?t[0]+"/"+t[1]:(console.debug("FAILED App:chartPath() - Invalid format: "+e),undefined)}})}); \ No newline at end of file diff -r a8aa8c67fe5335df93e3195bb46beb62783325bd -r eca8b8ed910366a2f72b778ace674e3126832e66 static/style/blue/base.css --- a/static/style/blue/base.css +++ b/static/style/blue/base.css @@ -1412,7 +1412,7 @@ .ui-button-icon-plain{border:none !important;background:none !important;height:inherit !important;width:inherit !important;padding-right:3px !important} .ui-tabs .ui-tabs-add{font-size:0.8em;margin-right:5px} .ui-tabs .ui-tabs-delete{font-size:0.8em;margin-left:5px;cursor:pointer} -.ui-portlet,.ui-portlet-slim,.ui-portlet-repeat,.ui-portlet-slim,.ui-portlet-repeat{border:solid #d6b161 1px;-webkit-border-radius:3px;-moz-border-radius:3px;border-radius:3px;position:relative;clear:both;width:auto;height:100%}.ui-portlet .portlet-header,.ui-portlet-slim .portlet-header{background:#ebd9b2;border-bottom:solid #d6b161 1px;padding:2px 8px;overflow:visible;float:right;width:100%}.ui-portlet .portlet-header .portlet-title .portlet-title-text,.ui-portlet-slim .portlet-header .portlet-title .portlet-title-text{vertical-align:middle} +.ui-portlet,.ui-portlet-slim,.ui-portlet-repeat,.ui-portlet-slim,.ui-portlet-repeat{border:solid #d6b161 1px;-webkit-border-radius:3px;-moz-border-radius:3px;border-radius:3px;position:relative;clear:both;width:auto;height:100%}.ui-portlet .portlet-header,.ui-portlet-slim .portlet-header{background:#ebd9b2;border-bottom:solid #d6b161 1px;padding:2px 8px;overflow:visible;float:right;width:100%}.ui-portlet .portlet-header .portlet-title,.ui-portlet-slim .portlet-header .portlet-title{display:inline;vertical-align:middle}.ui-portlet .portlet-header .portlet-title .portlet-title-text,.ui-portlet-slim .portlet-header .portlet-title .portlet-title-text{vertical-align:middle} .ui-portlet .portlet-header .portlet-title .icon,.ui-portlet-slim .portlet-header .portlet-title .icon{font-size:1.2em;vertical-align:middle} .ui-portlet .portlet-buttons,.ui-portlet-slim .portlet-buttons{height:50px;padding:10px} .ui-portlet .portlet-content,.ui-portlet-slim .portlet-content{height:inherit;padding:10px;clear:both}.ui-portlet .portlet-content .content,.ui-portlet-slim .portlet-content .content{padding:10px;height:100%;width:100%}.ui-portlet .portlet-content .content .buttons,.ui-portlet-slim .portlet-content .content .buttons{height:50px;padding:10px} diff -r a8aa8c67fe5335df93e3195bb46beb62783325bd -r eca8b8ed910366a2f72b778ace674e3126832e66 static/style/src/less/ui.less --- a/static/style/src/less/ui.less +++ b/static/style/src/less/ui.less @@ -163,6 +163,8 @@ width:100%; .portlet-title { + display: inline; + vertical-align: middle; .portlet-title-text { vertical-align: middle; } Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: guerler: ToolForm: Show labels for menu bar buttons
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/a8aa8c67fe53/ Changeset: a8aa8c67fe53 User: guerler Date: 2014-12-10 15:16:04+00:00 Summary: ToolForm: Show labels for menu bar buttons Affected #: 3 files diff -r 3e068b37bca33448451682275b0bbb27d594ba41 -r a8aa8c67fe5335df93e3195bb46beb62783325bd client/galaxy/scripts/mvc/tools/tools-form.js --- a/client/galaxy/scripts/mvc/tools/tools-form.js +++ b/client/galaxy/scripts/mvc/tools/tools-form.js @@ -312,6 +312,7 @@ // button for version selection var requirements_button = new Ui.ButtonIcon({ icon : 'fa-info-circle', + title : 'Requirements', tooltip : 'Display tool requirements', onclick : function() { if (!this.visible) { @@ -342,12 +343,13 @@ if (options.versions && options.versions.length > 1) { for (var i in options.versions) { versions_button.addMenu({ - title : options.versions[i], + title : 'Switch to ' + options.versions[i], + version : options.versions[i], icon : 'fa-cube', onclick : function() { // here we update the tool version (some tools encode the version also in the id) - options.id = options.id.replace(options.version, this.title); - options.version = this.title; + options.id = options.id.replace(options.version, this.version); + options.version = this.version; // rebuild the model and form self.deferred.reset(); @@ -362,6 +364,7 @@ // button menu var menu_button = new Ui.ButtonMenu({ icon : 'fa-gear', + title : 'Options', tooltip : 'View available options' }); diff -r 3e068b37bca33448451682275b0bbb27d594ba41 -r a8aa8c67fe5335df93e3195bb46beb62783325bd static/scripts/mvc/tools/tools-form.js --- a/static/scripts/mvc/tools/tools-form.js +++ b/static/scripts/mvc/tools/tools-form.js @@ -312,6 +312,7 @@ // button for version selection var requirements_button = new Ui.ButtonIcon({ icon : 'fa-info-circle', + title : 'Requirements', tooltip : 'Display tool requirements', onclick : function() { if (!this.visible) { @@ -342,12 +343,13 @@ if (options.versions && options.versions.length > 1) { for (var i in options.versions) { versions_button.addMenu({ - title : options.versions[i], + title : 'Switch to ' + options.versions[i], + version : options.versions[i], icon : 'fa-cube', onclick : function() { // here we update the tool version (some tools encode the version also in the id) - options.id = options.id.replace(options.version, this.title); - options.version = this.title; + options.id = options.id.replace(options.version, this.version); + options.version = this.version; // rebuild the model and form self.deferred.reset(); @@ -362,6 +364,7 @@ // button menu var menu_button = new Ui.ButtonMenu({ icon : 'fa-gear', + title : 'Options', tooltip : 'View available options' }); diff -r 3e068b37bca33448451682275b0bbb27d594ba41 -r a8aa8c67fe5335df93e3195bb46beb62783325bd static/scripts/packed/mvc/tools/tools-form.js --- a/static/scripts/packed/mvc/tools/tools-form.js +++ b/static/scripts/packed/mvc/tools/tools-form.js @@ -1,1 +1,1 @@ -define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.message.update({status:"success",message:"Now you are using '"+n.options.name+"' version "+n.options.version+".",persistent:false});n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var w=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var x=this.options;this.message=new m.Message();var n="This tool requires ";for(var r in x.requirements){var v=x.requirements[r];n+=v.name;if(v.version){n+=" (Version "+v.version+")"}if(r<x.requirements.length-2){n+=", "}if(r==x.requirements.length-2){n+=" and "}}n+=".";var t=new m.ButtonIcon({icon:"fa-info-circle",tooltip:"Display tool requirements",onclick:function(){if(!this.visible){this.visible=true;w.message.update({persistent:true,message:n,status:"warning"})}else{this.visible=false;w.message.update({message:""})}}});if(!x.requirements||x.requirements.length==0){t.$el.hide()}var p=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Select another tool version"});if(x.versions&&x.versions.length>1){for(var r in x.versions){p.addMenu({title:x.versions[r],icon:"fa-cube",onclick:function(){x.id=x.id.replace(x.version,this.title);x.version=this.title;w.deferred.reset();w.deferred.execute(function(){w._buildModel()})}})}}else{p.$el.hide()}var s=new m.ButtonMenu({icon:"fa-gear",tooltip:"View available options"});if(x.biostar_url){s.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/p/new/post/")}});s.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/t/"+x.id+"/")}})}s.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+x.id)}});if(this.is_admin){s.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+x.id+"/download"}})}this.section=new l.View(w,{inputs:x.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+x.name+"</b> "+x.description+" (Version "+x.version+")",cls:"ui-portlet-slim",operations:{requirements:t,menu:s,versions:p},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+x.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){w.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(x.help!=""){this.$el.append(d.help(x.help))}if(x.citations){var u=$("<div/>");var o=new k.ToolCitationCollection();o.tool_id=x.id;var q=new a.CitationListView({el:u,collection:o});q.render();o.fetch();this.$el.append(u)}this.portlet.append(this.message.$el,true);this.portlet.append(this.section.$el);this.rebuild();if(x.message){this.message.update({persistent:true,status:"warning",message:x.message})}}});return{View:b}}); \ No newline at end of file +define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.message.update({status:"success",message:"Now you are using '"+n.options.name+"' version "+n.options.version+".",persistent:false});n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var w=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var x=this.options;this.message=new m.Message();var n="This tool requires ";for(var r in x.requirements){var v=x.requirements[r];n+=v.name;if(v.version){n+=" (Version "+v.version+")"}if(r<x.requirements.length-2){n+=", "}if(r==x.requirements.length-2){n+=" and "}}n+=".";var t=new m.ButtonIcon({icon:"fa-info-circle",title:"Requirements",tooltip:"Display tool requirements",onclick:function(){if(!this.visible){this.visible=true;w.message.update({persistent:true,message:n,status:"warning"})}else{this.visible=false;w.message.update({message:""})}}});if(!x.requirements||x.requirements.length==0){t.$el.hide()}var p=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Select another tool version"});if(x.versions&&x.versions.length>1){for(var r in x.versions){p.addMenu({title:"Switch to "+x.versions[r],version:x.versions[r],icon:"fa-cube",onclick:function(){x.id=x.id.replace(x.version,this.version);x.version=this.version;w.deferred.reset();w.deferred.execute(function(){w._buildModel()})}})}}else{p.$el.hide()}var s=new m.ButtonMenu({icon:"fa-gear",title:"Options",tooltip:"View available options"});if(x.biostar_url){s.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/p/new/post/")}});s.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/t/"+x.id+"/")}})}s.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+x.id)}});if(this.is_admin){s.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+x.id+"/download"}})}this.section=new l.View(w,{inputs:x.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+x.name+"</b> "+x.description+" (Version "+x.version+")",cls:"ui-portlet-slim",operations:{requirements:t,menu:s,versions:p},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+x.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){w.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(x.help!=""){this.$el.append(d.help(x.help))}if(x.citations){var u=$("<div/>");var o=new k.ToolCitationCollection();o.tool_id=x.id;var q=new a.CitationListView({el:u,collection:o});q.render();o.fetch();this.$el.append(u)}this.portlet.append(this.message.$el,true);this.portlet.append(this.section.$el);this.rebuild();if(x.message){this.message.update({persistent:true,status:"warning",message:x.message})}}});return{View:b}}); \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. 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commit/galaxy-central: guerler: ToolForm: Update tool tips
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/3e068b37bca3/ Changeset: 3e068b37bca3 User: guerler Date: 2014-12-10 14:56:23+00:00 Summary: ToolForm: Update tool tips Affected #: 3 files diff -r 5893d4487c1de27edd99fe07427e32b5c28d1ba8 -r 3e068b37bca33448451682275b0bbb27d594ba41 client/galaxy/scripts/mvc/tools/tools-form.js --- a/client/galaxy/scripts/mvc/tools/tools-form.js +++ b/client/galaxy/scripts/mvc/tools/tools-form.js @@ -312,7 +312,7 @@ // button for version selection var requirements_button = new Ui.ButtonIcon({ icon : 'fa-info-circle', - tooltip : 'Click to show/hide the tool requirements.', + tooltip : 'Display tool requirements', onclick : function() { if (!this.visible) { this.visible = true; @@ -337,7 +337,7 @@ var versions_button = new Ui.ButtonMenu({ icon : 'fa-cubes', title : 'Versions', - tooltip : 'Click to view available versions.' + tooltip : 'Select another tool version' }); if (options.versions && options.versions.length > 1) { for (var i in options.versions) { @@ -362,7 +362,7 @@ // button menu var menu_button = new Ui.ButtonMenu({ icon : 'fa-gear', - tooltip : 'Click to view a list of options.' + tooltip : 'View available options' }); // configure button selection diff -r 5893d4487c1de27edd99fe07427e32b5c28d1ba8 -r 3e068b37bca33448451682275b0bbb27d594ba41 static/scripts/mvc/tools/tools-form.js --- a/static/scripts/mvc/tools/tools-form.js +++ b/static/scripts/mvc/tools/tools-form.js @@ -312,7 +312,7 @@ // button for version selection var requirements_button = new Ui.ButtonIcon({ icon : 'fa-info-circle', - tooltip : 'Click to show/hide the tool requirements.', + tooltip : 'Display tool requirements', onclick : function() { if (!this.visible) { this.visible = true; @@ -337,7 +337,7 @@ var versions_button = new Ui.ButtonMenu({ icon : 'fa-cubes', title : 'Versions', - tooltip : 'Click to view available versions.' + tooltip : 'Select another tool version' }); if (options.versions && options.versions.length > 1) { for (var i in options.versions) { @@ -362,7 +362,7 @@ // button menu var menu_button = new Ui.ButtonMenu({ icon : 'fa-gear', - tooltip : 'Click to view a list of options.' + tooltip : 'View available options' }); // configure button selection diff -r 5893d4487c1de27edd99fe07427e32b5c28d1ba8 -r 3e068b37bca33448451682275b0bbb27d594ba41 static/scripts/packed/mvc/tools/tools-form.js --- a/static/scripts/packed/mvc/tools/tools-form.js +++ b/static/scripts/packed/mvc/tools/tools-form.js @@ -1,1 +1,1 @@ -define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.message.update({status:"success",message:"Now you are using '"+n.options.name+"' version "+n.options.version+".",persistent:false});n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var w=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var x=this.options;this.message=new m.Message();var n="This tool requires ";for(var r in x.requirements){var v=x.requirements[r];n+=v.name;if(v.version){n+=" (Version "+v.version+")"}if(r<x.requirements.length-2){n+=", "}if(r==x.requirements.length-2){n+=" and "}}n+=".";var t=new m.ButtonIcon({icon:"fa-info-circle",tooltip:"Click to show/hide the tool requirements.",onclick:function(){if(!this.visible){this.visible=true;w.message.update({persistent:true,message:n,status:"warning"})}else{this.visible=false;w.message.update({message:""})}}});if(!x.requirements||x.requirements.length==0){t.$el.hide()}var p=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Click to view available versions."});if(x.versions&&x.versions.length>1){for(var r in x.versions){p.addMenu({title:x.versions[r],icon:"fa-cube",onclick:function(){x.id=x.id.replace(x.version,this.title);x.version=this.title;w.deferred.reset();w.deferred.execute(function(){w._buildModel()})}})}}else{p.$el.hide()}var s=new m.ButtonMenu({icon:"fa-gear",tooltip:"Click to view a list of options."});if(x.biostar_url){s.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/p/new/post/")}});s.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/t/"+x.id+"/")}})}s.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+x.id)}});if(this.is_admin){s.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+x.id+"/download"}})}this.section=new l.View(w,{inputs:x.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+x.name+"</b> "+x.description+" (Version "+x.version+")",cls:"ui-portlet-slim",operations:{requirements:t,menu:s,versions:p},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+x.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){w.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(x.help!=""){this.$el.append(d.help(x.help))}if(x.citations){var u=$("<div/>");var o=new k.ToolCitationCollection();o.tool_id=x.id;var q=new a.CitationListView({el:u,collection:o});q.render();o.fetch();this.$el.append(u)}this.portlet.append(this.message.$el,true);this.portlet.append(this.section.$el);this.rebuild();if(x.message){this.message.update({persistent:true,status:"warning",message:x.message})}}});return{View:b}}); \ No newline at end of file +define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.message.update({status:"success",message:"Now you are using '"+n.options.name+"' version "+n.options.version+".",persistent:false});n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var w=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var x=this.options;this.message=new m.Message();var n="This tool requires ";for(var r in x.requirements){var v=x.requirements[r];n+=v.name;if(v.version){n+=" (Version "+v.version+")"}if(r<x.requirements.length-2){n+=", "}if(r==x.requirements.length-2){n+=" and "}}n+=".";var t=new m.ButtonIcon({icon:"fa-info-circle",tooltip:"Display tool requirements",onclick:function(){if(!this.visible){this.visible=true;w.message.update({persistent:true,message:n,status:"warning"})}else{this.visible=false;w.message.update({message:""})}}});if(!x.requirements||x.requirements.length==0){t.$el.hide()}var p=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Select another tool version"});if(x.versions&&x.versions.length>1){for(var r in x.versions){p.addMenu({title:x.versions[r],icon:"fa-cube",onclick:function(){x.id=x.id.replace(x.version,this.title);x.version=this.title;w.deferred.reset();w.deferred.execute(function(){w._buildModel()})}})}}else{p.$el.hide()}var s=new m.ButtonMenu({icon:"fa-gear",tooltip:"View available options"});if(x.biostar_url){s.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/p/new/post/")}});s.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/t/"+x.id+"/")}})}s.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+x.id)}});if(this.is_admin){s.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+x.id+"/download"}})}this.section=new l.View(w,{inputs:x.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+x.name+"</b> "+x.description+" (Version "+x.version+")",cls:"ui-portlet-slim",operations:{requirements:t,menu:s,versions:p},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+x.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){w.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(x.help!=""){this.$el.append(d.help(x.help))}if(x.citations){var u=$("<div/>");var o=new k.ToolCitationCollection();o.tool_id=x.id;var q=new a.CitationListView({el:u,collection:o});q.render();o.fetch();this.$el.append(u)}this.portlet.append(this.message.$el,true);this.portlet.append(this.section.$el);this.rebuild();if(x.message){this.message.update({persistent:true,status:"warning",message:x.message})}}});return{View:b}}); \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: guerler: Scratchbook: Fix renamed resize icon
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/5893d4487c1d/ Changeset: 5893d4487c1d User: guerler Date: 2014-12-10 08:48:37+00:00 Summary: Scratchbook: Fix renamed resize icon Affected #: 3 files diff -r da7372555da025bdc48c1a00278e282f200b2fc2 -r 5893d4487c1de27edd99fe07427e32b5c28d1ba8 client/galaxy/scripts/mvc/ui/ui-frames.js --- a/client/galaxy/scripts/mvc/ui/ui-frames.js +++ b/client/galaxy/scripts/mvc/ui/ui-frames.js @@ -1003,7 +1003,7 @@ '<div class="f-content">' + '<div class="f-cover"></div>' + '</div>' + - '<span class="f-resize f-icon corner fa fa-resize-full"></span>' + + '<span class="f-resize f-icon corner fa fa-expand"></span>' + '</div>'; }, diff -r da7372555da025bdc48c1a00278e282f200b2fc2 -r 5893d4487c1de27edd99fe07427e32b5c28d1ba8 static/scripts/mvc/ui/ui-frames.js --- a/static/scripts/mvc/ui/ui-frames.js +++ b/static/scripts/mvc/ui/ui-frames.js @@ -1003,7 +1003,7 @@ '<div class="f-content">' + '<div class="f-cover"></div>' + '</div>' + - '<span class="f-resize f-icon corner fa fa-resize-full"></span>' + + '<span class="f-resize f-icon corner fa fa-expand"></span>' + '</div>'; }, diff -r da7372555da025bdc48c1a00278e282f200b2fc2 -r 5893d4487c1de27edd99fe07427e32b5c28d1ba8 static/scripts/packed/mvc/ui/ui-frames.js --- a/static/scripts/packed/mvc/ui/ui-frames.js +++ b/static/scripts/packed/mvc/ui/ui-frames.js @@ -1,1 +1,1 @@ -define([],function(){var a=Backbone.View.extend({options:{frame:{cols:6,rows:3},rows:1000,cell:130,margin:5,scroll:5,top_min:40,frame_max:9,visible:true,onchange:null},cols:0,top:0,top_max:0,frame_z:0,frame_counter:0,frame_counter_id:0,frame_list:[],frame_shadow:null,visible:null,initialize:function(c){var b=this;if(c){this.options=_.defaults(c,this.options)}this.visible=this.options.visible;this.top=this.top_max=this.options.top_min;this.setElement(this._template());$(this.el).append(this._templateBackground());$(this.el).append(this._templateMenu());$(this.el_main).append($(this.el));var d="#frame-shadow";$(this.el).append(this._templateShadow(d.substring(1)));this.frame_shadow={id:d,screen_location:{},grid_location:{},grid_rank:null,grid_lock:false};this._frameResize(this.frame_shadow,{width:0,height:0});this.frame_list[d]=this.frame_shadow;this._panelRefresh();if(!this.visible){this.hide()}else{this.show()}var b=this;$(window).resize(function(){if(b.visible){b._panelRefresh()}})},add:function(c){var f={title:"",content:null,target:"",type:null};if(c){c=_.defaults(c,f)}else{c=f}if(!c.content){return}if(this.frame_counter>=this.options.frame_max){alert("You have reached the maximum number of allowed frames ("+this.options.frame_max+").");return}var d="#frame-"+(this.frame_counter_id++);if($(d).length!==0){alert("This frame already exists. This page might contain multiple frame managers.");return}this.top=this.options.top_min;var e=null;if(c.type==="url"){e=$(this._templateFrameUrl(d.substring(1),c.title,c.content))}else{if(c.type==="other"){e=$(this._templateFrame(d.substring(1),c.title));var b=e.find(".f-content");if(_.isFunction(c.content)){c.content(b)}else{b.append(c.content)}}}$(this.el).append(e);var g={id:d,screen_location:{},grid_location:{},grid_rank:null,grid_lock:false};c.width=this._toPixelCoord("width",this.options.frame.cols);c.height=this._toPixelCoord("height",this.options.frame.rows);this.frame_z=parseInt($(g.id).css("z-index"));this.frame_list[d]=g;this.frame_counter++;this._frameResize(g,{width:c.width,height:c.height});this._frameInsert(g,{top:0,left:0},true);if(!this.visible){this.show()}},show:function(){this.visible=true;this.$el.find(".frame").fadeIn("fast");this.$el.find(this.frame_shadow.id).hide();this.$el.find(".frame-background").show();this._panelRefresh();this._menuRefresh()},hide:function(){if(this.event.type!==null){return}this.visible=false;this.$el.find(".frame").fadeOut("fast");this.$el.find(".frame-background").hide();this.$el.find(".frame-menu").hide();this._menuRefresh()},length:function(){return this.frame_counter},setOnChange:function(b){this.options.onchange=b},event:{type:null,target:null,xy:null},events:{mousemove:"_eventFrameMouseMove",mouseup:"_eventFrameMouseUp",mouseleave:"_eventFrameMouseUp",mousewheel:"_eventPanelScroll",DOMMouseScroll:"_eventPanelScroll","mousedown .frame":"_eventFrameMouseDown","mousedown .frame-background":"_eventHide","mousedown .frame-scroll-up":"_eventPanelScroll_up","mousedown .frame-scroll-down":"_eventPanelScroll_down","mousedown .f-close":"_eventFrameClose","mousedown .f-pin":"_eventFrameLock"},_eventFrameMouseDown:function(b){if(this.event.type!==null){return}if($(b.target).hasClass("f-header")||$(b.target).hasClass("f-title")){this.event.type="drag"}if($(b.target).hasClass("f-resize")){this.event.type="resize"}if(this.event.type===null){return}b.preventDefault();this.event.target=this._frameIdentify(b.target);if(this.event.target.grid_lock){this.event.type=null;return}this.event.xy={x:b.originalEvent.pageX,y:b.originalEvent.pageY};this._frameDragStart(this.event.target)},_eventFrameMouseMove:function(h){if(this.event.type!="drag"&&this.event.type!="resize"){return}var f={x:h.originalEvent.pageX,y:h.originalEvent.pageY};var c={x:f.x-this.event.xy.x,y:f.y-this.event.xy.y};this.event.xy=f;var g=this._frameScreen(this.event.target);if(this.event.type=="resize"){g.width+=c.x;g.height+=c.y;var d=this.options.cell-this.options.margin-1;g.width=Math.max(g.width,d);g.height=Math.max(g.height,d);this._frameResize(this.event.target,g);g.width=this._toGridCoord("width",g.width)+1;g.height=this._toGridCoord("height",g.height)+1;g.width=this._toPixelCoord("width",g.width);g.height=this._toPixelCoord("height",g.height);this._frameResize(this.frame_shadow,g);this._frameInsert(this.frame_shadow,{top:this._toGridCoord("top",g.top),left:this._toGridCoord("left",g.left)})}if(this.event.type=="drag"){g.left+=c.x;g.top+=c.y;this._frameOffset(this.event.target,g);var b={top:this._toGridCoord("top",g.top),left:this._toGridCoord("left",g.left)};if(b.left!==0){b.left++}this._frameInsert(this.frame_shadow,b)}},_eventFrameMouseUp:function(b){if(this.event.type!="drag"&&this.event.type!="resize"){return}this._frameDragStop(this.event.target);this.event.type=null},_eventFrameClose:function(c){if(this.event.type!==null){return}c.preventDefault();var d=this._frameIdentify(c.target);var b=this;$(d.id).fadeOut("fast",function(){$(d.id).remove();delete b.frame_list[d.id];b.frame_counter--;b._panelRefresh(true);b._panelAnimationComplete();if(b.visible&&b.frame_counter==0){b.hide()}})},_eventFrameLock:function(b){if(this.event.type!==null){return}b.preventDefault();var c=this._frameIdentify(b.target);if(c.grid_lock){c.grid_lock=false;$(c.id).find(".f-pin").removeClass("toggle");$(c.id).find(".f-header").removeClass("f-not-allowed");$(c.id).find(".f-title").removeClass("f-not-allowed");$(c.id).find(".f-resize").show();$(c.id).find(".f-close").show()}else{c.grid_lock=true;$(c.id).find(".f-pin").addClass("toggle");$(c.id).find(".f-header").addClass("f-not-allowed");$(c.id).find(".f-title").addClass("f-not-allowed");$(c.id).find(".f-resize").hide();$(c.id).find(".f-close").hide()}},_eventHide:function(b){if(this.event.type!==null){return}this.hide()},_eventPanelScroll:function(b){if(this.event.type!==null||!this.visible){return}var c=$(b.srcElement).parents(".frame");if(c.length!==0){b.stopPropagation();return}b.preventDefault();var d=b.originalEvent.detail?b.originalEvent.detail:b.originalEvent.wheelDelta/-3;this._panelScroll(d)},_eventPanelScroll_up:function(b){if(this.event.type!==null){return}b.preventDefault();this._panelScroll(-this.options.scroll)},_eventPanelScroll_down:function(b){if(this.event.type!==null){return}b.preventDefault();this._panelScroll(this.options.scroll)},_frameIdentify:function(b){return this.frame_list["#"+$(b).closest(".frame").attr("id")]},_frameDragStart:function(c){this._frameFocus(c,true);var b=this._frameScreen(c);this._frameResize(this.frame_shadow,b);this._frameGrid(this.frame_shadow,c.grid_location);c.grid_location=null;$(this.frame_shadow.id).show();$(".f-cover").show()},_frameDragStop:function(c){this._frameFocus(c,false);var b=this._frameScreen(this.frame_shadow);this._frameResize(c,b);this._frameGrid(c,this.frame_shadow.grid_location,true);this.frame_shadow.grid_location=null;$(this.frame_shadow.id).hide();$(".f-cover").hide();this._panelAnimationComplete()},_toGridCoord:function(d,c){var b=(d=="width"||d=="height")?1:-1;if(d=="top"){c-=this.top}return parseInt((c+b*this.options.margin)/this.options.cell,10)},_toPixelCoord:function(d,e){var b=(d=="width"||d=="height")?1:-1;var c=(e*this.options.cell)-b*this.options.margin;if(d=="top"){c+=this.top}return c},_toGrid:function(b){return{top:this._toGridCoord("top",b.top),left:this._toGridCoord("left",b.left),width:this._toGridCoord("width",b.width),height:this._toGridCoord("height",b.height)}},_toPixel:function(b){return{top:this._toPixelCoord("top",b.top),left:this._toPixelCoord("left",b.left),width:this._toPixelCoord("width",b.width),height:this._toPixelCoord("height",b.height)}},_isCollision:function(d){function b(g,f){return !(g.left>f.left+f.width-1||g.left+g.width-1<f.left||g.top>f.top+f.height-1||g.top+g.height-1<f.top)}for(var c in this.frame_list){var e=this.frame_list[c];if(e.grid_location===null){continue}if(b(d,e.grid_location)){return true}}return false},_locationRank:function(b){return(b.top*this.cols)+b.left},_menuRefresh:function(){if(this.visible){if(this.top==this.options.top_min){$(".frame-scroll-up").hide()}else{$(".frame-scroll-up").show()}if(this.top==this.top_max){$(".frame-scroll-down").hide()}else{$(".frame-scroll-down").show()}}if(this.options.onchange){this.options.onchange()}},_panelAnimationComplete:function(){var b=this;$(".frame").promise().done(function(){b._panelScroll(0,true)})},_panelRefresh:function(b){this.cols=parseInt($(window).width()/this.options.cell,10)+1;this._frameInsert(null,null,b)},_panelScroll:function(g,b){var d=this.top-this.options.scroll*g;d=Math.max(d,this.top_max);d=Math.min(d,this.options.top_min);if(this.top!=d){for(var c in this.frame_list){var f=this.frame_list[c];if(f.grid_location!==null){var e={top:f.screen_location.top-(this.top-d),left:f.screen_location.left};this._frameOffset(f,e,b)}}this.top=d}this._menuRefresh()},_frameInsert:function(h,b,d){var c=[];if(h){h.grid_location=null;c.push([h,this._locationRank(b)])}var e=null;for(e in this.frame_list){var g=this.frame_list[e];if(g.grid_location!==null&&!g.grid_lock){g.grid_location=null;c.push([g,g.grid_rank])}}c.sort(function(k,f){var m=k[1];var l=f[1];return m<l?-1:(m>l?1:0)});for(e=0;e<c.length;e++){this._framePlace(c[e][0],d)}this.top_max=0;for(var e in this.frame_list){var h=this.frame_list[e];if(h.grid_location!==null){this.top_max=Math.max(this.top_max,h.grid_location.top+h.grid_location.height)}}this.top_max=$(window).height()-this.top_max*this.options.cell-2*this.options.margin;this.top_max=Math.min(this.top_max,this.options.top_min);this._menuRefresh()},_framePlace:function(h,c){h.grid_location=null;var f=this._toGrid(this._frameScreen(h));var b=false;for(var e=0;e<this.options.rows;e++){for(var d=0;d<Math.max(1,this.cols-f.width);d++){f.top=e;f.left=d;if(!this._isCollision(f)){b=true;break}}if(b){break}}if(b){this._frameGrid(h,f,c)}else{console.log("Grid dimensions exceeded.")}},_frameFocus:function(d,b){var c=this.frame_z+(b?1:0);$(d.id).css("z-index",c)},_frameOffset:function(e,d,c){e.screen_location.left=d.left;e.screen_location.top=d.top;if(c){this._frameFocus(e,true);var b=this;$(e.id).animate({top:d.top,left:d.left},"fast",function(){b._frameFocus(e,false)})}else{$(e.id).css({top:d.top,left:d.left})}},_frameResize:function(c,b){$(c.id).css({width:b.width,height:b.height});c.screen_location.width=b.width;c.screen_location.height=b.height},_frameGrid:function(d,b,c){d.grid_location=b;this._frameOffset(d,this._toPixel(b),c);d.grid_rank=this._locationRank(b)},_frameScreen:function(c){var b=c.screen_location;return{top:b.top,left:b.left,width:b.width,height:b.height}},_template:function(){return'<div class="galaxy-frame"></div>'},_templateFrame:function(c,b){if(!b){b=""}return'<div id="'+c+'" class="frame corner"><div class="f-header corner"><span class="f-title">'+b+'</span><span class="f-icon f-close fa fa-trash-o"></span><span class="f-icon f-pin fa fa-thumb-tack"></span></div><div class="f-content"><div class="f-cover"></div></div><span class="f-resize f-icon corner fa fa-resize-full"></span></div>'},_templateFrameUrl:function(e,d,b){if(b.indexOf("?")==-1){b+="?"}else{b+="&"}b+="widget=True";var c=$(this._templateFrame(e,d));c.find(".f-content").append('<iframe scrolling="auto" class="f-iframe" src="'+b+'"></iframe>');return c},_templateShadow:function(b){return'<div id="'+b+'" class="frame-shadow corner"></div>'},_templateBackground:function(){return'<div class="frame-background"></div>'},_templateMenu:function(){return'<div class="frame-scroll-up frame-menu fa fa-chevron-up fa-2x"></div><div class="frame-scroll-down frame-menu fa fa-chevron-down fa-2x"></div>'}});return{View:a}}); \ No newline at end of file +define([],function(){var a=Backbone.View.extend({options:{frame:{cols:6,rows:3},rows:1000,cell:130,margin:5,scroll:5,top_min:40,frame_max:9,visible:true,onchange:null},cols:0,top:0,top_max:0,frame_z:0,frame_counter:0,frame_counter_id:0,frame_list:[],frame_shadow:null,visible:null,initialize:function(c){var b=this;if(c){this.options=_.defaults(c,this.options)}this.visible=this.options.visible;this.top=this.top_max=this.options.top_min;this.setElement(this._template());$(this.el).append(this._templateBackground());$(this.el).append(this._templateMenu());$(this.el_main).append($(this.el));var d="#frame-shadow";$(this.el).append(this._templateShadow(d.substring(1)));this.frame_shadow={id:d,screen_location:{},grid_location:{},grid_rank:null,grid_lock:false};this._frameResize(this.frame_shadow,{width:0,height:0});this.frame_list[d]=this.frame_shadow;this._panelRefresh();if(!this.visible){this.hide()}else{this.show()}var b=this;$(window).resize(function(){if(b.visible){b._panelRefresh()}})},add:function(c){var f={title:"",content:null,target:"",type:null};if(c){c=_.defaults(c,f)}else{c=f}if(!c.content){return}if(this.frame_counter>=this.options.frame_max){alert("You have reached the maximum number of allowed frames ("+this.options.frame_max+").");return}var d="#frame-"+(this.frame_counter_id++);if($(d).length!==0){alert("This frame already exists. This page might contain multiple frame managers.");return}this.top=this.options.top_min;var e=null;if(c.type==="url"){e=$(this._templateFrameUrl(d.substring(1),c.title,c.content))}else{if(c.type==="other"){e=$(this._templateFrame(d.substring(1),c.title));var b=e.find(".f-content");if(_.isFunction(c.content)){c.content(b)}else{b.append(c.content)}}}$(this.el).append(e);var g={id:d,screen_location:{},grid_location:{},grid_rank:null,grid_lock:false};c.width=this._toPixelCoord("width",this.options.frame.cols);c.height=this._toPixelCoord("height",this.options.frame.rows);this.frame_z=parseInt($(g.id).css("z-index"));this.frame_list[d]=g;this.frame_counter++;this._frameResize(g,{width:c.width,height:c.height});this._frameInsert(g,{top:0,left:0},true);if(!this.visible){this.show()}},show:function(){this.visible=true;this.$el.find(".frame").fadeIn("fast");this.$el.find(this.frame_shadow.id).hide();this.$el.find(".frame-background").show();this._panelRefresh();this._menuRefresh()},hide:function(){if(this.event.type!==null){return}this.visible=false;this.$el.find(".frame").fadeOut("fast");this.$el.find(".frame-background").hide();this.$el.find(".frame-menu").hide();this._menuRefresh()},length:function(){return this.frame_counter},setOnChange:function(b){this.options.onchange=b},event:{type:null,target:null,xy:null},events:{mousemove:"_eventFrameMouseMove",mouseup:"_eventFrameMouseUp",mouseleave:"_eventFrameMouseUp",mousewheel:"_eventPanelScroll",DOMMouseScroll:"_eventPanelScroll","mousedown .frame":"_eventFrameMouseDown","mousedown .frame-background":"_eventHide","mousedown .frame-scroll-up":"_eventPanelScroll_up","mousedown .frame-scroll-down":"_eventPanelScroll_down","mousedown .f-close":"_eventFrameClose","mousedown .f-pin":"_eventFrameLock"},_eventFrameMouseDown:function(b){if(this.event.type!==null){return}if($(b.target).hasClass("f-header")||$(b.target).hasClass("f-title")){this.event.type="drag"}if($(b.target).hasClass("f-resize")){this.event.type="resize"}if(this.event.type===null){return}b.preventDefault();this.event.target=this._frameIdentify(b.target);if(this.event.target.grid_lock){this.event.type=null;return}this.event.xy={x:b.originalEvent.pageX,y:b.originalEvent.pageY};this._frameDragStart(this.event.target)},_eventFrameMouseMove:function(h){if(this.event.type!="drag"&&this.event.type!="resize"){return}var f={x:h.originalEvent.pageX,y:h.originalEvent.pageY};var c={x:f.x-this.event.xy.x,y:f.y-this.event.xy.y};this.event.xy=f;var g=this._frameScreen(this.event.target);if(this.event.type=="resize"){g.width+=c.x;g.height+=c.y;var d=this.options.cell-this.options.margin-1;g.width=Math.max(g.width,d);g.height=Math.max(g.height,d);this._frameResize(this.event.target,g);g.width=this._toGridCoord("width",g.width)+1;g.height=this._toGridCoord("height",g.height)+1;g.width=this._toPixelCoord("width",g.width);g.height=this._toPixelCoord("height",g.height);this._frameResize(this.frame_shadow,g);this._frameInsert(this.frame_shadow,{top:this._toGridCoord("top",g.top),left:this._toGridCoord("left",g.left)})}if(this.event.type=="drag"){g.left+=c.x;g.top+=c.y;this._frameOffset(this.event.target,g);var b={top:this._toGridCoord("top",g.top),left:this._toGridCoord("left",g.left)};if(b.left!==0){b.left++}this._frameInsert(this.frame_shadow,b)}},_eventFrameMouseUp:function(b){if(this.event.type!="drag"&&this.event.type!="resize"){return}this._frameDragStop(this.event.target);this.event.type=null},_eventFrameClose:function(c){if(this.event.type!==null){return}c.preventDefault();var d=this._frameIdentify(c.target);var b=this;$(d.id).fadeOut("fast",function(){$(d.id).remove();delete b.frame_list[d.id];b.frame_counter--;b._panelRefresh(true);b._panelAnimationComplete();if(b.visible&&b.frame_counter==0){b.hide()}})},_eventFrameLock:function(b){if(this.event.type!==null){return}b.preventDefault();var c=this._frameIdentify(b.target);if(c.grid_lock){c.grid_lock=false;$(c.id).find(".f-pin").removeClass("toggle");$(c.id).find(".f-header").removeClass("f-not-allowed");$(c.id).find(".f-title").removeClass("f-not-allowed");$(c.id).find(".f-resize").show();$(c.id).find(".f-close").show()}else{c.grid_lock=true;$(c.id).find(".f-pin").addClass("toggle");$(c.id).find(".f-header").addClass("f-not-allowed");$(c.id).find(".f-title").addClass("f-not-allowed");$(c.id).find(".f-resize").hide();$(c.id).find(".f-close").hide()}},_eventHide:function(b){if(this.event.type!==null){return}this.hide()},_eventPanelScroll:function(b){if(this.event.type!==null||!this.visible){return}var c=$(b.srcElement).parents(".frame");if(c.length!==0){b.stopPropagation();return}b.preventDefault();var d=b.originalEvent.detail?b.originalEvent.detail:b.originalEvent.wheelDelta/-3;this._panelScroll(d)},_eventPanelScroll_up:function(b){if(this.event.type!==null){return}b.preventDefault();this._panelScroll(-this.options.scroll)},_eventPanelScroll_down:function(b){if(this.event.type!==null){return}b.preventDefault();this._panelScroll(this.options.scroll)},_frameIdentify:function(b){return this.frame_list["#"+$(b).closest(".frame").attr("id")]},_frameDragStart:function(c){this._frameFocus(c,true);var b=this._frameScreen(c);this._frameResize(this.frame_shadow,b);this._frameGrid(this.frame_shadow,c.grid_location);c.grid_location=null;$(this.frame_shadow.id).show();$(".f-cover").show()},_frameDragStop:function(c){this._frameFocus(c,false);var b=this._frameScreen(this.frame_shadow);this._frameResize(c,b);this._frameGrid(c,this.frame_shadow.grid_location,true);this.frame_shadow.grid_location=null;$(this.frame_shadow.id).hide();$(".f-cover").hide();this._panelAnimationComplete()},_toGridCoord:function(d,c){var b=(d=="width"||d=="height")?1:-1;if(d=="top"){c-=this.top}return parseInt((c+b*this.options.margin)/this.options.cell,10)},_toPixelCoord:function(d,e){var b=(d=="width"||d=="height")?1:-1;var c=(e*this.options.cell)-b*this.options.margin;if(d=="top"){c+=this.top}return c},_toGrid:function(b){return{top:this._toGridCoord("top",b.top),left:this._toGridCoord("left",b.left),width:this._toGridCoord("width",b.width),height:this._toGridCoord("height",b.height)}},_toPixel:function(b){return{top:this._toPixelCoord("top",b.top),left:this._toPixelCoord("left",b.left),width:this._toPixelCoord("width",b.width),height:this._toPixelCoord("height",b.height)}},_isCollision:function(d){function b(g,f){return !(g.left>f.left+f.width-1||g.left+g.width-1<f.left||g.top>f.top+f.height-1||g.top+g.height-1<f.top)}for(var c in this.frame_list){var e=this.frame_list[c];if(e.grid_location===null){continue}if(b(d,e.grid_location)){return true}}return false},_locationRank:function(b){return(b.top*this.cols)+b.left},_menuRefresh:function(){if(this.visible){if(this.top==this.options.top_min){$(".frame-scroll-up").hide()}else{$(".frame-scroll-up").show()}if(this.top==this.top_max){$(".frame-scroll-down").hide()}else{$(".frame-scroll-down").show()}}if(this.options.onchange){this.options.onchange()}},_panelAnimationComplete:function(){var b=this;$(".frame").promise().done(function(){b._panelScroll(0,true)})},_panelRefresh:function(b){this.cols=parseInt($(window).width()/this.options.cell,10)+1;this._frameInsert(null,null,b)},_panelScroll:function(g,b){var d=this.top-this.options.scroll*g;d=Math.max(d,this.top_max);d=Math.min(d,this.options.top_min);if(this.top!=d){for(var c in this.frame_list){var f=this.frame_list[c];if(f.grid_location!==null){var e={top:f.screen_location.top-(this.top-d),left:f.screen_location.left};this._frameOffset(f,e,b)}}this.top=d}this._menuRefresh()},_frameInsert:function(h,b,d){var c=[];if(h){h.grid_location=null;c.push([h,this._locationRank(b)])}var e=null;for(e in this.frame_list){var g=this.frame_list[e];if(g.grid_location!==null&&!g.grid_lock){g.grid_location=null;c.push([g,g.grid_rank])}}c.sort(function(k,f){var m=k[1];var l=f[1];return m<l?-1:(m>l?1:0)});for(e=0;e<c.length;e++){this._framePlace(c[e][0],d)}this.top_max=0;for(var e in this.frame_list){var h=this.frame_list[e];if(h.grid_location!==null){this.top_max=Math.max(this.top_max,h.grid_location.top+h.grid_location.height)}}this.top_max=$(window).height()-this.top_max*this.options.cell-2*this.options.margin;this.top_max=Math.min(this.top_max,this.options.top_min);this._menuRefresh()},_framePlace:function(h,c){h.grid_location=null;var f=this._toGrid(this._frameScreen(h));var b=false;for(var e=0;e<this.options.rows;e++){for(var d=0;d<Math.max(1,this.cols-f.width);d++){f.top=e;f.left=d;if(!this._isCollision(f)){b=true;break}}if(b){break}}if(b){this._frameGrid(h,f,c)}else{console.log("Grid dimensions exceeded.")}},_frameFocus:function(d,b){var c=this.frame_z+(b?1:0);$(d.id).css("z-index",c)},_frameOffset:function(e,d,c){e.screen_location.left=d.left;e.screen_location.top=d.top;if(c){this._frameFocus(e,true);var b=this;$(e.id).animate({top:d.top,left:d.left},"fast",function(){b._frameFocus(e,false)})}else{$(e.id).css({top:d.top,left:d.left})}},_frameResize:function(c,b){$(c.id).css({width:b.width,height:b.height});c.screen_location.width=b.width;c.screen_location.height=b.height},_frameGrid:function(d,b,c){d.grid_location=b;this._frameOffset(d,this._toPixel(b),c);d.grid_rank=this._locationRank(b)},_frameScreen:function(c){var b=c.screen_location;return{top:b.top,left:b.left,width:b.width,height:b.height}},_template:function(){return'<div class="galaxy-frame"></div>'},_templateFrame:function(c,b){if(!b){b=""}return'<div id="'+c+'" class="frame corner"><div class="f-header corner"><span class="f-title">'+b+'</span><span class="f-icon f-close fa fa-trash-o"></span><span class="f-icon f-pin fa fa-thumb-tack"></span></div><div class="f-content"><div class="f-cover"></div></div><span class="f-resize f-icon corner fa fa-expand"></span></div>'},_templateFrameUrl:function(e,d,b){if(b.indexOf("?")==-1){b+="?"}else{b+="&"}b+="widget=True";var c=$(this._templateFrame(e,d));c.find(".f-content").append('<iframe scrolling="auto" class="f-iframe" src="'+b+'"></iframe>');return c},_templateShadow:function(b){return'<div id="'+b+'" class="frame-shadow corner"></div>'},_templateBackground:function(){return'<div class="frame-background"></div>'},_templateMenu:function(){return'<div class="frame-scroll-up frame-menu fa fa-chevron-up fa-2x"></div><div class="frame-scroll-down frame-menu fa fa-chevron-down fa-2x"></div>'}});return{View:a}}); \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: guerler: ToolForm: Fix typo
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/da7372555da0/ Changeset: da7372555da0 User: guerler Date: 2014-12-10 08:38:16+00:00 Summary: ToolForm: Fix typo Affected #: 3 files diff -r dae2fd928357c019b33db953fd840eab8512a1a3 -r da7372555da025bdc48c1a00278e282f200b2fc2 client/galaxy/scripts/mvc/tools/tools-form.js --- a/client/galaxy/scripts/mvc/tools/tools-form.js +++ b/client/galaxy/scripts/mvc/tools/tools-form.js @@ -122,7 +122,7 @@ // notification self.message.update({ status : 'success', - message : 'Now you are using using \'' + self.options.name + '\' version ' + self.options.version + '.', + message : 'Now you are using \'' + self.options.name + '\' version ' + self.options.version + '.', persistent : false }); diff -r dae2fd928357c019b33db953fd840eab8512a1a3 -r da7372555da025bdc48c1a00278e282f200b2fc2 static/scripts/mvc/tools/tools-form.js --- a/static/scripts/mvc/tools/tools-form.js +++ b/static/scripts/mvc/tools/tools-form.js @@ -122,7 +122,7 @@ // notification self.message.update({ status : 'success', - message : 'Now you are using using \'' + self.options.name + '\' version ' + self.options.version + '.', + message : 'Now you are using \'' + self.options.name + '\' version ' + self.options.version + '.', persistent : false }); diff -r dae2fd928357c019b33db953fd840eab8512a1a3 -r da7372555da025bdc48c1a00278e282f200b2fc2 static/scripts/packed/mvc/tools/tools-form.js --- a/static/scripts/packed/mvc/tools/tools-form.js +++ b/static/scripts/packed/mvc/tools/tools-form.js @@ -1,1 +1,1 @@ -define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.message.update({status:"success",message:"Now you are using using '"+n.options.name+"' version "+n.options.version+".",persistent:false});n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var w=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var x=this.options;this.message=new m.Message();var n="This tool requires ";for(var r in x.requirements){var v=x.requirements[r];n+=v.name;if(v.version){n+=" (Version "+v.version+")"}if(r<x.requirements.length-2){n+=", "}if(r==x.requirements.length-2){n+=" and "}}n+=".";var t=new m.ButtonIcon({icon:"fa-info-circle",tooltip:"Click to show/hide the tool requirements.",onclick:function(){if(!this.visible){this.visible=true;w.message.update({persistent:true,message:n,status:"warning"})}else{this.visible=false;w.message.update({message:""})}}});if(!x.requirements||x.requirements.length==0){t.$el.hide()}var p=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Click to view available versions."});if(x.versions&&x.versions.length>1){for(var r in x.versions){p.addMenu({title:x.versions[r],icon:"fa-cube",onclick:function(){x.id=x.id.replace(x.version,this.title);x.version=this.title;w.deferred.reset();w.deferred.execute(function(){w._buildModel()})}})}}else{p.$el.hide()}var s=new m.ButtonMenu({icon:"fa-gear",tooltip:"Click to view a list of options."});if(x.biostar_url){s.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/p/new/post/")}});s.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/t/"+x.id+"/")}})}s.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+x.id)}});if(this.is_admin){s.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+x.id+"/download"}})}this.section=new l.View(w,{inputs:x.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+x.name+"</b> "+x.description+" (Version "+x.version+")",cls:"ui-portlet-slim",operations:{requirements:t,menu:s,versions:p},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+x.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){w.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(x.help!=""){this.$el.append(d.help(x.help))}if(x.citations){var u=$("<div/>");var o=new k.ToolCitationCollection();o.tool_id=x.id;var q=new a.CitationListView({el:u,collection:o});q.render();o.fetch();this.$el.append(u)}this.portlet.append(this.message.$el,true);this.portlet.append(this.section.$el);this.rebuild();if(x.message){this.message.update({persistent:true,status:"warning",message:x.message})}}});return{View:b}}); \ No newline at end of file +define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.message.update({status:"success",message:"Now you are using '"+n.options.name+"' version "+n.options.version+".",persistent:false});n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var w=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var x=this.options;this.message=new m.Message();var n="This tool requires ";for(var r in x.requirements){var v=x.requirements[r];n+=v.name;if(v.version){n+=" (Version "+v.version+")"}if(r<x.requirements.length-2){n+=", "}if(r==x.requirements.length-2){n+=" and "}}n+=".";var t=new m.ButtonIcon({icon:"fa-info-circle",tooltip:"Click to show/hide the tool requirements.",onclick:function(){if(!this.visible){this.visible=true;w.message.update({persistent:true,message:n,status:"warning"})}else{this.visible=false;w.message.update({message:""})}}});if(!x.requirements||x.requirements.length==0){t.$el.hide()}var p=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Click to view available versions."});if(x.versions&&x.versions.length>1){for(var r in x.versions){p.addMenu({title:x.versions[r],icon:"fa-cube",onclick:function(){x.id=x.id.replace(x.version,this.title);x.version=this.title;w.deferred.reset();w.deferred.execute(function(){w._buildModel()})}})}}else{p.$el.hide()}var s=new m.ButtonMenu({icon:"fa-gear",tooltip:"Click to view a list of options."});if(x.biostar_url){s.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/p/new/post/")}});s.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/t/"+x.id+"/")}})}s.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+x.id)}});if(this.is_admin){s.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+x.id+"/download"}})}this.section=new l.View(w,{inputs:x.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+x.name+"</b> "+x.description+" (Version "+x.version+")",cls:"ui-portlet-slim",operations:{requirements:t,menu:s,versions:p},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+x.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){w.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(x.help!=""){this.$el.append(d.help(x.help))}if(x.citations){var u=$("<div/>");var o=new k.ToolCitationCollection();o.tool_id=x.id;var q=new a.CitationListView({el:u,collection:o});q.render();o.fetch();this.$el.append(u)}this.portlet.append(this.message.$el,true);this.portlet.append(this.section.$el);this.rebuild();if(x.message){this.message.update({persistent:true,status:"warning",message:x.message})}}});return{View:b}}); \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: guerler: Ui: Allow portlet elements without paragraph wrapping
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/dae2fd928357/ Changeset: dae2fd928357 User: guerler Date: 2014-12-10 08:35:36+00:00 Summary: Ui: Allow portlet elements without paragraph wrapping Affected #: 6 files diff -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 -r dae2fd928357c019b33db953fd840eab8512a1a3 client/galaxy/scripts/mvc/tools/tools-form.js --- a/client/galaxy/scripts/mvc/tools/tools-form.js +++ b/client/galaxy/scripts/mvc/tools/tools-form.js @@ -469,7 +469,7 @@ } // append message - this.portlet.append(this.message.$el); + this.portlet.append(this.message.$el, true); // append tool section this.portlet.append(this.section.$el); diff -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 -r dae2fd928357c019b33db953fd840eab8512a1a3 client/galaxy/scripts/mvc/ui/ui-portlet.js --- a/client/galaxy/scripts/mvc/ui/ui-portlet.js +++ b/client/galaxy/scripts/mvc/ui/ui-portlet.js @@ -89,10 +89,14 @@ }, // append - append: function($el) { - this.$content.append(Utils.wrap($el)); + append: function($el, unwrapped) { + if (unwrapped) { + this.$content.append($el); + } else { + this.$content.append(Utils.wrap($el)); + } }, - + // content content: function() { return this.$content; diff -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 -r dae2fd928357c019b33db953fd840eab8512a1a3 static/scripts/mvc/tools/tools-form.js --- a/static/scripts/mvc/tools/tools-form.js +++ b/static/scripts/mvc/tools/tools-form.js @@ -469,7 +469,7 @@ } // append message - this.portlet.append(this.message.$el); + this.portlet.append(this.message.$el, true); // append tool section this.portlet.append(this.section.$el); diff -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 -r dae2fd928357c019b33db953fd840eab8512a1a3 static/scripts/mvc/ui/ui-portlet.js --- a/static/scripts/mvc/ui/ui-portlet.js +++ b/static/scripts/mvc/ui/ui-portlet.js @@ -89,10 +89,14 @@ }, // append - append: function($el) { - this.$content.append(Utils.wrap($el)); + append: function($el, unwrapped) { + if (unwrapped) { + this.$content.append($el); + } else { + this.$content.append(Utils.wrap($el)); + } }, - + // content content: function() { return this.$content; diff -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 -r dae2fd928357c019b33db953fd840eab8512a1a3 static/scripts/packed/mvc/tools/tools-form.js --- a/static/scripts/packed/mvc/tools/tools-form.js +++ b/static/scripts/packed/mvc/tools/tools-form.js @@ -1,1 +1,1 @@ -define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.message.update({status:"success",message:"Now you are using using '"+n.options.name+"' version "+n.options.version+".",persistent:false});n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var w=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var x=this.options;this.message=new m.Message();var n="This tool requires ";for(var r in x.requirements){var v=x.requirements[r];n+=v.name;if(v.version){n+=" (Version "+v.version+")"}if(r<x.requirements.length-2){n+=", "}if(r==x.requirements.length-2){n+=" and "}}n+=".";var t=new m.ButtonIcon({icon:"fa-info-circle",tooltip:"Click to show/hide the tool requirements.",onclick:function(){if(!this.visible){this.visible=true;w.message.update({persistent:true,message:n,status:"warning"})}else{this.visible=false;w.message.update({message:""})}}});if(!x.requirements||x.requirements.length==0){t.$el.hide()}var p=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Click to view available versions."});if(x.versions&&x.versions.length>1){for(var r in x.versions){p.addMenu({title:x.versions[r],icon:"fa-cube",onclick:function(){x.id=x.id.replace(x.version,this.title);x.version=this.title;w.deferred.reset();w.deferred.execute(function(){w._buildModel()})}})}}else{p.$el.hide()}var s=new m.ButtonMenu({icon:"fa-gear",tooltip:"Click to view a list of options."});if(x.biostar_url){s.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/p/new/post/")}});s.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/t/"+x.id+"/")}})}s.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+x.id)}});if(this.is_admin){s.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+x.id+"/download"}})}this.section=new l.View(w,{inputs:x.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+x.name+"</b> "+x.description+" (Version "+x.version+")",cls:"ui-portlet-slim",operations:{requirements:t,menu:s,versions:p},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+x.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){w.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(x.help!=""){this.$el.append(d.help(x.help))}if(x.citations){var u=$("<div/>");var o=new k.ToolCitationCollection();o.tool_id=x.id;var q=new a.CitationListView({el:u,collection:o});q.render();o.fetch();this.$el.append(u)}this.portlet.append(this.message.$el);this.portlet.append(this.section.$el);this.rebuild();if(x.message){this.message.update({persistent:true,status:"warning",message:x.message})}}});return{View:b}}); \ No newline at end of file +define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.message.update({status:"success",message:"Now you are using using '"+n.options.name+"' version "+n.options.version+".",persistent:false});n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var w=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var x=this.options;this.message=new m.Message();var n="This tool requires ";for(var r in x.requirements){var v=x.requirements[r];n+=v.name;if(v.version){n+=" (Version "+v.version+")"}if(r<x.requirements.length-2){n+=", "}if(r==x.requirements.length-2){n+=" and "}}n+=".";var t=new m.ButtonIcon({icon:"fa-info-circle",tooltip:"Click to show/hide the tool requirements.",onclick:function(){if(!this.visible){this.visible=true;w.message.update({persistent:true,message:n,status:"warning"})}else{this.visible=false;w.message.update({message:""})}}});if(!x.requirements||x.requirements.length==0){t.$el.hide()}var p=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Click to view available versions."});if(x.versions&&x.versions.length>1){for(var r in x.versions){p.addMenu({title:x.versions[r],icon:"fa-cube",onclick:function(){x.id=x.id.replace(x.version,this.title);x.version=this.title;w.deferred.reset();w.deferred.execute(function(){w._buildModel()})}})}}else{p.$el.hide()}var s=new m.ButtonMenu({icon:"fa-gear",tooltip:"Click to view a list of options."});if(x.biostar_url){s.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/p/new/post/")}});s.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/t/"+x.id+"/")}})}s.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+x.id)}});if(this.is_admin){s.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+x.id+"/download"}})}this.section=new l.View(w,{inputs:x.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+x.name+"</b> "+x.description+" (Version "+x.version+")",cls:"ui-portlet-slim",operations:{requirements:t,menu:s,versions:p},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+x.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){w.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(x.help!=""){this.$el.append(d.help(x.help))}if(x.citations){var u=$("<div/>");var o=new k.ToolCitationCollection();o.tool_id=x.id;var q=new a.CitationListView({el:u,collection:o});q.render();o.fetch();this.$el.append(u)}this.portlet.append(this.message.$el,true);this.portlet.append(this.section.$el);this.rebuild();if(x.message){this.message.update({persistent:true,status:"warning",message:x.message})}}});return{View:b}}); \ No newline at end of file diff -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 -r dae2fd928357c019b33db953fd840eab8512a1a3 static/scripts/packed/mvc/ui/ui-portlet.js --- a/static/scripts/packed/mvc/ui/ui-portlet.js +++ b/static/scripts/packed/mvc/ui/ui-portlet.js @@ -1,1 +1,1 @@ -define(["utils/utils"],function(a){var b=Backbone.View.extend({visible:false,optionsDefault:{title:"",icon:"",buttons:null,body:null,scrollable:true,nopadding:false,operations:null,placement:"bottom",cls:"ui-portlet",operations_flt:"right"},$title:null,$content:null,$buttons:null,$operations:null,initialize:function(e){this.options=a.merge(e,this.optionsDefault);this.setElement(this._template(this.options));this.$content=this.$el.find("#content");this.$title=this.$el.find("#portlet-title-text");var d=this.$el.find("#portlet-content");if(!this.options.scrollable){if(this.options.title){d.addClass("no-scroll")}else{d.addClass("no-scroll-no-title")}}else{d.addClass("scroll")}if(this.options.nopadding){d.css("padding","0px");this.$content.css("padding","0px")}this.$buttons=$(this.el).find("#buttons");if(this.options.buttons){var c=this;$.each(this.options.buttons,function(f,g){g.$el.prop("id",f);c.$buttons.append(g.$el)})}else{this.$buttons.remove()}this.$operations=$(this.el).find("#operations");if(this.options.operations){var c=this;$.each(this.options.operations,function(f,g){g.$el.prop("id",f);c.$operations.append(g.$el)})}if(this.options.body){this.append(this.options.body)}},append:function(c){this.$content.append(a.wrap(c))},content:function(){return this.$content},show:function(){this.$el.fadeIn("fast");this.visible=true},hide:function(){this.$el.fadeOut("fast");this.visible=false},enableButton:function(c){this.$buttons.find("#"+c).prop("disabled",false)},disableButton:function(c){this.$buttons.find("#"+c).prop("disabled",true)},hideOperation:function(c){this.$operations.find("#"+c).hide()},showOperation:function(c){this.$operations.find("#"+c).show()},setOperation:function(e,d){var c=this.$operations.find("#"+e);c.off("click");c.on("click",d)},title:function(d){var c=this.$title;if(d){c.html(d)}return c.html()},_template:function(d){var c='<div id="'+d.id+'" class="'+d.cls+'">';if(d.title){c+='<div id="portlet-header" class="portlet-header"><div id="operations" style="float: '+d.operations_flt+';"></div><div class="portlet-title">';if(d.icon){c+='<i class="icon fa '+d.icon+'"> </i>'}c+='<span id="portlet-title-text" class="portlet-title-text">'+d.title+"</span></div></div>"}c+='<div id="portlet-content" class="portlet-content">';if(d.placement=="top"){c+='<div id="buttons" class="buttons"></div>'}c+='<div id="content" class="content"></div>';if(d.placement=="bottom"){c+='<div id="buttons" class="buttons"></div>'}c+="</div></div>";return c}});return{View:b}}); \ No newline at end of file +define(["utils/utils"],function(a){var b=Backbone.View.extend({visible:false,optionsDefault:{title:"",icon:"",buttons:null,body:null,scrollable:true,nopadding:false,operations:null,placement:"bottom",cls:"ui-portlet",operations_flt:"right"},$title:null,$content:null,$buttons:null,$operations:null,initialize:function(e){this.options=a.merge(e,this.optionsDefault);this.setElement(this._template(this.options));this.$content=this.$el.find("#content");this.$title=this.$el.find("#portlet-title-text");var d=this.$el.find("#portlet-content");if(!this.options.scrollable){if(this.options.title){d.addClass("no-scroll")}else{d.addClass("no-scroll-no-title")}}else{d.addClass("scroll")}if(this.options.nopadding){d.css("padding","0px");this.$content.css("padding","0px")}this.$buttons=$(this.el).find("#buttons");if(this.options.buttons){var c=this;$.each(this.options.buttons,function(f,g){g.$el.prop("id",f);c.$buttons.append(g.$el)})}else{this.$buttons.remove()}this.$operations=$(this.el).find("#operations");if(this.options.operations){var c=this;$.each(this.options.operations,function(f,g){g.$el.prop("id",f);c.$operations.append(g.$el)})}if(this.options.body){this.append(this.options.body)}},append:function(d,c){if(c){this.$content.append(d)}else{this.$content.append(a.wrap(d))}},content:function(){return this.$content},show:function(){this.$el.fadeIn("fast");this.visible=true},hide:function(){this.$el.fadeOut("fast");this.visible=false},enableButton:function(c){this.$buttons.find("#"+c).prop("disabled",false)},disableButton:function(c){this.$buttons.find("#"+c).prop("disabled",true)},hideOperation:function(c){this.$operations.find("#"+c).hide()},showOperation:function(c){this.$operations.find("#"+c).show()},setOperation:function(e,d){var c=this.$operations.find("#"+e);c.off("click");c.on("click",d)},title:function(d){var c=this.$title;if(d){c.html(d)}return c.html()},_template:function(d){var c='<div id="'+d.id+'" class="'+d.cls+'">';if(d.title){c+='<div id="portlet-header" class="portlet-header"><div id="operations" style="float: '+d.operations_flt+';"></div><div class="portlet-title">';if(d.icon){c+='<i class="icon fa '+d.icon+'"> </i>'}c+='<span id="portlet-title-text" class="portlet-title-text">'+d.title+"</span></div></div>"}c+='<div id="portlet-content" class="portlet-content">';if(d.placement=="top"){c+='<div id="buttons" class="buttons"></div>'}c+='<div id="content" class="content"></div>';if(d.placement=="bottom"){c+='<div id="buttons" class="buttons"></div>'}c+="</div></div>";return c}});return{View:b}}); \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: guerler: ToolForm: Add tool requirement details
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/9b4153f9ccd5/ Changeset: 9b4153f9ccd5 User: guerler Date: 2014-12-10 08:22:19+00:00 Summary: ToolForm: Add tool requirement details Affected #: 7 files diff -r 5bdce43378bddc43988616a16b3fdb055c315d52 -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 client/galaxy/scripts/mvc/tools/tools-form.js --- a/client/galaxy/scripts/mvc/tools/tools-form.js +++ b/client/galaxy/scripts/mvc/tools/tools-form.js @@ -119,6 +119,13 @@ // build form self._buildForm(); + // notification + self.message.update({ + status : 'success', + message : 'Now you are using using \'' + self.options.name + '\' version ' + self.options.version + '.', + persistent : false + }); + // process completed self.deferred.done(process_id); @@ -282,11 +289,55 @@ // link model options var options = this.options; + // create message view + this.message = new Ui.Message(); + + // construct tool requirements message content + var requirements_message = 'This tool requires '; + for (var i in options.requirements) { + var req = options.requirements[i]; + requirements_message += req.name; + if (req.version) { + requirements_message += ' (Version ' + req.version + ')'; + } + if (i < options.requirements.length - 2) { + requirements_message += ', '; + } + if (i == options.requirements.length - 2) { + requirements_message += ' and '; + } + } + requirements_message += '.'; + + // button for version selection + var requirements_button = new Ui.ButtonIcon({ + icon : 'fa-info-circle', + tooltip : 'Click to show/hide the tool requirements.', + onclick : function() { + if (!this.visible) { + this.visible = true; + self.message.update({ + persistent : true, + message : requirements_message, + status : 'warning' + }); + } else { + this.visible = false; + self.message.update({ + message : '' + }); + } + } + }); + if (!options.requirements || options.requirements.length == 0) { + requirements_button.$el.hide(); + } + // button for version selection var versions_button = new Ui.ButtonMenu({ icon : 'fa-cubes', title : 'Versions', - tooltip : 'Click to see available versions.' + tooltip : 'Click to view available versions.' }); if (options.versions && options.versions.length > 1) { for (var i in options.versions) { @@ -311,7 +362,7 @@ // button menu var menu_button = new Ui.ButtonMenu({ icon : 'fa-gear', - tooltip : 'Click to see a list of options.' + tooltip : 'Click to view a list of options.' }); // configure button selection @@ -379,8 +430,9 @@ title : '<b>' + options.name + '</b> ' + options.description + ' (Version ' + options.version + ')', cls : 'ui-portlet-slim', operations: { - menu : menu_button, - versions : versions_button + requirements : requirements_button, + menu : menu_button, + versions : versions_button }, buttons: { execute : new Ui.Button({ @@ -417,20 +469,22 @@ } // append message - if (options.message) { - var message = new Ui.Message({ - persistent : true, - status : 'warning', - message : options.message - }); - this.portlet.append(message.$el); - } + this.portlet.append(this.message.$el); // append tool section this.portlet.append(this.section.$el); // rebuild the underlying data structure this.rebuild(); + + // show message if available in model + if (options.message) { + this.message.update({ + persistent : true, + status : 'warning', + message : options.message + }); + } } }); diff -r 5bdce43378bddc43988616a16b3fdb055c315d52 -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 client/galaxy/scripts/mvc/ui/ui-misc.js --- a/client/galaxy/scripts/mvc/ui/ui-misc.js +++ b/client/galaxy/scripts/mvc/ui/ui-misc.js @@ -278,11 +278,15 @@ this.$el.find('.alert').append(options.message); this.$el.fadeIn(); - // check if message is persistent + // clear previous timeouts + if (this.timeout) { + window.clearTimeout(this.timeout); + } + + // set timeout if message is not persistent if (!options.persistent) { - // set timer var self = this; - window.setTimeout(function() { + this.timeout = window.setTimeout(function() { if (self.$el.is(':visible')) { self.$el.fadeOut(); } else { diff -r 5bdce43378bddc43988616a16b3fdb055c315d52 -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 lib/galaxy/webapps/galaxy/api/tools.py --- a/lib/galaxy/webapps/galaxy/api/tools.py +++ b/lib/galaxy/webapps/galaxy/api/tools.py @@ -741,13 +741,23 @@ for t in tools: tool_versions.append(t.version) + ## add information with underlying requirements and their versions + tool_requirements = [] + if tool.requirements: + for requirement in tool.requirements: + tool_requirements.append({ + 'name' : requirement.name, + 'version' : requirement.version + }) + # add additional properties tool_model.update({ 'help' : tool_help, 'citations' : tool_citations, 'biostar_url' : trans.app.config.biostar_url, 'message' : tool_message, - 'versions' : tool_versions + 'versions' : tool_versions, + 'requirements' : tool_requirements }) # check for errors diff -r 5bdce43378bddc43988616a16b3fdb055c315d52 -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 static/scripts/mvc/tools/tools-form.js --- a/static/scripts/mvc/tools/tools-form.js +++ b/static/scripts/mvc/tools/tools-form.js @@ -119,6 +119,13 @@ // build form self._buildForm(); + // notification + self.message.update({ + status : 'success', + message : 'Now you are using using \'' + self.options.name + '\' version ' + self.options.version + '.', + persistent : false + }); + // process completed self.deferred.done(process_id); @@ -282,11 +289,55 @@ // link model options var options = this.options; + // create message view + this.message = new Ui.Message(); + + // construct tool requirements message content + var requirements_message = 'This tool requires '; + for (var i in options.requirements) { + var req = options.requirements[i]; + requirements_message += req.name; + if (req.version) { + requirements_message += ' (Version ' + req.version + ')'; + } + if (i < options.requirements.length - 2) { + requirements_message += ', '; + } + if (i == options.requirements.length - 2) { + requirements_message += ' and '; + } + } + requirements_message += '.'; + + // button for version selection + var requirements_button = new Ui.ButtonIcon({ + icon : 'fa-info-circle', + tooltip : 'Click to show/hide the tool requirements.', + onclick : function() { + if (!this.visible) { + this.visible = true; + self.message.update({ + persistent : true, + message : requirements_message, + status : 'warning' + }); + } else { + this.visible = false; + self.message.update({ + message : '' + }); + } + } + }); + if (!options.requirements || options.requirements.length == 0) { + requirements_button.$el.hide(); + } + // button for version selection var versions_button = new Ui.ButtonMenu({ icon : 'fa-cubes', title : 'Versions', - tooltip : 'Click to see available versions.' + tooltip : 'Click to view available versions.' }); if (options.versions && options.versions.length > 1) { for (var i in options.versions) { @@ -311,7 +362,7 @@ // button menu var menu_button = new Ui.ButtonMenu({ icon : 'fa-gear', - tooltip : 'Click to see a list of options.' + tooltip : 'Click to view a list of options.' }); // configure button selection @@ -379,8 +430,9 @@ title : '<b>' + options.name + '</b> ' + options.description + ' (Version ' + options.version + ')', cls : 'ui-portlet-slim', operations: { - menu : menu_button, - versions : versions_button + requirements : requirements_button, + menu : menu_button, + versions : versions_button }, buttons: { execute : new Ui.Button({ @@ -417,20 +469,22 @@ } // append message - if (options.message) { - var message = new Ui.Message({ - persistent : true, - status : 'warning', - message : options.message - }); - this.portlet.append(message.$el); - } + this.portlet.append(this.message.$el); // append tool section this.portlet.append(this.section.$el); // rebuild the underlying data structure this.rebuild(); + + // show message if available in model + if (options.message) { + this.message.update({ + persistent : true, + status : 'warning', + message : options.message + }); + } } }); diff -r 5bdce43378bddc43988616a16b3fdb055c315d52 -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 static/scripts/mvc/ui/ui-misc.js --- a/static/scripts/mvc/ui/ui-misc.js +++ b/static/scripts/mvc/ui/ui-misc.js @@ -278,11 +278,15 @@ this.$el.find('.alert').append(options.message); this.$el.fadeIn(); - // check if message is persistent + // clear previous timeouts + if (this.timeout) { + window.clearTimeout(this.timeout); + } + + // set timeout if message is not persistent if (!options.persistent) { - // set timer var self = this; - window.setTimeout(function() { + this.timeout = window.setTimeout(function() { if (self.$el.is(':visible')) { self.$el.fadeOut(); } else { diff -r 5bdce43378bddc43988616a16b3fdb055c315d52 -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 static/scripts/packed/mvc/tools/tools-form.js --- a/static/scripts/packed/mvc/tools/tools-form.js +++ b/static/scripts/packed/mvc/tools/tools-form.js @@ -1,1 +1,1 @@ -define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var t=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var v=this.options;var o=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Click to see available versions."});if(v.versions&&v.versions.length>1){for(var q in v.versions){o.addMenu({title:v.versions[q],icon:"fa-cube",onclick:function(){v.id=v.id.replace(v.version,this.title);v.version=this.title;t.deferred.reset();t.deferred.execute(function(){t._buildModel()})}})}}else{o.$el.hide()}var r=new m.ButtonMenu({icon:"fa-gear",tooltip:"Click to see a list of options."});if(v.biostar_url){r.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(v.biostar_url+"/p/new/post/")}});r.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(v.biostar_url+"/t/"+v.id+"/")}})}r.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+v.id)}});if(this.is_admin){r.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+v.id+"/download"}})}this.section=new l.View(t,{inputs:v.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+v.name+"</b> "+v.description+" (Version "+v.version+")",cls:"ui-portlet-slim",operations:{menu:r,versions:o},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+v.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){t.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(v.help!=""){this.$el.append(d.help(v.help))}if(v.citations){var s=$("<div/>");var n=new k.ToolCitationCollection();n.tool_id=v.id;var p=new a.CitationListView({el:s,collection:n});p.render();n.fetch();this.$el.append(s)}if(v.message){var u=new m.Message({persistent:true,status:"warning",message:v.message});this.portlet.append(u.$el)}this.portlet.append(this.section.$el);this.rebuild()}});return{View:b}}); \ No newline at end of file +define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.message.update({status:"success",message:"Now you are using using '"+n.options.name+"' version "+n.options.version+".",persistent:false});n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var w=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var x=this.options;this.message=new m.Message();var n="This tool requires ";for(var r in x.requirements){var v=x.requirements[r];n+=v.name;if(v.version){n+=" (Version "+v.version+")"}if(r<x.requirements.length-2){n+=", "}if(r==x.requirements.length-2){n+=" and "}}n+=".";var t=new m.ButtonIcon({icon:"fa-info-circle",tooltip:"Click to show/hide the tool requirements.",onclick:function(){if(!this.visible){this.visible=true;w.message.update({persistent:true,message:n,status:"warning"})}else{this.visible=false;w.message.update({message:""})}}});if(!x.requirements||x.requirements.length==0){t.$el.hide()}var p=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Click to view available versions."});if(x.versions&&x.versions.length>1){for(var r in x.versions){p.addMenu({title:x.versions[r],icon:"fa-cube",onclick:function(){x.id=x.id.replace(x.version,this.title);x.version=this.title;w.deferred.reset();w.deferred.execute(function(){w._buildModel()})}})}}else{p.$el.hide()}var s=new m.ButtonMenu({icon:"fa-gear",tooltip:"Click to view a list of options."});if(x.biostar_url){s.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/p/new/post/")}});s.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(x.biostar_url+"/t/"+x.id+"/")}})}s.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+x.id)}});if(this.is_admin){s.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+x.id+"/download"}})}this.section=new l.View(w,{inputs:x.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+x.name+"</b> "+x.description+" (Version "+x.version+")",cls:"ui-portlet-slim",operations:{requirements:t,menu:s,versions:p},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+x.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){w.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(x.help!=""){this.$el.append(d.help(x.help))}if(x.citations){var u=$("<div/>");var o=new k.ToolCitationCollection();o.tool_id=x.id;var q=new a.CitationListView({el:u,collection:o});q.render();o.fetch();this.$el.append(u)}this.portlet.append(this.message.$el);this.portlet.append(this.section.$el);this.rebuild();if(x.message){this.message.update({persistent:true,status:"warning",message:x.message})}}});return{View:b}}); \ No newline at end of file diff -r 5bdce43378bddc43988616a16b3fdb055c315d52 -r 9b4153f9ccd58b46e8d98796a675e17ce7f3a1c5 static/scripts/packed/mvc/ui/ui-misc.js --- a/static/scripts/packed/mvc/ui/ui-misc.js +++ b/static/scripts/packed/mvc/ui/ui-misc.js @@ -1,1 +1,1 @@ -define(["utils/utils","mvc/ui/ui-select-default","mvc/ui/ui-slider","mvc/ui/ui-options","mvc/ui/ui-drilldown","mvc/ui/ui-button-menu","mvc/ui/ui-modal"],function(k,b,e,o,l,q,m){var d=Backbone.View.extend({optionsDefault:{url:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options))},_template:function(r){return'<img class="ui-image '+r.cls+'" src="'+r.url+'"/>'}});var j=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options))},title:function(r){this.$el.html(r)},_template:function(r){return'<label class="ui-label '+r.cls+'">'+r.title+"</label>"},value:function(){return options.title}});var c=Backbone.View.extend({optionsDefault:{floating:"right",icon:"",tooltip:"",placement:"bottom",title:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options));$(this.el).tooltip({title:r.tooltip,placement:"bottom"})},_template:function(r){return'<div><span class="fa '+r.icon+'" class="ui-icon"/> '+r.title+"</div>"}});var g=Backbone.View.extend({optionsDefault:{id:null,title:"",floating:"right",cls:"ui-button btn btn-default",icon:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options));$(this.el).on("click",function(){$(".tooltip").hide();if(r.onclick){r.onclick()}});$(this.el).tooltip({title:r.tooltip,placement:"bottom"})},_template:function(r){var s='<button id="'+r.id+'" type="submit" style="float: '+r.floating+';" type="button" class="'+r.cls+'">';if(r.icon){s+='<i class="icon fa '+r.icon+'"></i> '}s+=r.title+"</button>";return s}});var h=Backbone.View.extend({optionsDefault:{id:null,title:"",floating:"right",cls:"ui-button-icon",icon:"",tooltip:"",onclick:null},initialize:function(s){this.options=k.merge(s,this.optionsDefault);this.setElement(this._template(this.options));this.$button=this.$el.find(".button");var r=this;$(this.el).on("click",function(){$(".tooltip").hide();if(s.onclick&&!r.disabled){s.onclick()}});$(this.el).tooltip({title:s.tooltip,placement:"bottom"})},disable:function(){this.$button.addClass("disabled");this.disabled=true},enable:function(){this.$button.removeClass("disabled");this.disabled=false},_template:function(r){var s="";if(r.title){s="width: auto;"}var t='<div id="'+r.id+'" style="float: '+r.floating+"; "+s+'" class="'+r.cls+'">';if(r.title){t+='<div class="button"><i class="icon fa '+r.icon+'"/> <span class="title">'+r.title+"</span></div>"}else{t+='<i class="icon fa '+r.icon+'"/>'}t+="</div>";return t}});var f=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options));$(this.el).on("click",r.onclick)},_template:function(r){return'<div><a href="javascript:void(0)" class="ui-anchor '+r.cls+'">'+r.title+"</a></div>"}});var n=Backbone.View.extend({optionsDefault:{message:null,status:"info",persistent:false},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement("<div></div>");if(this.options.message){this.update(this.options)}},update:function(s){this.options=k.merge(s,this.optionsDefault);if(s.message!=""){this.$el.html(this._template(this.options));this.$el.find(".alert").append(s.message);this.$el.fadeIn();if(!s.persistent){var r=this;window.setTimeout(function(){if(r.$el.is(":visible")){r.$el.fadeOut()}else{r.$el.hide()}},3000)}}else{this.$el.fadeOut()}},_template:function(r){return'<div class="ui-message alert alert-'+r.status+'"/>'}});var a=Backbone.View.extend({optionsDefault:{onclick:null,searchword:""},initialize:function(s){this.options=k.merge(s,this.optionsDefault);this.setElement(this._template(this.options));var r=this;if(this.options.onclick){this.$el.on("submit",function(u){var t=r.$el.find("#search");r.options.onclick(t.val())})}},_template:function(r){return'<div class="ui-search"><form onsubmit="return false;"><input id="search" class="form-control input-sm" type="text" name="search" placeholder="Search..." value="'+r.searchword+'"><button type="submit" class="btn search-btn"><i class="fa fa-search"></i></button></form></div>'}});var i=Backbone.View.extend({optionsDefault:{type:"text",placeholder:"",disabled:false,visible:true,cls:"",area:false},initialize:function(s){this.options=k.merge(s,this.optionsDefault);this.setElement(this._template(this.options));if(this.options.value!==undefined){this.value(this.options.value)}if(this.options.disabled){this.$el.prop("disabled",true)}if(!this.options.visible){this.$el.hide()}var r=this;this.$el.on("input",function(){if(r.options.onchange){r.options.onchange(r.$el.val())}})},value:function(r){if(r!==undefined){this.$el.val(r)}return this.$el.val()},_template:function(r){if(r.area){return'<textarea id="'+r.id+'" class="ui-textarea '+r.cls+'"></textarea>'}else{return'<input id="'+r.id+'" type="'+r.type+'" value="'+r.value+'" placeholder="'+r.placeholder+'" class="ui-input '+r.cls+'">'}}});var p=Backbone.View.extend({initialize:function(r){this.options=r;this.setElement(this._template(this.options));if(this.options.value!==undefined){this.value(this.options.value)}},value:function(r){if(r!==undefined){this.$el.val(r)}return this.$el.val()},_template:function(r){return'<hidden id="'+r.id+'" value="'+r.value+'"/>'}});return{Anchor:f,Button:g,ButtonIcon:h,ButtonMenu:q,Icon:c,Image:d,Input:i,Label:j,Message:n,Modal:m,RadioButton:o.RadioButton,Checkbox:o.Checkbox,Radio:o.Radio,Searchbox:a,Select:b,Hidden:p,Slider:e,Drilldown:l}}); \ No newline at end of file +define(["utils/utils","mvc/ui/ui-select-default","mvc/ui/ui-slider","mvc/ui/ui-options","mvc/ui/ui-drilldown","mvc/ui/ui-button-menu","mvc/ui/ui-modal"],function(k,b,e,o,l,q,m){var d=Backbone.View.extend({optionsDefault:{url:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options))},_template:function(r){return'<img class="ui-image '+r.cls+'" src="'+r.url+'"/>'}});var j=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options))},title:function(r){this.$el.html(r)},_template:function(r){return'<label class="ui-label '+r.cls+'">'+r.title+"</label>"},value:function(){return options.title}});var c=Backbone.View.extend({optionsDefault:{floating:"right",icon:"",tooltip:"",placement:"bottom",title:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options));$(this.el).tooltip({title:r.tooltip,placement:"bottom"})},_template:function(r){return'<div><span class="fa '+r.icon+'" class="ui-icon"/> '+r.title+"</div>"}});var g=Backbone.View.extend({optionsDefault:{id:null,title:"",floating:"right",cls:"ui-button btn btn-default",icon:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options));$(this.el).on("click",function(){$(".tooltip").hide();if(r.onclick){r.onclick()}});$(this.el).tooltip({title:r.tooltip,placement:"bottom"})},_template:function(r){var s='<button id="'+r.id+'" type="submit" style="float: '+r.floating+';" type="button" class="'+r.cls+'">';if(r.icon){s+='<i class="icon fa '+r.icon+'"></i> '}s+=r.title+"</button>";return s}});var h=Backbone.View.extend({optionsDefault:{id:null,title:"",floating:"right",cls:"ui-button-icon",icon:"",tooltip:"",onclick:null},initialize:function(s){this.options=k.merge(s,this.optionsDefault);this.setElement(this._template(this.options));this.$button=this.$el.find(".button");var r=this;$(this.el).on("click",function(){$(".tooltip").hide();if(s.onclick&&!r.disabled){s.onclick()}});$(this.el).tooltip({title:s.tooltip,placement:"bottom"})},disable:function(){this.$button.addClass("disabled");this.disabled=true},enable:function(){this.$button.removeClass("disabled");this.disabled=false},_template:function(r){var s="";if(r.title){s="width: auto;"}var t='<div id="'+r.id+'" style="float: '+r.floating+"; "+s+'" class="'+r.cls+'">';if(r.title){t+='<div class="button"><i class="icon fa '+r.icon+'"/> <span class="title">'+r.title+"</span></div>"}else{t+='<i class="icon fa '+r.icon+'"/>'}t+="</div>";return t}});var f=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options));$(this.el).on("click",r.onclick)},_template:function(r){return'<div><a href="javascript:void(0)" class="ui-anchor '+r.cls+'">'+r.title+"</a></div>"}});var n=Backbone.View.extend({optionsDefault:{message:null,status:"info",persistent:false},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement("<div></div>");if(this.options.message){this.update(this.options)}},update:function(s){this.options=k.merge(s,this.optionsDefault);if(s.message!=""){this.$el.html(this._template(this.options));this.$el.find(".alert").append(s.message);this.$el.fadeIn();if(this.timeout){window.clearTimeout(this.timeout)}if(!s.persistent){var r=this;this.timeout=window.setTimeout(function(){if(r.$el.is(":visible")){r.$el.fadeOut()}else{r.$el.hide()}},3000)}}else{this.$el.fadeOut()}},_template:function(r){return'<div class="ui-message alert alert-'+r.status+'"/>'}});var a=Backbone.View.extend({optionsDefault:{onclick:null,searchword:""},initialize:function(s){this.options=k.merge(s,this.optionsDefault);this.setElement(this._template(this.options));var r=this;if(this.options.onclick){this.$el.on("submit",function(u){var t=r.$el.find("#search");r.options.onclick(t.val())})}},_template:function(r){return'<div class="ui-search"><form onsubmit="return false;"><input id="search" class="form-control input-sm" type="text" name="search" placeholder="Search..." value="'+r.searchword+'"><button type="submit" class="btn search-btn"><i class="fa fa-search"></i></button></form></div>'}});var i=Backbone.View.extend({optionsDefault:{type:"text",placeholder:"",disabled:false,visible:true,cls:"",area:false},initialize:function(s){this.options=k.merge(s,this.optionsDefault);this.setElement(this._template(this.options));if(this.options.value!==undefined){this.value(this.options.value)}if(this.options.disabled){this.$el.prop("disabled",true)}if(!this.options.visible){this.$el.hide()}var r=this;this.$el.on("input",function(){if(r.options.onchange){r.options.onchange(r.$el.val())}})},value:function(r){if(r!==undefined){this.$el.val(r)}return this.$el.val()},_template:function(r){if(r.area){return'<textarea id="'+r.id+'" class="ui-textarea '+r.cls+'"></textarea>'}else{return'<input id="'+r.id+'" type="'+r.type+'" value="'+r.value+'" placeholder="'+r.placeholder+'" class="ui-input '+r.cls+'">'}}});var p=Backbone.View.extend({initialize:function(r){this.options=r;this.setElement(this._template(this.options));if(this.options.value!==undefined){this.value(this.options.value)}},value:function(r){if(r!==undefined){this.$el.val(r)}return this.$el.val()},_template:function(r){return'<hidden id="'+r.id+'" value="'+r.value+'"/>'}});return{Anchor:f,Button:g,ButtonIcon:h,ButtonMenu:q,Icon:c,Image:d,Input:i,Label:j,Message:n,Modal:m,RadioButton:o.RadioButton,Checkbox:o.Checkbox,Radio:o.Radio,Searchbox:a,Select:b,Hidden:p,Slider:e,Drilldown:l}}); \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: guerler: Ui: Update Fontawesome, ToolForm: Add tool version handling
by commits-noreply＠bitbucket.org 10 Dec '14

10 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/5bdce43378bd/ Changeset: 5bdce43378bd User: guerler Date: 2014-12-10 06:54:26+00:00 Summary: Ui: Update Fontawesome, ToolForm: Add tool version handling Affected #: 28 files diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 client/galaxy/scripts/mvc/tools/tools-form.js --- a/client/galaxy/scripts/mvc/tools/tools-form.js +++ b/client/galaxy/scripts/mvc/tools/tools-form.js @@ -48,21 +48,12 @@ // add to main element $(this.container).append(this.$el); - // creates a tree/json structure from the input form - this.tree = new ToolTree(this); - - // creates the job handler - this.job_handler = new ToolJobs(this); - - // request history content and build form - this.content = new ToolContent(this); - // build this form - this._buildForm(options); + this._buildForm(); }, - // message - message: function($el) { + // reciept shows the final message usually upon successful job submission + reciept: function($el) { $(this.container).empty(); $(this.container).append($el); }, @@ -105,6 +96,7 @@ if (this.options.dataset_id) { model_url += 'dataset_id=' + this.options.dataset_id; } else { + model_url += 'tool_version=' + this.options.version + '&'; var loc = top.location.href; var pos = loc.indexOf('?'); if (loc.indexOf('tool_id=') != -1 && pos !== -1) { @@ -112,27 +104,47 @@ } } } - + + // register process + var process_id = this.deferred.register(); + // get initial model Utils.request({ type : 'GET', url : model_url, success : function(response) { // link model data update options - self.options = $.extend(self.options, response); - self.model = response; - self.inputs = response.inputs; + self.options = response; + + // build form + self._buildForm(); + + // process completed + self.deferred.done(process_id); // log success console.debug('tools-form::initialize() - Initial tool model ready.'); console.debug(response); - - // build form - self._buildForm(); }, error : function(response) { + // process completed + self.deferred.done(process_id); + + // log error console.debug('tools-form::initialize() - Initial tool model request failed.'); console.debug(response); + + // show error + var error_message = response.error || 'Uncaught error.'; + self.modal.show({ + title : 'Tool cannot be executed', + body : error_message, + buttons : { + 'Close' : function() { + self.modal.hide(); + } + } + }); } }); }, @@ -175,10 +187,13 @@ // register process var process_id = this.deferred.register(); + // build model url for request + var model_url = galaxy_config.root + 'api/tools/' + this.options.id + '/build?tool_version=' + this.options.version; + // post job Utils.request({ type : 'GET', - url : galaxy_config.root + 'api/tools/' + this.options.id + '/build', + url : model_url, data : current_state, success : function(response) { // rebuild form @@ -219,23 +234,18 @@ var field = self.field_list[input_id]; if (field.update) { var new_options = []; - switch (input.type) { - case 'data': - new_options = input.options; - break; - case 'drill_down': - new_options = input.options; - break; - default: - for (var i in node.options) { - var opt = node.options[i]; - if (opt.length > 2) { - new_options.push({ - 'label': opt[0], - 'value': opt[1] - }); - } + if ((['data', 'data_collection', 'drill_down']).indexOf(input.type) != -1) { + new_options = input.options; + } else { + for (var i in node.options) { + var opt = node.options[i]; + if (opt.length > 2) { + new_options.push({ + 'label': opt[0], + 'value': opt[1] + }); } + } } field.update(new_options); field.trigger('change'); @@ -247,7 +257,7 @@ }, // builds the tool form - _buildForm: function(options) { + _buildForm: function() { // link this var self = this; @@ -260,12 +270,46 @@ // reset input element list, which contains the dom elements of each input element (includes also the input field) this.element_list = {}; - // for now the initial tool model is parsed through the mako - this.model = options; - this.inputs = options.inputs; + // creates a tree/json data structure from the input form + this.tree = new ToolTree(this); + + // creates the job handler + this.job_handler = new ToolJobs(this); + + // request history content and build form + this.content = new ToolContent(this); + + // link model options + var options = this.options; + + // button for version selection + var versions_button = new Ui.ButtonMenu({ + icon : 'fa-cubes', + title : 'Versions', + tooltip : 'Click to see available versions.' + }); + if (options.versions && options.versions.length > 1) { + for (var i in options.versions) { + versions_button.addMenu({ + title : options.versions[i], + icon : 'fa-cube', + onclick : function() { + // here we update the tool version (some tools encode the version also in the id) + options.id = options.id.replace(options.version, this.title); + options.version = this.title; + + // rebuild the model and form + self.deferred.reset(); + self.deferred.execute(function(){self._buildModel()}); + } + }); + } + } else { + versions_button.$el.hide(); + } // button menu - var menu = new Ui.ButtonMenu({ + var menu_button = new Ui.ButtonMenu({ icon : 'fa-gear', tooltip : 'Click to see a list of options.' }); @@ -273,52 +317,52 @@ // configure button selection if(options.biostar_url) { // add question option - menu.addMenu({ + menu_button.addMenu({ icon : 'fa-question-circle', title : 'Question?', tooltip : 'Ask a question about this tool (Biostar)', onclick : function() { - window.open(self.options.biostar_url + '/p/new/post/'); + window.open(options.biostar_url + '/p/new/post/'); } }); // create search button - menu.addMenu({ + menu_button.addMenu({ icon : 'fa-search', title : 'Search', tooltip : 'Search help for this tool (Biostar)', onclick : function() { - window.open(self.options.biostar_url + '/t/' + self.options.id + '/'); + window.open(options.biostar_url + '/t/' + options.id + '/'); } }); }; // create share button - menu.addMenu({ + menu_button.addMenu({ icon : 'fa-share', title : 'Share', tooltip : 'Share this tool', onclick : function() { - prompt('Copy to clipboard: Ctrl+C, Enter', window.location.origin + galaxy_config.root + 'root?tool_id=' + self.options.id); + prompt('Copy to clipboard: Ctrl+C, Enter', window.location.origin + galaxy_config.root + 'root?tool_id=' + options.id); } }); // add admin operations if (this.is_admin) { // create download button - menu.addMenu({ + menu_button.addMenu({ icon : 'fa-download', title : 'Download', tooltip : 'Download this tool', onclick : function() { - window.location.href = galaxy_config.root + 'api/tools/' + self.options.id + '/download'; + window.location.href = galaxy_config.root + 'api/tools/' + options.id + '/download'; } }); } // create tool form section this.section = new ToolSection.View(self, { - inputs : this.inputs, + inputs : options.inputs, cls : 'ui-table-plain' }); @@ -332,15 +376,16 @@ // create portlet this.portlet = new Portlet.View({ icon : 'fa-wrench', - title : '<b>' + this.model.name + '</b> ' + this.model.description, + title : '<b>' + options.name + '</b> ' + options.description + ' (Version ' + options.version + ')', cls : 'ui-portlet-slim', operations: { - menu : menu + menu : menu_button, + versions : versions_button }, buttons: { execute : new Ui.Button({ icon : 'fa-check', - tooltip : 'Execute: ' + self.model.name, + tooltip : 'Execute: ' + options.name, title : 'Execute', cls : 'btn btn-primary', floating : 'clear', @@ -371,6 +416,16 @@ this.$el.append($citations); } + // append message + if (options.message) { + var message = new Ui.Message({ + persistent : true, + status : 'warning', + message : options.message + }); + this.portlet.append(message.$el); + } + // append tool section this.portlet.append(this.section.$el); diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 client/galaxy/scripts/mvc/tools/tools-jobs.js --- a/client/galaxy/scripts/mvc/tools/tools-jobs.js +++ b/client/galaxy/scripts/mvc/tools/tools-jobs.js @@ -4,12 +4,8 @@ define(['utils/utils', 'mvc/tools/tools-template'], function(Utils, ToolTemplate) { return Backbone.Model.extend({ // initialize - initialize: function(app, options) { - // link app + initialize: function(app) { this.app = app; - - // link options - this.options = Utils.merge(options, this.optionsDefault); }, /** Creates and submits a job request to the api @@ -20,8 +16,9 @@ // create job definition for submission to tools api var job_def = { - tool_id : this.app.options.id, - inputs : this.app.tree.finalize() + tool_id : this.app.options.id, + tool_version : this.app.options.version, + inputs : this.app.tree.finalize() } // reset @@ -46,7 +43,7 @@ data : job_def, success : function(response) { self.app.modal.hide(); - self.app.message(ToolTemplate.success(response)); + self.app.reciept(ToolTemplate.success(response)); self._refreshHdas(); }, error : function(response, response_full) { diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 client/galaxy/scripts/mvc/tools/tools-select-content.js --- a/client/galaxy/scripts/mvc/tools/tools-select-content.js +++ b/client/galaxy/scripts/mvc/tools/tools-select-content.js @@ -38,7 +38,7 @@ // error messages var extensions = options.extensions.toString(); if (extensions) { - extensions = extensions.replace(',', ', '); + extensions = extensions.replace(/,/g, ', '); var pos = extensions.lastIndexOf(', '); if (pos != -1) { extensions = extensions.substr(0, pos) + ' or ' + extensions.substr(pos+1); @@ -50,7 +50,7 @@ } var hdca_error = 'No dataset list available.'; if (extensions) { - hdca_error = 'No ' + extensions + ' dataset list available.'; + hdca_error = 'No ' + extensions + ' dataset collection available.'; } // add single dataset selector @@ -86,7 +86,7 @@ // add collection selector if (this.mode == 'single' || this.mode == 'collection') { - radio_buttons.push({icon: 'fa-folder-o', label : 'List of datasets', value : 'collection' }); + radio_buttons.push({icon: 'fa-folder-o', label : 'Dataset collection', value : 'collection' }); this.select_collection = new Ui.Select.View({ error_text : hdca_error, onchange : function() { diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 client/galaxy/scripts/mvc/tools/tools-tree.js --- a/client/galaxy/scripts/mvc/tools/tools-tree.js +++ b/client/galaxy/scripts/mvc/tools/tools-tree.js @@ -8,7 +8,6 @@ return Backbone.Model.extend({ // initialize initialize: function(app) { - // link app this.app = app; }, diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 client/galaxy/scripts/mvc/ui/ui-misc.js --- a/client/galaxy/scripts/mvc/ui/ui-misc.js +++ b/client/galaxy/scripts/mvc/ui/ui-misc.js @@ -248,9 +248,9 @@ var Message = Backbone.View.extend({ // options optionsDefault: { - message : '', - status : 'info', - persistent : false + message : null, + status : 'info', + persistent : false }, // initialize @@ -260,6 +260,11 @@ // create new element this.setElement('<div></div>'); + + // show initial message + if (this.options.message) { + this.update(this.options); + } }, // update diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 lib/galaxy/webapps/galaxy/api/tools.py --- a/lib/galaxy/webapps/galaxy/api/tools.py +++ b/lib/galaxy/webapps/galaxy/api/tools.py @@ -79,7 +79,12 @@ GET /api/tools/{tool_id}/build Returns a tool model including dynamic parameters and updated values, repeats block etc. """ - tool = self._get_tool( id ) + tool_id = urllib.unquote_plus( id ) + tool_version = kwd.get( 'tool_version', None ) + tool = self.app.toolbox.get_tool( tool_id, tool_version ) + if not tool: + trans.response.status = 500 + return { 'error': 'Could not find tool with id \'%s\'' % tool_id } return self._build_dict(trans, tool, kwd) @_future_expose_api @@ -128,7 +133,8 @@ # -- Execute tool. -- # Get tool. - tool = trans.app.toolbox.get_tool( payload[ 'tool_id' ] ) if 'tool_id' in payload else None + tool_version = payload.get( 'tool_version', None ) + tool = trans.app.toolbox.get_tool( payload[ 'tool_id' ] , tool_version ) if 'tool_id' in payload else None if not tool: trans.response.status = 404 return { "message": { "type": "error", "text" : trans.app.model.Dataset.conversion_messages.NO_TOOL } } @@ -219,9 +225,9 @@ # # -- Helper methods -- # - def _get_tool( self, id ): + def _get_tool( self, id, tool_version=None ): id = urllib.unquote_plus( id ) - tool = self.app.toolbox.get_tool( id ) + tool = self.app.toolbox.get_tool( id, tool_version ) if not tool: raise exceptions.ObjectNotFound("Could not find tool with id '%s'" % id) return tool @@ -728,50 +734,58 @@ tool_citations = False if tool.citations: tool_citations = True - + + # get tool versions + tool_versions = [] + tools = self.app.toolbox.get_loaded_tools_by_lineage(tool.id) + for t in tools: + tool_versions.append(t.version) + # add additional properties tool_model.update({ 'help' : tool_help, 'citations' : tool_citations, 'biostar_url' : trans.app.config.biostar_url, - 'message' : tool_message + 'message' : tool_message, + 'versions' : tool_versions }) - + + # check for errors + if 'error' in tool_message: + return tool_message + # return enriched tool model return tool_model - def _get_tool_components( self, trans, tool_id, tool_version=None, get_loaded_tools_by_lineage=False, set_selected=False ): - return self.get_toolbox().get_tool_components( tool_id, tool_version, get_loaded_tools_by_lineage, set_selected ) - def _compare_tool_version( self, trans, tool, job ): """ - Compares a tool version with the tool version from a job (from ToolRunne. + Compares a tool version with the tool version from a job (from ToolRunner). """ - id = job.tool_id - version = job.tool_version + tool_id = job.tool_id + tool_version = job.tool_version message = '' try: - select_field, tools, tool = self._get_tool_components( trans, id, tool_version=version, get_loaded_tools_by_lineage=False, set_selected=True ) + select_field, tools, tool = self.app.toolbox.get_tool_components( tool_id, tool_version=tool_version, get_loaded_tools_by_lineage=False, set_selected=True ) if tool is None: trans.response.status = 500 - return { 'error': 'This dataset was created by an obsolete tool (%s). Can\'t re-run.' % id } - if ( tool.id != id and tool.old_id != id ) or tool.version != version: - if tool.id == id: - if version == None: + return { 'error': 'This dataset was created by an obsolete tool (%s). Can\'t re-run.' % tool_id } + if ( tool.id != tool_id and tool.old_id != tool_id ) or tool.version != tool_version: + if tool.id == tool_id: + if tool_version == None: # for some reason jobs don't always keep track of the tool version. message = '' else: - message = 'This job was initially run with tool version "%s", which is currently not available. ' % version + message = 'This job was initially run with tool version "%s", which is currently not available. ' % tool_version if len( tools ) > 1: message += 'You can re-run the job with the selected tool or choose another derivation of the tool.' else: message += 'You can re-run the job with this tool version, which is a derivation of the original tool.' else: if len( tools ) > 1: - message = 'This job was initially run with tool version "%s", which is currently not available. ' % version + message = 'This job was initially run with tool version "%s", which is currently not available. ' % tool_version message += 'You can re-run the job with the selected tool or choose another derivation of the tool.' else: - message = 'This job was initially run with tool id "%s", version "%s", which is ' % ( id, version ) + message = 'This job was initially run with tool id "%s", version "%s", which is ' % ( tool_id, tool_version ) message += 'currently not available. You can re-run the job with this tool, which is a derivation of the original tool.' except Exception, error: trans.response.status = 500 diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/images/fonts/fontawesome-webfont.eot Binary file static/images/fonts/fontawesome-webfont.eot has changed diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/images/fonts/fontawesome-webfont.ttf Binary file static/images/fonts/fontawesome-webfont.ttf has changed diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/images/fonts/fontawesome-webfont.woff Binary file static/images/fonts/fontawesome-webfont.woff has changed diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/scripts/mvc/tools/tools-form.js --- a/static/scripts/mvc/tools/tools-form.js +++ b/static/scripts/mvc/tools/tools-form.js @@ -48,21 +48,12 @@ // add to main element $(this.container).append(this.$el); - // creates a tree/json structure from the input form - this.tree = new ToolTree(this); - - // creates the job handler - this.job_handler = new ToolJobs(this); - - // request history content and build form - this.content = new ToolContent(this); - // build this form - this._buildForm(options); + this._buildForm(); }, - // message - message: function($el) { + // reciept shows the final message usually upon successful job submission + reciept: function($el) { $(this.container).empty(); $(this.container).append($el); }, @@ -105,6 +96,7 @@ if (this.options.dataset_id) { model_url += 'dataset_id=' + this.options.dataset_id; } else { + model_url += 'tool_version=' + this.options.version + '&'; var loc = top.location.href; var pos = loc.indexOf('?'); if (loc.indexOf('tool_id=') != -1 && pos !== -1) { @@ -112,27 +104,47 @@ } } } - + + // register process + var process_id = this.deferred.register(); + // get initial model Utils.request({ type : 'GET', url : model_url, success : function(response) { // link model data update options - self.options = $.extend(self.options, response); - self.model = response; - self.inputs = response.inputs; + self.options = response; + + // build form + self._buildForm(); + + // process completed + self.deferred.done(process_id); // log success console.debug('tools-form::initialize() - Initial tool model ready.'); console.debug(response); - - // build form - self._buildForm(); }, error : function(response) { + // process completed + self.deferred.done(process_id); + + // log error console.debug('tools-form::initialize() - Initial tool model request failed.'); console.debug(response); + + // show error + var error_message = response.error || 'Uncaught error.'; + self.modal.show({ + title : 'Tool cannot be executed', + body : error_message, + buttons : { + 'Close' : function() { + self.modal.hide(); + } + } + }); } }); }, @@ -175,10 +187,13 @@ // register process var process_id = this.deferred.register(); + // build model url for request + var model_url = galaxy_config.root + 'api/tools/' + this.options.id + '/build?tool_version=' + this.options.version; + // post job Utils.request({ type : 'GET', - url : galaxy_config.root + 'api/tools/' + this.options.id + '/build', + url : model_url, data : current_state, success : function(response) { // rebuild form @@ -219,23 +234,18 @@ var field = self.field_list[input_id]; if (field.update) { var new_options = []; - switch (input.type) { - case 'data': - new_options = input.options; - break; - case 'drill_down': - new_options = input.options; - break; - default: - for (var i in node.options) { - var opt = node.options[i]; - if (opt.length > 2) { - new_options.push({ - 'label': opt[0], - 'value': opt[1] - }); - } + if ((['data', 'data_collection', 'drill_down']).indexOf(input.type) != -1) { + new_options = input.options; + } else { + for (var i in node.options) { + var opt = node.options[i]; + if (opt.length > 2) { + new_options.push({ + 'label': opt[0], + 'value': opt[1] + }); } + } } field.update(new_options); field.trigger('change'); @@ -247,7 +257,7 @@ }, // builds the tool form - _buildForm: function(options) { + _buildForm: function() { // link this var self = this; @@ -260,12 +270,46 @@ // reset input element list, which contains the dom elements of each input element (includes also the input field) this.element_list = {}; - // for now the initial tool model is parsed through the mako - this.model = options; - this.inputs = options.inputs; + // creates a tree/json data structure from the input form + this.tree = new ToolTree(this); + + // creates the job handler + this.job_handler = new ToolJobs(this); + + // request history content and build form + this.content = new ToolContent(this); + + // link model options + var options = this.options; + + // button for version selection + var versions_button = new Ui.ButtonMenu({ + icon : 'fa-cubes', + title : 'Versions', + tooltip : 'Click to see available versions.' + }); + if (options.versions && options.versions.length > 1) { + for (var i in options.versions) { + versions_button.addMenu({ + title : options.versions[i], + icon : 'fa-cube', + onclick : function() { + // here we update the tool version (some tools encode the version also in the id) + options.id = options.id.replace(options.version, this.title); + options.version = this.title; + + // rebuild the model and form + self.deferred.reset(); + self.deferred.execute(function(){self._buildModel()}); + } + }); + } + } else { + versions_button.$el.hide(); + } // button menu - var menu = new Ui.ButtonMenu({ + var menu_button = new Ui.ButtonMenu({ icon : 'fa-gear', tooltip : 'Click to see a list of options.' }); @@ -273,52 +317,52 @@ // configure button selection if(options.biostar_url) { // add question option - menu.addMenu({ + menu_button.addMenu({ icon : 'fa-question-circle', title : 'Question?', tooltip : 'Ask a question about this tool (Biostar)', onclick : function() { - window.open(self.options.biostar_url + '/p/new/post/'); + window.open(options.biostar_url + '/p/new/post/'); } }); // create search button - menu.addMenu({ + menu_button.addMenu({ icon : 'fa-search', title : 'Search', tooltip : 'Search help for this tool (Biostar)', onclick : function() { - window.open(self.options.biostar_url + '/t/' + self.options.id + '/'); + window.open(options.biostar_url + '/t/' + options.id + '/'); } }); }; // create share button - menu.addMenu({ + menu_button.addMenu({ icon : 'fa-share', title : 'Share', tooltip : 'Share this tool', onclick : function() { - prompt('Copy to clipboard: Ctrl+C, Enter', window.location.origin + galaxy_config.root + 'root?tool_id=' + self.options.id); + prompt('Copy to clipboard: Ctrl+C, Enter', window.location.origin + galaxy_config.root + 'root?tool_id=' + options.id); } }); // add admin operations if (this.is_admin) { // create download button - menu.addMenu({ + menu_button.addMenu({ icon : 'fa-download', title : 'Download', tooltip : 'Download this tool', onclick : function() { - window.location.href = galaxy_config.root + 'api/tools/' + self.options.id + '/download'; + window.location.href = galaxy_config.root + 'api/tools/' + options.id + '/download'; } }); } // create tool form section this.section = new ToolSection.View(self, { - inputs : this.inputs, + inputs : options.inputs, cls : 'ui-table-plain' }); @@ -332,15 +376,16 @@ // create portlet this.portlet = new Portlet.View({ icon : 'fa-wrench', - title : '<b>' + this.model.name + '</b> ' + this.model.description, + title : '<b>' + options.name + '</b> ' + options.description + ' (Version ' + options.version + ')', cls : 'ui-portlet-slim', operations: { - menu : menu + menu : menu_button, + versions : versions_button }, buttons: { execute : new Ui.Button({ icon : 'fa-check', - tooltip : 'Execute: ' + self.model.name, + tooltip : 'Execute: ' + options.name, title : 'Execute', cls : 'btn btn-primary', floating : 'clear', @@ -371,6 +416,16 @@ this.$el.append($citations); } + // append message + if (options.message) { + var message = new Ui.Message({ + persistent : true, + status : 'warning', + message : options.message + }); + this.portlet.append(message.$el); + } + // append tool section this.portlet.append(this.section.$el); diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/scripts/mvc/tools/tools-jobs.js --- a/static/scripts/mvc/tools/tools-jobs.js +++ b/static/scripts/mvc/tools/tools-jobs.js @@ -4,12 +4,8 @@ define(['utils/utils', 'mvc/tools/tools-template'], function(Utils, ToolTemplate) { return Backbone.Model.extend({ // initialize - initialize: function(app, options) { - // link app + initialize: function(app) { this.app = app; - - // link options - this.options = Utils.merge(options, this.optionsDefault); }, /** Creates and submits a job request to the api @@ -20,8 +16,9 @@ // create job definition for submission to tools api var job_def = { - tool_id : this.app.options.id, - inputs : this.app.tree.finalize() + tool_id : this.app.options.id, + tool_version : this.app.options.version, + inputs : this.app.tree.finalize() } // reset @@ -46,7 +43,7 @@ data : job_def, success : function(response) { self.app.modal.hide(); - self.app.message(ToolTemplate.success(response)); + self.app.reciept(ToolTemplate.success(response)); self._refreshHdas(); }, error : function(response, response_full) { diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/scripts/mvc/tools/tools-select-content.js --- a/static/scripts/mvc/tools/tools-select-content.js +++ b/static/scripts/mvc/tools/tools-select-content.js @@ -38,7 +38,7 @@ // error messages var extensions = options.extensions.toString(); if (extensions) { - extensions = extensions.replace(',', ', '); + extensions = extensions.replace(/,/g, ', '); var pos = extensions.lastIndexOf(', '); if (pos != -1) { extensions = extensions.substr(0, pos) + ' or ' + extensions.substr(pos+1); @@ -50,7 +50,7 @@ } var hdca_error = 'No dataset list available.'; if (extensions) { - hdca_error = 'No ' + extensions + ' dataset list available.'; + hdca_error = 'No ' + extensions + ' dataset collection available.'; } // add single dataset selector @@ -86,7 +86,7 @@ // add collection selector if (this.mode == 'single' || this.mode == 'collection') { - radio_buttons.push({icon: 'fa-folder-o', label : 'List of datasets', value : 'collection' }); + radio_buttons.push({icon: 'fa-folder-o', label : 'Dataset collection', value : 'collection' }); this.select_collection = new Ui.Select.View({ error_text : hdca_error, onchange : function() { diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/scripts/mvc/tools/tools-tree.js --- a/static/scripts/mvc/tools/tools-tree.js +++ b/static/scripts/mvc/tools/tools-tree.js @@ -8,7 +8,6 @@ return Backbone.Model.extend({ // initialize initialize: function(app) { - // link app this.app = app; }, diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/scripts/mvc/ui/ui-misc.js --- a/static/scripts/mvc/ui/ui-misc.js +++ b/static/scripts/mvc/ui/ui-misc.js @@ -248,9 +248,9 @@ var Message = Backbone.View.extend({ // options optionsDefault: { - message : '', - status : 'info', - persistent : false + message : null, + status : 'info', + persistent : false }, // initialize @@ -260,6 +260,11 @@ // create new element this.setElement('<div></div>'); + + // show initial message + if (this.options.message) { + this.update(this.options); + } }, // update diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/scripts/packed/mvc/tools/tools-form.js --- a/static/scripts/packed/mvc/tools/tools-form.js +++ b/static/scripts/packed/mvc/tools/tools-form.js @@ -1,1 +1,1 @@ -define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);this._buildForm(o)},message:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{var p=top.location.href;var q=p.indexOf("?");if(p.indexOf("tool_id=")!=-1&&q!==-1){o+=p.slice(q+1)}}}i.request({type:"GET",url:o,success:function(r){n.options=$.extend(n.options,r);n.model=r;n.inputs=r.inputs;console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(r);n._buildForm()},error:function(r){console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(r)}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(r){if(r.values.length>0&&r.values[0]&&r.values[0].src==="hda"){return n.content.get({id:r.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function q(u){for(var s in n.input_list){var t=n.field_list[s];var r=n.input_list[s];if(r.is_dynamic&&t.wait&&t.unwait){if(u){t.wait()}else{t.unwait()}}}}q(true);var p=this.deferred.register();i.request({type:"GET",url:galaxy_config.root+"api/tools/"+this.options.id+"/build",data:o,success:function(r){n._updateForm(r);q(false);n.deferred.done(p);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(r)},error:function(r){n.deferred.done(p);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(r)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];switch(p.type){case"data":t=p.options;break;case"drill_down":t=p.options;break;default:for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(p){var o=this;this.field_list={};this.input_list={};this.element_list={};this.model=p;this.inputs=p.inputs;var s=new m.ButtonMenu({icon:"fa-gear",tooltip:"Click to see a list of options."});if(p.biostar_url){s.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(o.options.biostar_url+"/p/new/post/")}});s.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(o.options.biostar_url+"/t/"+o.options.id+"/")}})}s.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+o.options.id)}});if(this.is_admin){s.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+o.options.id+"/download"}})}this.section=new l.View(o,{inputs:this.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+this.model.name+"</b> "+this.model.description,cls:"ui-portlet-slim",operations:{menu:s},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+o.model.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){o.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(p.help!=""){this.$el.append(d.help(p.help))}if(p.citations){var r=$("<div/>");var n=new k.ToolCitationCollection();n.tool_id=p.id;var q=new a.CitationListView({el:r,collection:n});q.render();n.fetch();this.$el.append(r)}this.portlet.append(this.section.$el);this.rebuild()}});return{View:b}}); \ No newline at end of file +define(["utils/utils","utils/deferred","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/citation/citation-model","mvc/citation/citation-view","mvc/tools","mvc/tools/tools-template","mvc/tools/tools-content","mvc/tools/tools-section","mvc/tools/tools-tree","mvc/tools/tools-jobs"],function(i,j,h,m,k,a,e,d,f,l,c,g){var b=Backbone.View.extend({container:"body",initialize:function(o){console.debug(o);var n=this;var p=parent.Galaxy;if(p&&p.modal){this.modal=p.modal}else{this.modal=new m.Modal.View()}if(p&&p.currUser){this.is_admin=p.currUser.get("is_admin")}else{this.is_admin=false}this.options=o;this.deferred=new j();this.setElement("<div/>");$(this.container).append(this.$el);this._buildForm()},reciept:function(n){$(this.container).empty();$(this.container).append(n)},reset:function(){for(var n in this.element_list){this.element_list[n].reset()}},rebuild:function(){this.tree.refresh();console.debug("tools-form::rebuild() - Rebuilding data structures.")},refresh:function(){if(this.is_dynamic){var n=this;this.deferred.reset();this.deferred.execute(function(){n._updateModel()})}},_buildModel:function(){var n=this;var o=galaxy_config.root+"api/tools/"+this.options.id+"/build?";if(this.options.job_id){o+="job_id="+this.options.job_id}else{if(this.options.dataset_id){o+="dataset_id="+this.options.dataset_id}else{o+="tool_version="+this.options.version+"&";var q=top.location.href;var r=q.indexOf("?");if(q.indexOf("tool_id=")!=-1&&r!==-1){o+=q.slice(r+1)}}}var p=this.deferred.register();i.request({type:"GET",url:o,success:function(s){n.options=s;n._buildForm();n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model ready.");console.debug(s)},error:function(s){n.deferred.done(p);console.debug("tools-form::initialize() - Initial tool model request failed.");console.debug(s);var t=s.error||"Uncaught error.";n.modal.show({title:"Tool cannot be executed",body:t,buttons:{Close:function(){n.modal.hide()}}})}})},_updateModel:function(){var n=this;var o=this.tree.finalize({data:function(s){if(s.values.length>0&&s.values[0]&&s.values[0].src==="hda"){return n.content.get({id:s.values[0].id,src:"hda"}).id_uncoded}return null}});console.debug("tools-form::_refreshForm() - Refreshing states.");console.debug(o);function r(v){for(var t in n.input_list){var u=n.field_list[t];var s=n.input_list[t];if(s.is_dynamic&&u.wait&&u.unwait){if(v){u.wait()}else{u.unwait()}}}}r(true);var q=this.deferred.register();var p=galaxy_config.root+"api/tools/"+this.options.id+"/build?tool_version="+this.options.version;i.request({type:"GET",url:p,data:o,success:function(s){n._updateForm(s);r(false);n.deferred.done(q);console.debug("tools-form::_refreshForm() - States refreshed.");console.debug(s)},error:function(s){n.deferred.done(q);console.debug("tools-form::_refreshForm() - Refresh request failed.");console.debug(s)}})},_updateForm:function(n){var o=this;this.tree.matchModel(n,function(q,u){var p=o.input_list[q];if(p&&p.options){if(!_.isEqual(p.options,u.options)){p.options=u.options;var v=o.field_list[q];if(v.update){var t=[];if((["data","data_collection","drill_down"]).indexOf(p.type)!=-1){t=p.options}else{for(var s in u.options){var r=u.options[s];if(r.length>2){t.push({label:r[0],value:r[1]})}}}v.update(t);v.trigger("change");console.debug("Updating options for "+q)}}}})},_buildForm:function(){var t=this;this.field_list={};this.input_list={};this.element_list={};this.tree=new c(this);this.job_handler=new g(this);this.content=new f(this);var v=this.options;var o=new m.ButtonMenu({icon:"fa-cubes",title:"Versions",tooltip:"Click to see available versions."});if(v.versions&&v.versions.length>1){for(var q in v.versions){o.addMenu({title:v.versions[q],icon:"fa-cube",onclick:function(){v.id=v.id.replace(v.version,this.title);v.version=this.title;t.deferred.reset();t.deferred.execute(function(){t._buildModel()})}})}}else{o.$el.hide()}var r=new m.ButtonMenu({icon:"fa-gear",tooltip:"Click to see a list of options."});if(v.biostar_url){r.addMenu({icon:"fa-question-circle",title:"Question?",tooltip:"Ask a question about this tool (Biostar)",onclick:function(){window.open(v.biostar_url+"/p/new/post/")}});r.addMenu({icon:"fa-search",title:"Search",tooltip:"Search help for this tool (Biostar)",onclick:function(){window.open(v.biostar_url+"/t/"+v.id+"/")}})}r.addMenu({icon:"fa-share",title:"Share",tooltip:"Share this tool",onclick:function(){prompt("Copy to clipboard: Ctrl+C, Enter",window.location.origin+galaxy_config.root+"root?tool_id="+v.id)}});if(this.is_admin){r.addMenu({icon:"fa-download",title:"Download",tooltip:"Download this tool",onclick:function(){window.location.href=galaxy_config.root+"api/tools/"+v.id+"/download"}})}this.section=new l.View(t,{inputs:v.inputs,cls:"ui-table-plain"});if(this.incompatible){this.$el.hide();$("#tool-form-classic").show();return}this.portlet=new h.View({icon:"fa-wrench",title:"<b>"+v.name+"</b> "+v.description+" (Version "+v.version+")",cls:"ui-portlet-slim",operations:{menu:r,versions:o},buttons:{execute:new m.Button({icon:"fa-check",tooltip:"Execute: "+v.name,title:"Execute",cls:"btn btn-primary",floating:"clear",onclick:function(){t.job_handler.submit()}})}});this.$el.empty();this.$el.append(this.portlet.$el);if(v.help!=""){this.$el.append(d.help(v.help))}if(v.citations){var s=$("<div/>");var n=new k.ToolCitationCollection();n.tool_id=v.id;var p=new a.CitationListView({el:s,collection:n});p.render();n.fetch();this.$el.append(s)}if(v.message){var u=new m.Message({persistent:true,status:"warning",message:v.message});this.portlet.append(u.$el)}this.portlet.append(this.section.$el);this.rebuild()}});return{View:b}}); \ No newline at end of file diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/scripts/packed/mvc/tools/tools-jobs.js --- a/static/scripts/packed/mvc/tools/tools-jobs.js +++ b/static/scripts/packed/mvc/tools/tools-jobs.js @@ -1,1 +1,1 @@ -define(["utils/utils","mvc/tools/tools-template"],function(b,a){return Backbone.Model.extend({initialize:function(d,c){this.app=d;this.options=b.merge(c,this.optionsDefault)},submit:function(){var c=this;var d={tool_id:this.app.options.id,inputs:this.app.tree.finalize()};this.app.reset();if(!this._validation(d)){console.debug("tools-jobs::submit - Submission canceled. Validation failed.");return}console.debug(d);this.app.modal.show({title:"Please wait...",body:"progress",closing_events:true,buttons:{Close:function(){c.app.modal.hide()}}});b.request({type:"POST",url:galaxy_config.root+"api/tools",data:d,success:function(e){c.app.modal.hide();c.app.message(a.success(e));c._refreshHdas()},error:function(e,g){c.app.modal.hide();if(e&&e.message&&e.message.data){var h=c.app.tree.matchResponse(e.message.data);for(var f in h){c._foundError(f,h[f]);break}}else{console.debug(e);c.app.modal.show({title:"Job submission failed",body:a.error(d),buttons:{Close:function(){c.app.modal.hide()}}})}}})},_foundError:function(c,d){var e=this.app.element_list[c];e.error(d||"Please verify this parameter.");$(this.app.container).animate({scrollTop:e.$el.offset().top-20},500)},_validation:function(h){var d=h.inputs;var m=-1;var i=null;for(var k in d){var f=d[k];var l=this.app.tree.match(k);var e=this.app.field_list[l];var j=this.app.input_list[l];if(!l||!j||!e){console.debug("tools-jobs::_validation - Retrieving input objects failed.");continue}if(!j.optional&&e.validate&&!e.validate()){this._foundError(l);return false}if(f&&f.batch){var g=f.values.length;var c=null;if(g>0){c=f.values[0]&&f.values[0].src}if(c){if(i===null){i=c}else{if(i!==c){this._foundError(l,"Please select either dataset or dataset list fields for all batch mode fields.");return false}}}if(m===-1){m=g}else{if(m!==g){this._foundError(l,"Please make sure that you select the same number of inputs for all batch mode fields. This field contains <b>"+g+"</b> selection(s) while a previous field contains <b>"+m+"</b>.");return false}}}}return true},_refreshHdas:function(){if(parent.Galaxy&&parent.Galaxy.currHistoryPanel){parent.Galaxy.currHistoryPanel.refreshContents()}}})}); \ No newline at end of file +define(["utils/utils","mvc/tools/tools-template"],function(b,a){return Backbone.Model.extend({initialize:function(c){this.app=c},submit:function(){var c=this;var d={tool_id:this.app.options.id,tool_version:this.app.options.version,inputs:this.app.tree.finalize()};this.app.reset();if(!this._validation(d)){console.debug("tools-jobs::submit - Submission canceled. Validation failed.");return}console.debug(d);this.app.modal.show({title:"Please wait...",body:"progress",closing_events:true,buttons:{Close:function(){c.app.modal.hide()}}});b.request({type:"POST",url:galaxy_config.root+"api/tools",data:d,success:function(e){c.app.modal.hide();c.app.reciept(a.success(e));c._refreshHdas()},error:function(e,g){c.app.modal.hide();if(e&&e.message&&e.message.data){var h=c.app.tree.matchResponse(e.message.data);for(var f in h){c._foundError(f,h[f]);break}}else{console.debug(e);c.app.modal.show({title:"Job submission failed",body:a.error(d),buttons:{Close:function(){c.app.modal.hide()}}})}}})},_foundError:function(c,d){var e=this.app.element_list[c];e.error(d||"Please verify this parameter.");$(this.app.container).animate({scrollTop:e.$el.offset().top-20},500)},_validation:function(h){var d=h.inputs;var m=-1;var i=null;for(var k in d){var f=d[k];var l=this.app.tree.match(k);var e=this.app.field_list[l];var j=this.app.input_list[l];if(!l||!j||!e){console.debug("tools-jobs::_validation - Retrieving input objects failed.");continue}if(!j.optional&&e.validate&&!e.validate()){this._foundError(l);return false}if(f&&f.batch){var g=f.values.length;var c=null;if(g>0){c=f.values[0]&&f.values[0].src}if(c){if(i===null){i=c}else{if(i!==c){this._foundError(l,"Please select either dataset or dataset list fields for all batch mode fields.");return false}}}if(m===-1){m=g}else{if(m!==g){this._foundError(l,"Please make sure that you select the same number of inputs for all batch mode fields. This field contains <b>"+g+"</b> selection(s) while a previous field contains <b>"+m+"</b>.");return false}}}}return true},_refreshHdas:function(){if(parent.Galaxy&&parent.Galaxy.currHistoryPanel){parent.Galaxy.currHistoryPanel.refreshContents()}}})}); \ No newline at end of file diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/scripts/packed/mvc/tools/tools-select-content.js --- a/static/scripts/packed/mvc/tools/tools-select-content.js +++ b/static/scripts/packed/mvc/tools/tools-select-content.js @@ -1,1 +1,1 @@ -define(["utils/utils","mvc/ui/ui-misc","mvc/ui/ui-tabs","mvc/tools/tools-template"],function(c,e,b,a){var d=Backbone.View.extend({initialize:function(f,o){this.app=f;this.options=o;var n=this;this.setElement("<div/>");this.list={};var m=[];if(o.type=="data_collection"){this.mode="collection"}else{if(o.multiple){this.mode="multiple"}else{this.mode="single"}}this.current=this.mode;this.list={};var j=o.extensions.toString();if(j){j=j.replace(",",", ");var k=j.lastIndexOf(", ");if(k!=-1){j=j.substr(0,k)+" or "+j.substr(k+1)}}var h="No dataset available.";if(j){h="No "+j+" dataset available."}var l="No dataset list available.";if(j){l="No "+j+" dataset list available."}if(this.mode=="single"){m.push({icon:"fa-file-o",label:"Single dataset",value:"single"});this.select_single=new e.Select.View({error_text:h,onchange:function(){n.trigger("change")}});this.list.single={field:this.select_single,type:"hda"}}if(this.mode=="single"||this.mode=="multiple"){m.push({icon:"fa-files-o",label:"Multiple datasets",value:"multiple"});this.select_multiple=new e.Select.View({multiple:true,error_text:h,onchange:function(){n.trigger("change")}});this.list.multiple={field:this.select_multiple,type:"hda"}}if(this.mode=="single"||this.mode=="collection"){m.push({icon:"fa-folder-o",label:"List of datasets",value:"collection"});this.select_collection=new e.Select.View({error_text:l,onchange:function(){n.trigger("change")}});this.list.collection={field:this.select_collection,type:"hdca"}}this.button_type=new e.RadioButton.View({value:this.current,data:m,onchange:function(i){n.current=i;n.refresh();n.trigger("change")}});this.$batch=$(a.batchMode());if(_.size(this.list)>1){this.$el.append(c.wrap(this.button_type.$el))}for(var g in this.list){this.$el.append(this.list[g].field.$el)}this.$el.append(this.$batch);this.update(o.data);if(this.options.value!==undefined){this.value(this.options.value)}this.refresh();this.on("change",function(){if(o.onchange){o.onchange(n.value())}})},wait:function(){for(var f in this.list){this.list[f].field.wait()}},unwait:function(){for(var f in this.list){this.list[f].field.unwait()}},update:function(g){var l=[];for(var j in g.hda){var k=g.hda[j];l.push({label:k.hid+": "+k.name,value:k.id})}var f=[];for(var j in g.hdca){var h=g.hdca[j];f.push({label:h.hid+": "+h.name,value:h.id})}this.select_single&&this.select_single.update(l);this.select_multiple&&this.select_multiple.update(l);this.select_collection&&this.select_collection.update(f);this.app.content.add(g)},value:function(m){if(m&&m.values){try{var l=[];for(var h in m.values){l.push(m.values[h].id)}if(m&&m.values.length>0&&m.values[0].src=="hcda"){this.current="collection";this.select_collection.value(l[0])}else{if(this.mode=="multiple"){this.current="multiple";this.select_multiple.value(l)}else{this.current="single";this.select_single.value(l[0])}}this.refresh();var g=this._select();if(!g.validate()){g.value(g.first())}}catch(k){console.debug("tools-select-content::value() - Skipped.")}}var j=this._select().value();if(!(j instanceof Array)){j=[j]}var f={batch:this.mode=="single"&&this.current!="single",values:[]};for(var h in j){f.values.push({id:j[h],src:this.list[this.current].type})}return f},validate:function(){return this._select().validate()},refresh:function(){for(var g in this.list){var f=this.list[g].field.$el;if(this.current==g){f.show()}else{f.hide()}}if(this.mode=="single"&&this.current!="single"){this.$batch.show()}else{this.$batch.hide()}},_select:function(){return this.list[this.current].field}});return{View:d}}); \ No newline at end of file +define(["utils/utils","mvc/ui/ui-misc","mvc/ui/ui-tabs","mvc/tools/tools-template"],function(c,e,b,a){var d=Backbone.View.extend({initialize:function(f,o){this.app=f;this.options=o;var n=this;this.setElement("<div/>");this.list={};var m=[];if(o.type=="data_collection"){this.mode="collection"}else{if(o.multiple){this.mode="multiple"}else{this.mode="single"}}this.current=this.mode;this.list={};var j=o.extensions.toString();if(j){j=j.replace(/,/g,", ");var k=j.lastIndexOf(", ");if(k!=-1){j=j.substr(0,k)+" or "+j.substr(k+1)}}var h="No dataset available.";if(j){h="No "+j+" dataset available."}var l="No dataset list available.";if(j){l="No "+j+" dataset collection available."}if(this.mode=="single"){m.push({icon:"fa-file-o",label:"Single dataset",value:"single"});this.select_single=new e.Select.View({error_text:h,onchange:function(){n.trigger("change")}});this.list.single={field:this.select_single,type:"hda"}}if(this.mode=="single"||this.mode=="multiple"){m.push({icon:"fa-files-o",label:"Multiple datasets",value:"multiple"});this.select_multiple=new e.Select.View({multiple:true,error_text:h,onchange:function(){n.trigger("change")}});this.list.multiple={field:this.select_multiple,type:"hda"}}if(this.mode=="single"||this.mode=="collection"){m.push({icon:"fa-folder-o",label:"Dataset collection",value:"collection"});this.select_collection=new e.Select.View({error_text:l,onchange:function(){n.trigger("change")}});this.list.collection={field:this.select_collection,type:"hdca"}}this.button_type=new e.RadioButton.View({value:this.current,data:m,onchange:function(i){n.current=i;n.refresh();n.trigger("change")}});this.$batch=$(a.batchMode());if(_.size(this.list)>1){this.$el.append(c.wrap(this.button_type.$el))}for(var g in this.list){this.$el.append(this.list[g].field.$el)}this.$el.append(this.$batch);this.update(o.data);if(this.options.value!==undefined){this.value(this.options.value)}this.refresh();this.on("change",function(){if(o.onchange){o.onchange(n.value())}})},wait:function(){for(var f in this.list){this.list[f].field.wait()}},unwait:function(){for(var f in this.list){this.list[f].field.unwait()}},update:function(g){var l=[];for(var j in g.hda){var k=g.hda[j];l.push({label:k.hid+": "+k.name,value:k.id})}var f=[];for(var j in g.hdca){var h=g.hdca[j];f.push({label:h.hid+": "+h.name,value:h.id})}this.select_single&&this.select_single.update(l);this.select_multiple&&this.select_multiple.update(l);this.select_collection&&this.select_collection.update(f);this.app.content.add(g)},value:function(m){if(m&&m.values){try{var l=[];for(var h in m.values){l.push(m.values[h].id)}if(m&&m.values.length>0&&m.values[0].src=="hcda"){this.current="collection";this.select_collection.value(l[0])}else{if(this.mode=="multiple"){this.current="multiple";this.select_multiple.value(l)}else{this.current="single";this.select_single.value(l[0])}}this.refresh();var g=this._select();if(!g.validate()){g.value(g.first())}}catch(k){console.debug("tools-select-content::value() - Skipped.")}}var j=this._select().value();if(!(j instanceof Array)){j=[j]}var f={batch:this.mode=="single"&&this.current!="single",values:[]};for(var h in j){f.values.push({id:j[h],src:this.list[this.current].type})}return f},validate:function(){return this._select().validate()},refresh:function(){for(var g in this.list){var f=this.list[g].field.$el;if(this.current==g){f.show()}else{f.hide()}}if(this.mode=="single"&&this.current!="single"){this.$batch.show()}else{this.$batch.hide()}},_select:function(){return this.list[this.current].field}});return{View:d}}); \ No newline at end of file diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/scripts/packed/mvc/ui/ui-misc.js --- a/static/scripts/packed/mvc/ui/ui-misc.js +++ b/static/scripts/packed/mvc/ui/ui-misc.js @@ -1,1 +1,1 @@ -define(["utils/utils","mvc/ui/ui-select-default","mvc/ui/ui-slider","mvc/ui/ui-options","mvc/ui/ui-drilldown","mvc/ui/ui-button-menu","mvc/ui/ui-modal"],function(k,b,e,o,l,q,m){var d=Backbone.View.extend({optionsDefault:{url:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options))},_template:function(r){return'<img class="ui-image '+r.cls+'" src="'+r.url+'"/>'}});var j=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options))},title:function(r){this.$el.html(r)},_template:function(r){return'<label class="ui-label '+r.cls+'">'+r.title+"</label>"},value:function(){return options.title}});var c=Backbone.View.extend({optionsDefault:{floating:"right",icon:"",tooltip:"",placement:"bottom",title:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options));$(this.el).tooltip({title:r.tooltip,placement:"bottom"})},_template:function(r){return'<div><span class="fa '+r.icon+'" class="ui-icon"/> '+r.title+"</div>"}});var g=Backbone.View.extend({optionsDefault:{id:null,title:"",floating:"right",cls:"ui-button btn btn-default",icon:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options));$(this.el).on("click",function(){$(".tooltip").hide();if(r.onclick){r.onclick()}});$(this.el).tooltip({title:r.tooltip,placement:"bottom"})},_template:function(r){var s='<button id="'+r.id+'" type="submit" style="float: '+r.floating+';" type="button" class="'+r.cls+'">';if(r.icon){s+='<i class="icon fa '+r.icon+'"></i> '}s+=r.title+"</button>";return s}});var h=Backbone.View.extend({optionsDefault:{id:null,title:"",floating:"right",cls:"ui-button-icon",icon:"",tooltip:"",onclick:null},initialize:function(s){this.options=k.merge(s,this.optionsDefault);this.setElement(this._template(this.options));this.$button=this.$el.find(".button");var r=this;$(this.el).on("click",function(){$(".tooltip").hide();if(s.onclick&&!r.disabled){s.onclick()}});$(this.el).tooltip({title:s.tooltip,placement:"bottom"})},disable:function(){this.$button.addClass("disabled");this.disabled=true},enable:function(){this.$button.removeClass("disabled");this.disabled=false},_template:function(r){var s="";if(r.title){s="width: auto;"}var t='<div id="'+r.id+'" style="float: '+r.floating+"; "+s+'" class="'+r.cls+'">';if(r.title){t+='<div class="button"><i class="icon fa '+r.icon+'"/> <span class="title">'+r.title+"</span></div>"}else{t+='<i class="icon fa '+r.icon+'"/>'}t+="</div>";return t}});var f=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options));$(this.el).on("click",r.onclick)},_template:function(r){return'<div><a href="javascript:void(0)" class="ui-anchor '+r.cls+'">'+r.title+"</a></div>"}});var n=Backbone.View.extend({optionsDefault:{message:"",status:"info",persistent:false},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement("<div></div>")},update:function(s){this.options=k.merge(s,this.optionsDefault);if(s.message!=""){this.$el.html(this._template(this.options));this.$el.find(".alert").append(s.message);this.$el.fadeIn();if(!s.persistent){var r=this;window.setTimeout(function(){if(r.$el.is(":visible")){r.$el.fadeOut()}else{r.$el.hide()}},3000)}}else{this.$el.fadeOut()}},_template:function(r){return'<div class="ui-message alert alert-'+r.status+'"/>'}});var a=Backbone.View.extend({optionsDefault:{onclick:null,searchword:""},initialize:function(s){this.options=k.merge(s,this.optionsDefault);this.setElement(this._template(this.options));var r=this;if(this.options.onclick){this.$el.on("submit",function(u){var t=r.$el.find("#search");r.options.onclick(t.val())})}},_template:function(r){return'<div class="ui-search"><form onsubmit="return false;"><input id="search" class="form-control input-sm" type="text" name="search" placeholder="Search..." value="'+r.searchword+'"><button type="submit" class="btn search-btn"><i class="fa fa-search"></i></button></form></div>'}});var i=Backbone.View.extend({optionsDefault:{type:"text",placeholder:"",disabled:false,visible:true,cls:"",area:false},initialize:function(s){this.options=k.merge(s,this.optionsDefault);this.setElement(this._template(this.options));if(this.options.value!==undefined){this.value(this.options.value)}if(this.options.disabled){this.$el.prop("disabled",true)}if(!this.options.visible){this.$el.hide()}var r=this;this.$el.on("input",function(){if(r.options.onchange){r.options.onchange(r.$el.val())}})},value:function(r){if(r!==undefined){this.$el.val(r)}return this.$el.val()},_template:function(r){if(r.area){return'<textarea id="'+r.id+'" class="ui-textarea '+r.cls+'"></textarea>'}else{return'<input id="'+r.id+'" type="'+r.type+'" value="'+r.value+'" placeholder="'+r.placeholder+'" class="ui-input '+r.cls+'">'}}});var p=Backbone.View.extend({initialize:function(r){this.options=r;this.setElement(this._template(this.options));if(this.options.value!==undefined){this.value(this.options.value)}},value:function(r){if(r!==undefined){this.$el.val(r)}return this.$el.val()},_template:function(r){return'<hidden id="'+r.id+'" value="'+r.value+'"/>'}});return{Anchor:f,Button:g,ButtonIcon:h,ButtonMenu:q,Icon:c,Image:d,Input:i,Label:j,Message:n,Modal:m,RadioButton:o.RadioButton,Checkbox:o.Checkbox,Radio:o.Radio,Searchbox:a,Select:b,Hidden:p,Slider:e,Drilldown:l}}); \ No newline at end of file +define(["utils/utils","mvc/ui/ui-select-default","mvc/ui/ui-slider","mvc/ui/ui-options","mvc/ui/ui-drilldown","mvc/ui/ui-button-menu","mvc/ui/ui-modal"],function(k,b,e,o,l,q,m){var d=Backbone.View.extend({optionsDefault:{url:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options))},_template:function(r){return'<img class="ui-image '+r.cls+'" src="'+r.url+'"/>'}});var j=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options))},title:function(r){this.$el.html(r)},_template:function(r){return'<label class="ui-label '+r.cls+'">'+r.title+"</label>"},value:function(){return options.title}});var c=Backbone.View.extend({optionsDefault:{floating:"right",icon:"",tooltip:"",placement:"bottom",title:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options));$(this.el).tooltip({title:r.tooltip,placement:"bottom"})},_template:function(r){return'<div><span class="fa '+r.icon+'" class="ui-icon"/> '+r.title+"</div>"}});var g=Backbone.View.extend({optionsDefault:{id:null,title:"",floating:"right",cls:"ui-button btn btn-default",icon:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options));$(this.el).on("click",function(){$(".tooltip").hide();if(r.onclick){r.onclick()}});$(this.el).tooltip({title:r.tooltip,placement:"bottom"})},_template:function(r){var s='<button id="'+r.id+'" type="submit" style="float: '+r.floating+';" type="button" class="'+r.cls+'">';if(r.icon){s+='<i class="icon fa '+r.icon+'"></i> '}s+=r.title+"</button>";return s}});var h=Backbone.View.extend({optionsDefault:{id:null,title:"",floating:"right",cls:"ui-button-icon",icon:"",tooltip:"",onclick:null},initialize:function(s){this.options=k.merge(s,this.optionsDefault);this.setElement(this._template(this.options));this.$button=this.$el.find(".button");var r=this;$(this.el).on("click",function(){$(".tooltip").hide();if(s.onclick&&!r.disabled){s.onclick()}});$(this.el).tooltip({title:s.tooltip,placement:"bottom"})},disable:function(){this.$button.addClass("disabled");this.disabled=true},enable:function(){this.$button.removeClass("disabled");this.disabled=false},_template:function(r){var s="";if(r.title){s="width: auto;"}var t='<div id="'+r.id+'" style="float: '+r.floating+"; "+s+'" class="'+r.cls+'">';if(r.title){t+='<div class="button"><i class="icon fa '+r.icon+'"/> <span class="title">'+r.title+"</span></div>"}else{t+='<i class="icon fa '+r.icon+'"/>'}t+="</div>";return t}});var f=Backbone.View.extend({optionsDefault:{title:"",cls:""},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement(this._template(this.options));$(this.el).on("click",r.onclick)},_template:function(r){return'<div><a href="javascript:void(0)" class="ui-anchor '+r.cls+'">'+r.title+"</a></div>"}});var n=Backbone.View.extend({optionsDefault:{message:null,status:"info",persistent:false},initialize:function(r){this.options=k.merge(r,this.optionsDefault);this.setElement("<div></div>");if(this.options.message){this.update(this.options)}},update:function(s){this.options=k.merge(s,this.optionsDefault);if(s.message!=""){this.$el.html(this._template(this.options));this.$el.find(".alert").append(s.message);this.$el.fadeIn();if(!s.persistent){var r=this;window.setTimeout(function(){if(r.$el.is(":visible")){r.$el.fadeOut()}else{r.$el.hide()}},3000)}}else{this.$el.fadeOut()}},_template:function(r){return'<div class="ui-message alert alert-'+r.status+'"/>'}});var a=Backbone.View.extend({optionsDefault:{onclick:null,searchword:""},initialize:function(s){this.options=k.merge(s,this.optionsDefault);this.setElement(this._template(this.options));var r=this;if(this.options.onclick){this.$el.on("submit",function(u){var t=r.$el.find("#search");r.options.onclick(t.val())})}},_template:function(r){return'<div class="ui-search"><form onsubmit="return false;"><input id="search" class="form-control input-sm" type="text" name="search" placeholder="Search..." value="'+r.searchword+'"><button type="submit" class="btn search-btn"><i class="fa fa-search"></i></button></form></div>'}});var i=Backbone.View.extend({optionsDefault:{type:"text",placeholder:"",disabled:false,visible:true,cls:"",area:false},initialize:function(s){this.options=k.merge(s,this.optionsDefault);this.setElement(this._template(this.options));if(this.options.value!==undefined){this.value(this.options.value)}if(this.options.disabled){this.$el.prop("disabled",true)}if(!this.options.visible){this.$el.hide()}var r=this;this.$el.on("input",function(){if(r.options.onchange){r.options.onchange(r.$el.val())}})},value:function(r){if(r!==undefined){this.$el.val(r)}return this.$el.val()},_template:function(r){if(r.area){return'<textarea id="'+r.id+'" class="ui-textarea '+r.cls+'"></textarea>'}else{return'<input id="'+r.id+'" type="'+r.type+'" value="'+r.value+'" placeholder="'+r.placeholder+'" class="ui-input '+r.cls+'">'}}});var p=Backbone.View.extend({initialize:function(r){this.options=r;this.setElement(this._template(this.options));if(this.options.value!==undefined){this.value(this.options.value)}},value:function(r){if(r!==undefined){this.$el.val(r)}return this.$el.val()},_template:function(r){return'<hidden id="'+r.id+'" value="'+r.value+'"/>'}});return{Anchor:f,Button:g,ButtonIcon:h,ButtonMenu:q,Icon:c,Image:d,Input:i,Label:j,Message:n,Modal:m,RadioButton:o.RadioButton,Checkbox:o.Checkbox,Radio:o.Radio,Searchbox:a,Select:b,Hidden:p,Slider:e,Drilldown:l}}); \ No newline at end of file diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/style/blue/base.css --- a/static/style/blue/base.css +++ b/static/style/blue/base.css @@ -762,7 +762,7 @@ .nav-tabs{margin-bottom:15px} a{text-decoration:underline} label{font-weight:normal} -@font-face{font-family:'FontAwesome';src:url('../images/fonts/fontawesome-webfont.eot?v=4.0.1');src:url('../images/fonts/fontawesome-webfont.eot?#iefix&v=4.0.1') format('embedded-opentype'),url('../images/fonts/fontawesome-webfont.woff?v=4.0.1') format('woff'),url('../images/fonts/fontawesome-webfont.ttf?v=4.0.1') format('truetype'),url('../images/fonts/fontawesome-webfont.svg?v=4.0.1#fontawesomeregular') format('svg');font-weight:normal;font-style:normal}.fa{display:inline-block;font-family:FontAwesome;font-style:normal;font-weight:normal;line-height:1;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale} +@font-face{font-family:'FontAwesome';src:url('../images/fonts/fontawesome-webfont.eot?v=4.2.0');src:url('../images/fonts/fontawesome-webfont.eot?#iefix&v=4.2.0') format('embedded-opentype'),url('../images/fonts/fontawesome-webfont.woff?v=4.2.0') format('woff'),url('../images/fonts/fontawesome-webfont.ttf?v=4.2.0') format('truetype'),url('../images/fonts/fontawesome-webfont.svg?v=4.2.0#fontawesomeregular') format('svg');font-weight:normal;font-style:normal}.fa{display:inline-block;font:normal normal normal 14px/1 FontAwesome;font-size:inherit;text-rendering:auto;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale} .fa-lg{font-size:1.3333333333333333em;line-height:.75em;vertical-align:-15%} .fa-2x{font-size:2em} .fa-3x{font-size:3em} @@ -776,12 +776,13 @@ .pull-left{float:left} .fa.pull-left{margin-right:.3em} .fa.pull-right{margin-left:.3em} -.fa-spin{-webkit-animation:spin 2s infinite linear;-moz-animation:spin 2s infinite linear;-o-animation:spin 2s infinite linear;animation:spin 2s infinite linear} -@-moz-keyframes spin{0%{-moz-transform:rotate(0deg)} 100%{-moz-transform:rotate(359deg)}}@-webkit-keyframes spin{0%{-webkit-transform:rotate(0deg)} 100%{-webkit-transform:rotate(359deg)}}@-o-keyframes spin{0%{-o-transform:rotate(0deg)} 100%{-o-transform:rotate(359deg)}}@-ms-keyframes spin{0%{-ms-transform:rotate(0deg)} 100%{-ms-transform:rotate(359deg)}}@keyframes spin{0%{transform:rotate(0deg)} 100%{transform:rotate(359deg)}}.fa-rotate-90{filter:progid:DXImageTransform.Microsoft.BasicImage(rotation=1);-webkit-transform:rotate(90deg);-moz-transform:rotate(90deg);-ms-transform:rotate(90deg);-o-transform:rotate(90deg);transform:rotate(90deg)} -.fa-rotate-180{filter:progid:DXImageTransform.Microsoft.BasicImage(rotation=2);-webkit-transform:rotate(180deg);-moz-transform:rotate(180deg);-ms-transform:rotate(180deg);-o-transform:rotate(180deg);transform:rotate(180deg)} -.fa-rotate-270{filter:progid:DXImageTransform.Microsoft.BasicImage(rotation=3);-webkit-transform:rotate(270deg);-moz-transform:rotate(270deg);-ms-transform:rotate(270deg);-o-transform:rotate(270deg);transform:rotate(270deg)} -.fa-flip-horizontal{filter:progid:DXImageTransform.Microsoft.BasicImage(rotation=0, mirror=1);-webkit-transform:scale(-1, 1);-moz-transform:scale(-1, 1);-ms-transform:scale(-1, 1);-o-transform:scale(-1, 1);transform:scale(-1, 1)} -.fa-flip-vertical{filter:progid:DXImageTransform.Microsoft.BasicImage(rotation=2, mirror=1);-webkit-transform:scale(1, -1);-moz-transform:scale(1, -1);-ms-transform:scale(1, -1);-o-transform:scale(1, -1);transform:scale(1, -1)} +.fa-spin{-webkit-animation:fa-spin 2s infinite linear;animation:fa-spin 2s infinite linear} +@-webkit-keyframes fa-spin{0%{-webkit-transform:rotate(0deg);transform:rotate(0deg)} 100%{-webkit-transform:rotate(359deg);transform:rotate(359deg)}}@keyframes fa-spin{0%{-webkit-transform:rotate(0deg);transform:rotate(0deg)} 100%{-webkit-transform:rotate(359deg);transform:rotate(359deg)}}.fa-rotate-90{filter:progid:DXImageTransform.Microsoft.BasicImage(rotation=1);-webkit-transform:rotate(90deg);-ms-transform:rotate(90deg);transform:rotate(90deg)} +.fa-rotate-180{filter:progid:DXImageTransform.Microsoft.BasicImage(rotation=2);-webkit-transform:rotate(180deg);-ms-transform:rotate(180deg);transform:rotate(180deg)} +.fa-rotate-270{filter:progid:DXImageTransform.Microsoft.BasicImage(rotation=3);-webkit-transform:rotate(270deg);-ms-transform:rotate(270deg);transform:rotate(270deg)} +.fa-flip-horizontal{filter:progid:DXImageTransform.Microsoft.BasicImage(rotation=0, mirror=1);-webkit-transform:scale(-1, 1);-ms-transform:scale(-1, 1);transform:scale(-1, 1)} +.fa-flip-vertical{filter:progid:DXImageTransform.Microsoft.BasicImage(rotation=2, mirror=1);-webkit-transform:scale(1, -1);-ms-transform:scale(1, -1);transform:scale(1, -1)} +:root .fa-rotate-90,:root .fa-rotate-180,:root .fa-rotate-270,:root .fa-flip-horizontal,:root .fa-flip-vertical{filter:none} .fa-stack{position:relative;display:inline-block;width:2em;height:2em;line-height:2em;vertical-align:middle} .fa-stack-1x,.fa-stack-2x{position:absolute;left:0;width:100%;text-align:center} .fa-stack-1x{line-height:inherit} @@ -800,7 +801,7 @@ .fa-th:before{content:"\f00a"} .fa-th-list:before{content:"\f00b"} .fa-check:before{content:"\f00c"} -.fa-times:before{content:"\f00d"} +.fa-remove:before,.fa-close:before,.fa-times:before{content:"\f00d"} .fa-search-plus:before{content:"\f00e"} .fa-search-minus:before{content:"\f010"} .fa-power-off:before{content:"\f011"} @@ -846,7 +847,7 @@ .fa-dedent:before,.fa-outdent:before{content:"\f03b"} .fa-indent:before{content:"\f03c"} .fa-video-camera:before{content:"\f03d"} -.fa-picture-o:before{content:"\f03e"} +.fa-photo:before,.fa-image:before,.fa-picture-o:before{content:"\f03e"} .fa-pencil:before{content:"\f040"} .fa-map-marker:before{content:"\f041"} .fa-adjust:before{content:"\f042"} @@ -854,7 +855,7 @@ .fa-edit:before,.fa-pencil-square-o:before{content:"\f044"} .fa-share-square-o:before{content:"\f045"} .fa-check-square-o:before{content:"\f046"} -.fa-move:before{content:"\f047"} +.fa-arrows:before{content:"\f047"} .fa-step-backward:before{content:"\f048"} .fa-fast-backward:before{content:"\f049"} .fa-backward:before{content:"\f04a"} @@ -882,8 +883,8 @@ .fa-arrow-up:before{content:"\f062"} .fa-arrow-down:before{content:"\f063"} .fa-mail-forward:before,.fa-share:before{content:"\f064"} -.fa-resize-full:before{content:"\f065"} -.fa-resize-small:before{content:"\f066"} +.fa-expand:before{content:"\f065"} +.fa-compress:before{content:"\f066"} .fa-plus:before{content:"\f067"} .fa-minus:before{content:"\f068"} .fa-asterisk:before{content:"\f069"} @@ -905,9 +906,9 @@ .fa-shopping-cart:before{content:"\f07a"} .fa-folder:before{content:"\f07b"} .fa-folder-open:before{content:"\f07c"} -.fa-resize-vertical:before{content:"\f07d"} -.fa-resize-horizontal:before{content:"\f07e"} -.fa-bar-chart-o:before{content:"\f080"} +.fa-arrows-v:before{content:"\f07d"} +.fa-arrows-h:before{content:"\f07e"} +.fa-bar-chart-o:before,.fa-bar-chart:before{content:"\f080"} .fa-twitter-square:before{content:"\f081"} .fa-facebook-square:before{content:"\f082"} .fa-camera-retro:before{content:"\f083"} @@ -954,8 +955,8 @@ .fa-tasks:before{content:"\f0ae"} .fa-filter:before{content:"\f0b0"} .fa-briefcase:before{content:"\f0b1"} -.fa-fullscreen:before{content:"\f0b2"} -.fa-group:before{content:"\f0c0"} +.fa-arrows-alt:before{content:"\f0b2"} +.fa-group:before,.fa-users:before{content:"\f0c0"} .fa-chain:before,.fa-link:before{content:"\f0c1"} .fa-cloud:before{content:"\f0c2"} .fa-flask:before{content:"\f0c3"} @@ -964,7 +965,7 @@ .fa-paperclip:before{content:"\f0c6"} .fa-save:before,.fa-floppy-o:before{content:"\f0c7"} .fa-square:before{content:"\f0c8"} -.fa-reorder:before{content:"\f0c9"} +.fa-navicon:before,.fa-reorder:before,.fa-bars:before{content:"\f0c9"} .fa-list-ul:before{content:"\f0ca"} .fa-list-ol:before{content:"\f0cb"} .fa-strikethrough:before{content:"\f0cc"} @@ -983,8 +984,8 @@ .fa-caret-right:before{content:"\f0da"} .fa-columns:before{content:"\f0db"} .fa-unsorted:before,.fa-sort:before{content:"\f0dc"} -.fa-sort-down:before,.fa-sort-asc:before{content:"\f0dd"} -.fa-sort-up:before,.fa-sort-desc:before{content:"\f0de"} +.fa-sort-down:before,.fa-sort-desc:before{content:"\f0dd"} +.fa-sort-up:before,.fa-sort-asc:before{content:"\f0de"} .fa-envelope:before{content:"\f0e0"} .fa-linkedin:before{content:"\f0e1"} .fa-rotate-left:before,.fa-undo:before{content:"\f0e2"} @@ -1007,8 +1008,8 @@ .fa-coffee:before{content:"\f0f4"} .fa-cutlery:before{content:"\f0f5"} .fa-file-text-o:before{content:"\f0f6"} -.fa-building:before{content:"\f0f7"} -.fa-hospital:before{content:"\f0f8"} +.fa-building-o:before{content:"\f0f7"} +.fa-hospital-o:before{content:"\f0f8"} .fa-ambulance:before{content:"\f0f9"} .fa-medkit:before{content:"\f0fa"} .fa-fighter-jet:before{content:"\f0fb"} @@ -1036,8 +1037,6 @@ .fa-github-alt:before{content:"\f113"} .fa-folder-o:before{content:"\f114"} .fa-folder-open-o:before{content:"\f115"} -.fa-expand-o:before{content:"\f116"} -.fa-collapse-o:before{content:"\f117"} .fa-smile-o:before{content:"\f118"} .fa-frown-o:before{content:"\f119"} .fa-meh-o:before{content:"\f11a"} @@ -1047,8 +1046,7 @@ .fa-flag-checkered:before{content:"\f11e"} .fa-terminal:before{content:"\f120"} .fa-code:before{content:"\f121"} -.fa-reply-all:before{content:"\f122"} -.fa-mail-reply-all:before{content:"\f122"} +.fa-mail-reply-all:before,.fa-reply-all:before{content:"\f122"} .fa-star-half-empty:before,.fa-star-half-full:before,.fa-star-half-o:before{content:"\f123"} .fa-location-arrow:before{content:"\f124"} .fa-crop:before{content:"\f125"} @@ -1075,10 +1073,10 @@ .fa-html5:before{content:"\f13b"} .fa-css3:before{content:"\f13c"} .fa-anchor:before{content:"\f13d"} -.fa-unlock-o:before{content:"\f13e"} +.fa-unlock-alt:before{content:"\f13e"} .fa-bullseye:before{content:"\f140"} -.fa-ellipsis-horizontal:before{content:"\f141"} -.fa-ellipsis-vertical:before{content:"\f142"} +.fa-ellipsis-h:before{content:"\f141"} +.fa-ellipsis-v:before{content:"\f142"} .fa-rss-square:before{content:"\f143"} .fa-play-circle:before{content:"\f144"} .fa-ticket:before{content:"\f145"} @@ -1157,6 +1155,118 @@ .fa-wheelchair:before{content:"\f193"} .fa-vimeo-square:before{content:"\f194"} .fa-turkish-lira:before,.fa-try:before{content:"\f195"} +.fa-plus-square-o:before{content:"\f196"} +.fa-space-shuttle:before{content:"\f197"} +.fa-slack:before{content:"\f198"} +.fa-envelope-square:before{content:"\f199"} +.fa-wordpress:before{content:"\f19a"} +.fa-openid:before{content:"\f19b"} +.fa-institution:before,.fa-bank:before,.fa-university:before{content:"\f19c"} +.fa-mortar-board:before,.fa-graduation-cap:before{content:"\f19d"} +.fa-yahoo:before{content:"\f19e"} +.fa-google:before{content:"\f1a0"} +.fa-reddit:before{content:"\f1a1"} +.fa-reddit-square:before{content:"\f1a2"} +.fa-stumbleupon-circle:before{content:"\f1a3"} +.fa-stumbleupon:before{content:"\f1a4"} +.fa-delicious:before{content:"\f1a5"} +.fa-digg:before{content:"\f1a6"} +.fa-pied-piper:before{content:"\f1a7"} +.fa-pied-piper-alt:before{content:"\f1a8"} +.fa-drupal:before{content:"\f1a9"} +.fa-joomla:before{content:"\f1aa"} +.fa-language:before{content:"\f1ab"} +.fa-fax:before{content:"\f1ac"} +.fa-building:before{content:"\f1ad"} +.fa-child:before{content:"\f1ae"} +.fa-paw:before{content:"\f1b0"} +.fa-spoon:before{content:"\f1b1"} +.fa-cube:before{content:"\f1b2"} +.fa-cubes:before{content:"\f1b3"} +.fa-behance:before{content:"\f1b4"} +.fa-behance-square:before{content:"\f1b5"} +.fa-steam:before{content:"\f1b6"} +.fa-steam-square:before{content:"\f1b7"} +.fa-recycle:before{content:"\f1b8"} +.fa-automobile:before,.fa-car:before{content:"\f1b9"} +.fa-cab:before,.fa-taxi:before{content:"\f1ba"} +.fa-tree:before{content:"\f1bb"} +.fa-spotify:before{content:"\f1bc"} +.fa-deviantart:before{content:"\f1bd"} +.fa-soundcloud:before{content:"\f1be"} +.fa-database:before{content:"\f1c0"} +.fa-file-pdf-o:before{content:"\f1c1"} +.fa-file-word-o:before{content:"\f1c2"} +.fa-file-excel-o:before{content:"\f1c3"} +.fa-file-powerpoint-o:before{content:"\f1c4"} +.fa-file-photo-o:before,.fa-file-picture-o:before,.fa-file-image-o:before{content:"\f1c5"} +.fa-file-zip-o:before,.fa-file-archive-o:before{content:"\f1c6"} +.fa-file-sound-o:before,.fa-file-audio-o:before{content:"\f1c7"} +.fa-file-movie-o:before,.fa-file-video-o:before{content:"\f1c8"} +.fa-file-code-o:before{content:"\f1c9"} +.fa-vine:before{content:"\f1ca"} +.fa-codepen:before{content:"\f1cb"} +.fa-jsfiddle:before{content:"\f1cc"} +.fa-life-bouy:before,.fa-life-buoy:before,.fa-life-saver:before,.fa-support:before,.fa-life-ring:before{content:"\f1cd"} +.fa-circle-o-notch:before{content:"\f1ce"} +.fa-ra:before,.fa-rebel:before{content:"\f1d0"} +.fa-ge:before,.fa-empire:before{content:"\f1d1"} +.fa-git-square:before{content:"\f1d2"} +.fa-git:before{content:"\f1d3"} +.fa-hacker-news:before{content:"\f1d4"} +.fa-tencent-weibo:before{content:"\f1d5"} +.fa-qq:before{content:"\f1d6"} +.fa-wechat:before,.fa-weixin:before{content:"\f1d7"} +.fa-send:before,.fa-paper-plane:before{content:"\f1d8"} +.fa-send-o:before,.fa-paper-plane-o:before{content:"\f1d9"} +.fa-history:before{content:"\f1da"} +.fa-circle-thin:before{content:"\f1db"} +.fa-header:before{content:"\f1dc"} +.fa-paragraph:before{content:"\f1dd"} +.fa-sliders:before{content:"\f1de"} +.fa-share-alt:before{content:"\f1e0"} +.fa-share-alt-square:before{content:"\f1e1"} +.fa-bomb:before{content:"\f1e2"} +.fa-soccer-ball-o:before,.fa-futbol-o:before{content:"\f1e3"} +.fa-tty:before{content:"\f1e4"} +.fa-binoculars:before{content:"\f1e5"} +.fa-plug:before{content:"\f1e6"} +.fa-slideshare:before{content:"\f1e7"} +.fa-twitch:before{content:"\f1e8"} +.fa-yelp:before{content:"\f1e9"} +.fa-newspaper-o:before{content:"\f1ea"} +.fa-wifi:before{content:"\f1eb"} +.fa-calculator:before{content:"\f1ec"} +.fa-paypal:before{content:"\f1ed"} +.fa-google-wallet:before{content:"\f1ee"} +.fa-cc-visa:before{content:"\f1f0"} +.fa-cc-mastercard:before{content:"\f1f1"} +.fa-cc-discover:before{content:"\f1f2"} +.fa-cc-amex:before{content:"\f1f3"} +.fa-cc-paypal:before{content:"\f1f4"} +.fa-cc-stripe:before{content:"\f1f5"} +.fa-bell-slash:before{content:"\f1f6"} +.fa-bell-slash-o:before{content:"\f1f7"} +.fa-trash:before{content:"\f1f8"} +.fa-copyright:before{content:"\f1f9"} +.fa-at:before{content:"\f1fa"} +.fa-eyedropper:before{content:"\f1fb"} +.fa-paint-brush:before{content:"\f1fc"} +.fa-birthday-cake:before{content:"\f1fd"} +.fa-area-chart:before{content:"\f1fe"} +.fa-pie-chart:before{content:"\f200"} +.fa-line-chart:before{content:"\f201"} +.fa-lastfm:before{content:"\f202"} +.fa-lastfm-square:before{content:"\f203"} +.fa-toggle-off:before{content:"\f204"} +.fa-toggle-on:before{content:"\f205"} +.fa-bicycle:before{content:"\f206"} +.fa-bus:before{content:"\f207"} +.fa-ioxhost:before{content:"\f208"} +.fa-angellist:before{content:"\f209"} +.fa-cc:before{content:"\f20a"} +.fa-shekel:before,.fa-sheqel:before,.fa-ils:before{content:"\f20b"} +.fa-meanpath:before{content:"\f20c"} .fa-icon{font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale} .select2-container{margin:0;position:relative;display:inline-block;zoom:1;*display:inline;vertical-align:middle} .select2-container,.select2-drop,.select2-search,.select2-search input{-webkit-box-sizing:border-box;-moz-box-sizing:border-box;box-sizing:border-box;} @@ -1610,7 +1720,7 @@ .unified-panel-footer{-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;user-select:none;position:absolute;bottom:0;height:25px;line-height:25px;width:100%;z-index:1000;border-top:solid #999 1px;background:#eee;color:#555}.unified-panel-footer a{color:#555} .unified-panel-footer .drag{position:absolute;top:0;right:0;padding:0 5px;text-align:center;height:25px;width:20px;background-image:url(../images/visualization/draggable_horizontal.png);background-repeat:no-repeat;background-position:50% 50%;cursor:w-resize} #right>.unified-panel-footer .drag{left:0} -.panel-collapse{-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;user-select:none;position:absolute;width:100%;z-index:1000;background:#eee;color:#555;font-size:1.3333333333333333em;font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale;z-index:201;display:block;position:fixed;left:0;top:inherit;bottom:0;padding:0 5px;text-align:center;height:25px;line-height:25px;width:20px;background:none;border-right:solid #999 1px;border-top:solid #999 1px;background:#eee}.panel-collapse a{color:#555} +.panel-collapse{-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;user-select:none;position:absolute;width:100%;z-index:1000;background:#eee;color:#555;font-size:1.3333333333333333em;display:inline-block;font:normal normal normal 14px/1 FontAwesome;font-size:inherit;text-rendering:auto;font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale;z-index:201;display:block;position:fixed;left:0;top:inherit;bottom:0;padding:0 5px;text-align:center;height:25px;line-height:25px;width:20px;background:none;border-right:solid #999 1px;border-top:solid #999 1px;background:#eee}.panel-collapse a{color:#555} .panel-collapse .drag{position:absolute;top:0;right:0;padding:0 5px;text-align:center;height:25px;width:20px;background-image:url(../images/visualization/draggable_horizontal.png);background-repeat:no-repeat;background-position:50% 50%;cursor:w-resize} .panel-collapse:before{content:'\f053'} .panel-collapse.hidden:before{content:'\f054'} @@ -1687,7 +1797,7 @@ .search-query{display:inline-block;padding:4px;font-size:12px;line-height:1.428571429;color:#555;border:1px solid #aaa;padding-left:14px !important;padding-right:14px;margin-bottom:0;-webkit-border-radius:14px;-moz-border-radius:14px;border-radius:14px;max-width:auto} .search-query:focus{border-color:rgba(24,132,218,0.8);-webkit-box-shadow:inset 0 1px 1px rgba(0,0,0,0.075),0 0 8px rgba(82,168,236,0.6);box-shadow:inset 0 1px 1px rgba(0,0,0,0.075),0 0 8px rgba(82,168,236,0.6);outline:0;outline:thin dotted \9;} .search-spinner{position:absolute;display:none;right:6px;top:9px} -#search-clear-btn{position:absolute;right:6px;top:5px;display:block;font-size:1.4em;text-decoration:none;color:#888;font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale}#search-clear-btn:before{content:"\f057"} +#search-clear-btn{position:absolute;right:6px;top:9px;display:block;font-size:1.4em !important;text-decoration:none;color:#888;display:inline-block;font:normal normal normal 14px/1 FontAwesome;font-size:inherit;text-rendering:auto;-moz-osx-font-smoothing:grayscale;font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale}#search-clear-btn:before{content:"\f057"} .errormessagelarge,.warningmessagelarge,.donemessagelarge,.infomessagelarge{padding:15px;margin-bottom:17px;border:1px solid transparent;border-radius:3px;min-height:36px;padding-left:52px;background-image:url(error_large.png);background-repeat:no-repeat;background-position:10px 8px}.errormessagelarge h4,.warningmessagelarge h4,.donemessagelarge h4,.infomessagelarge h4{margin-top:0;color:inherit} .errormessagelarge .alert-link,.warningmessagelarge .alert-link,.donemessagelarge .alert-link,.infomessagelarge .alert-link{font-weight:bold} .errormessagelarge>p,.warningmessagelarge>p,.donemessagelarge>p,.infomessagelarge>p,.errormessagelarge>ul,.warningmessagelarge>ul,.donemessagelarge>ul,.infomessagelarge>ul{margin-bottom:0} @@ -1878,7 +1988,7 @@ .list-item .details .list-panel{margin-top:8px;border-radius:3px;background:white;padding:4px}.list-item .details .list-panel .list-items{border:1px solid #bfbfbf;border-radius:3px}.list-item .details .list-panel .list-items .list-item:first-child{border-top-width:0px;border-radius:3px 3px 0px 0px} .list-item .details .list-panel .list-items .list-item:last-child{border-bottom-width:0px;border-radius:0px 0px 3px 3px} .history-panel-header .panel-header-button{display:inline-block;height:22px;width:22px;text-align:center;line-height:19px;font-size:1.2em;padding:0px} -.state-icon{font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale;display:inline-block;margin-right:4px;vertical-align:middle;width:16px;height:16px;line-height:16px;text-align:center;font-size:16px} +.state-icon{font:normal normal normal 14px/1 FontAwesome;font-size:inherit;text-rendering:auto;font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale;display:inline-block;margin-right:4px;vertical-align:middle;width:16px;height:16px;line-height:16px;text-align:center;font-size:16px} .state-icon-running{-webkit-animation:spin 2s infinite linear;-moz-animation:spin 2s infinite linear;-o-animation:spin 2s infinite linear;animation:spin 2s infinite linear}@-moz-keyframes spin{0%{-moz-transform:rotate(0deg)} 100%{-moz-transform:rotate(359deg)}}@-webkit-keyframes spin{0%{-webkit-transform:rotate(0deg)} 100%{-webkit-transform:rotate(359deg)}}@-o-keyframes spin{0%{-o-transform:rotate(0deg)} 100%{-o-transform:rotate(359deg)}}@-ms-keyframes spin{0%{-ms-transform:rotate(0deg)} 100%{-ms-transform:rotate(359deg)}}@keyframes spin{0%{transform:rotate(0deg)} 100%{transform:rotate(359deg)}}.state-icon-running:before{content:"\f110"} .state-icon-upload{overflow:hidden}.state-icon-upload:before{display:inline-block;-webkit-animation:eclipse 2s infinite linear;-moz-animation:eclipse 2s infinite linear;-o-animation:eclipse 2s infinite linear;animation:eclipse 2s infinite linear;content:"\f062"}@-moz-keyframes eclipse{0%{-moz-transform:translate(0, 16px)} 100%{-moz-transform:translate(0, -16px)}}@-webkit-keyframes eclipse{0%{-webkit-transform:translate(0, 16px)} 100%{-webkit-transform:translate(0, -16px)}}@-o-keyframes eclipse{0%{-o-transform:translate(0, 16px)} 100%{-o-transform:translate(0, -16px)}}@-ms-keyframes eclipse{0%{-ms-transform:translate(0, 16px)} 100%{-ms-transform:translate(0, -16px)}}@keyframes eclipse{0%{transform:translate(0, 16px)} 100%{transform:translate(0, -16px)}} .state-icon-error{background-color:white;border-radius:8px}.state-icon-error:before{font-size:20px;line-height:16px;color:red;content:"\f057"} @@ -1974,9 +2084,9 @@ div.historyItem-setting_metadata{background:#ffc}div.historyItem-setting_metadata .state-icon{background-image:url(data_running.gif)} div.historyItem-upload{background:#a6e4f7}div.historyItem-upload .state-icon{background-image:url(data_upload.gif)} div.historyItem-queued{background:#eee}div.historyItem-queued .state-icon{background-image:url(sprite-history-states.png);background-position:0px -45px;width:15px;height:15px;height:15px} -div.historyItem-noPermission{filter:alpha(opacity=60);-moz-opacity:.60;opacity:.60}div.historyItem-noPermission .state-icon{line-height:16px;font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale}div.historyItem-noPermission .state-icon:before{content:"\f05e"} -div.historyItem-paused{background:#d9edf7}div.historyItem-paused .state-icon{line-height:16px;font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale}div.historyItem-paused .state-icon:before{content:"\f04c"} -div.historyItem-new .state-icon{line-height:16px;font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale}div.historyItem-new .state-icon:before{content:"\f071"} +div.historyItem-noPermission{filter:alpha(opacity=60);-moz-opacity:.60;opacity:.60}div.historyItem-noPermission .state-icon{line-height:16px;display:inline-block;font:normal normal normal 14px/1 FontAwesome;font-size:inherit;text-rendering:auto;-moz-osx-font-smoothing:grayscale;font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale}div.historyItem-noPermission .state-icon:before{content:"\f05e"} +div.historyItem-paused{background:#d9edf7}div.historyItem-paused .state-icon{line-height:16px;display:inline-block;font:normal normal normal 14px/1 FontAwesome;font-size:inherit;text-rendering:auto;-moz-osx-font-smoothing:grayscale;font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale}div.historyItem-paused .state-icon:before{content:"\f04c"} +div.historyItem-new .state-icon{line-height:16px;display:inline-block;font:normal normal normal 14px/1 FontAwesome;font-size:inherit;text-rendering:auto;-moz-osx-font-smoothing:grayscale;font-family:FontAwesome;-webkit-font-smoothing:antialiased;-moz-osx-font-smoothing:grayscale}div.historyItem-new .state-icon:before{content:"\f071"} div.historyItemTitleBar.spinner .state-icon{background:url(data_running.gif) 0 1px no-repeat !important} div.historyItemButtons{float:right}div.historyItemButtons .icon-button.display{background-image:url(sprite-history-buttons.png);background-position:0px -48px;width:16px;height:16px;height:16px} div.historyItemButtons .icon-button.display:hover{background-image:url(sprite-history-buttons.png);background-position:0px -64px;width:16px;height:16px;height:16px} diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/style/src/less/base.less --- a/static/style/src/less/base.less +++ b/static/style/src/less/base.less @@ -742,9 +742,9 @@ #search-clear-btn { position: absolute; right: 6px; - top: 5px; + top: 9px; display: block; - font-size: 1.4em; + font-size: 1.4em !important; text-decoration: none; color: #888; .fa-icon; diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/style/src/less/fontawesome/core.less --- a/static/style/src/less/fontawesome/core.less +++ b/static/style/src/less/fontawesome/core.less @@ -3,10 +3,9 @@ .@{fa-css-prefix} { display: inline-block; - font-family: FontAwesome; - font-style: normal; - font-weight: normal; - line-height: 1; + font: normal normal normal 14px/1 FontAwesome; // shortening font declaration + font-size: inherit; // can't have font-size inherit on line above, so need to override + text-rendering: auto; // optimizelegibility throws things off #1094 -webkit-font-smoothing: antialiased; -moz-osx-font-smoothing: grayscale; } diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/style/src/less/fontawesome/font-awesome.less --- a/static/style/src/less/fontawesome/font-awesome.less +++ b/static/style/src/less/fontawesome/font-awesome.less @@ -1,38 +1,17 @@ /*! - * Font Awesome 4.0.1 - * the iconic font designed for Bootstrap - * ------------------------------------------------------------------------------ - * The full suite of pictographic icons, examples, and documentation can be - * found at http://fontawesome.io. Stay up to date on Twitter at - * http://twitter.com/fontawesome. - * - * License - * ------------------------------------------------------------------------------ - * - The Font Awesome font is licensed under SIL OFL 1.1 - - * http://scripts.sil.org/OFL - * - Font Awesome CSS, LESS, and SASS files are licensed under MIT License - - * http://opensource.org/licenses/mit-license.html - * - Font Awesome documentation licensed under CC BY 3.0 - - * http://creativecommons.org/licenses/by/3.0/ - * - Attribution is no longer required in Font Awesome 3.0, but much appreciated: - * "Font Awesome by Dave Gandy - http://fontawesome.io" - * - * Author - Dave Gandy - * ------------------------------------------------------------------------------ - * Email: dave(a)fontawesome.io - * Twitter: http://twitter.com/davegandy - * Work: Lead Product Designer @ Kyruus - http://kyruus.com + * Font Awesome 4.2.0 by @davegandy - http://fontawesome.io - @fontawesome + * License - http://fontawesome.io/license (Font: SIL OFL 1.1, CSS: MIT License) */ -@import "variables"; -@import "mixins"; -@import "path"; -@import "core"; -@import "larger"; -@import "fixed-width"; -@import "list"; -@import "bordered-pulled"; -@import "spinning"; -@import "rotated-flipped"; -@import "stacked"; -@import "icons"; +@import "variables.less"; +@import "mixins.less"; +@import "path.less"; +@import "core.less"; +@import "larger.less"; +@import "fixed-width.less"; +@import "list.less"; +@import "bordered-pulled.less"; +@import "spinning.less"; +@import "rotated-flipped.less"; +@import "stacked.less"; +@import "icons.less"; diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/style/src/less/fontawesome/icons.less --- a/static/style/src/less/fontawesome/icons.less +++ b/static/style/src/less/fontawesome/icons.less @@ -14,6 +14,8 @@ .@{fa-css-prefix}-th:before { content: @fa-var-th; } .@{fa-css-prefix}-th-list:before { content: @fa-var-th-list; } .@{fa-css-prefix}-check:before { content: @fa-var-check; } +.@{fa-css-prefix}-remove:before, +.@{fa-css-prefix}-close:before, .@{fa-css-prefix}-times:before { content: @fa-var-times; } .@{fa-css-prefix}-search-plus:before { content: @fa-var-search-plus; } .@{fa-css-prefix}-search-minus:before { content: @fa-var-search-minus; } @@ -63,6 +65,8 @@ .@{fa-css-prefix}-outdent:before { content: @fa-var-outdent; } .@{fa-css-prefix}-indent:before { content: @fa-var-indent; } .@{fa-css-prefix}-video-camera:before { content: @fa-var-video-camera; } +.@{fa-css-prefix}-photo:before, +.@{fa-css-prefix}-image:before, .@{fa-css-prefix}-picture-o:before { content: @fa-var-picture-o; } .@{fa-css-prefix}-pencil:before { content: @fa-var-pencil; } .@{fa-css-prefix}-map-marker:before { content: @fa-var-map-marker; } @@ -72,7 +76,7 @@ .@{fa-css-prefix}-pencil-square-o:before { content: @fa-var-pencil-square-o; } .@{fa-css-prefix}-share-square-o:before { content: @fa-var-share-square-o; } .@{fa-css-prefix}-check-square-o:before { content: @fa-var-check-square-o; } -.@{fa-css-prefix}-move:before { content: @fa-var-move; } +.@{fa-css-prefix}-arrows:before { content: @fa-var-arrows; } .@{fa-css-prefix}-step-backward:before { content: @fa-var-step-backward; } .@{fa-css-prefix}-fast-backward:before { content: @fa-var-fast-backward; } .@{fa-css-prefix}-backward:before { content: @fa-var-backward; } @@ -101,8 +105,8 @@ .@{fa-css-prefix}-arrow-down:before { content: @fa-var-arrow-down; } .@{fa-css-prefix}-mail-forward:before, .@{fa-css-prefix}-share:before { content: @fa-var-share; } -.@{fa-css-prefix}-resize-full:before { content: @fa-var-resize-full; } -.@{fa-css-prefix}-resize-small:before { content: @fa-var-resize-small; } +.@{fa-css-prefix}-expand:before { content: @fa-var-expand; } +.@{fa-css-prefix}-compress:before { content: @fa-var-compress; } .@{fa-css-prefix}-plus:before { content: @fa-var-plus; } .@{fa-css-prefix}-minus:before { content: @fa-var-minus; } .@{fa-css-prefix}-asterisk:before { content: @fa-var-asterisk; } @@ -125,9 +129,10 @@ .@{fa-css-prefix}-shopping-cart:before { content: @fa-var-shopping-cart; } .@{fa-css-prefix}-folder:before { content: @fa-var-folder; } .@{fa-css-prefix}-folder-open:before { content: @fa-var-folder-open; } -.@{fa-css-prefix}-resize-vertical:before { content: @fa-var-resize-vertical; } -.@{fa-css-prefix}-resize-horizontal:before { content: @fa-var-resize-horizontal; } -.@{fa-css-prefix}-bar-chart-o:before { content: @fa-var-bar-chart-o; } +.@{fa-css-prefix}-arrows-v:before { content: @fa-var-arrows-v; } +.@{fa-css-prefix}-arrows-h:before { content: @fa-var-arrows-h; } +.@{fa-css-prefix}-bar-chart-o:before, +.@{fa-css-prefix}-bar-chart:before { content: @fa-var-bar-chart; } .@{fa-css-prefix}-twitter-square:before { content: @fa-var-twitter-square; } .@{fa-css-prefix}-facebook-square:before { content: @fa-var-facebook-square; } .@{fa-css-prefix}-camera-retro:before { content: @fa-var-camera-retro; } @@ -175,8 +180,9 @@ .@{fa-css-prefix}-tasks:before { content: @fa-var-tasks; } .@{fa-css-prefix}-filter:before { content: @fa-var-filter; } .@{fa-css-prefix}-briefcase:before { content: @fa-var-briefcase; } -.@{fa-css-prefix}-fullscreen:before { content: @fa-var-fullscreen; } -.@{fa-css-prefix}-group:before { content: @fa-var-group; } +.@{fa-css-prefix}-arrows-alt:before { content: @fa-var-arrows-alt; } +.@{fa-css-prefix}-group:before, +.@{fa-css-prefix}-users:before { content: @fa-var-users; } .@{fa-css-prefix}-chain:before, .@{fa-css-prefix}-link:before { content: @fa-var-link; } .@{fa-css-prefix}-cloud:before { content: @fa-var-cloud; } @@ -189,7 +195,9 @@ .@{fa-css-prefix}-save:before, .@{fa-css-prefix}-floppy-o:before { content: @fa-var-floppy-o; } .@{fa-css-prefix}-square:before { content: @fa-var-square; } -.@{fa-css-prefix}-reorder:before { content: @fa-var-reorder; } +.@{fa-css-prefix}-navicon:before, +.@{fa-css-prefix}-reorder:before, +.@{fa-css-prefix}-bars:before { content: @fa-var-bars; } .@{fa-css-prefix}-list-ul:before { content: @fa-var-list-ul; } .@{fa-css-prefix}-list-ol:before { content: @fa-var-list-ol; } .@{fa-css-prefix}-strikethrough:before { content: @fa-var-strikethrough; } @@ -210,9 +218,9 @@ .@{fa-css-prefix}-unsorted:before, .@{fa-css-prefix}-sort:before { content: @fa-var-sort; } .@{fa-css-prefix}-sort-down:before, +.@{fa-css-prefix}-sort-desc:before { content: @fa-var-sort-desc; } +.@{fa-css-prefix}-sort-up:before, .@{fa-css-prefix}-sort-asc:before { content: @fa-var-sort-asc; } -.@{fa-css-prefix}-sort-up:before, -.@{fa-css-prefix}-sort-desc:before { content: @fa-var-sort-desc; } .@{fa-css-prefix}-envelope:before { content: @fa-var-envelope; } .@{fa-css-prefix}-linkedin:before { content: @fa-var-linkedin; } .@{fa-css-prefix}-rotate-left:before, @@ -240,8 +248,8 @@ .@{fa-css-prefix}-coffee:before { content: @fa-var-coffee; } .@{fa-css-prefix}-cutlery:before { content: @fa-var-cutlery; } .@{fa-css-prefix}-file-text-o:before { content: @fa-var-file-text-o; } -.@{fa-css-prefix}-building:before { content: @fa-var-building; } -.@{fa-css-prefix}-hospital:before { content: @fa-var-hospital; } +.@{fa-css-prefix}-building-o:before { content: @fa-var-building-o; } +.@{fa-css-prefix}-hospital-o:before { content: @fa-var-hospital-o; } .@{fa-css-prefix}-ambulance:before { content: @fa-var-ambulance; } .@{fa-css-prefix}-medkit:before { content: @fa-var-medkit; } .@{fa-css-prefix}-fighter-jet:before { content: @fa-var-fighter-jet; } @@ -271,8 +279,6 @@ .@{fa-css-prefix}-github-alt:before { content: @fa-var-github-alt; } .@{fa-css-prefix}-folder-o:before { content: @fa-var-folder-o; } .@{fa-css-prefix}-folder-open-o:before { content: @fa-var-folder-open-o; } -.@{fa-css-prefix}-expand-o:before { content: @fa-var-expand-o; } -.@{fa-css-prefix}-collapse-o:before { content: @fa-var-collapse-o; } .@{fa-css-prefix}-smile-o:before { content: @fa-var-smile-o; } .@{fa-css-prefix}-frown-o:before { content: @fa-var-frown-o; } .@{fa-css-prefix}-meh-o:before { content: @fa-var-meh-o; } @@ -282,8 +288,8 @@ .@{fa-css-prefix}-flag-checkered:before { content: @fa-var-flag-checkered; } .@{fa-css-prefix}-terminal:before { content: @fa-var-terminal; } .@{fa-css-prefix}-code:before { content: @fa-var-code; } +.@{fa-css-prefix}-mail-reply-all:before, .@{fa-css-prefix}-reply-all:before { content: @fa-var-reply-all; } -.@{fa-css-prefix}-mail-reply-all:before { content: @fa-var-mail-reply-all; } .@{fa-css-prefix}-star-half-empty:before, .@{fa-css-prefix}-star-half-full:before, .@{fa-css-prefix}-star-half-o:before { content: @fa-var-star-half-o; } @@ -313,10 +319,10 @@ .@{fa-css-prefix}-html5:before { content: @fa-var-html5; } .@{fa-css-prefix}-css3:before { content: @fa-var-css3; } .@{fa-css-prefix}-anchor:before { content: @fa-var-anchor; } -.@{fa-css-prefix}-unlock-o:before { content: @fa-var-unlock-o; } +.@{fa-css-prefix}-unlock-alt:before { content: @fa-var-unlock-alt; } .@{fa-css-prefix}-bullseye:before { content: @fa-var-bullseye; } -.@{fa-css-prefix}-ellipsis-horizontal:before { content: @fa-var-ellipsis-horizontal; } -.@{fa-css-prefix}-ellipsis-vertical:before { content: @fa-var-ellipsis-vertical; } +.@{fa-css-prefix}-ellipsis-h:before { content: @fa-var-ellipsis-h; } +.@{fa-css-prefix}-ellipsis-v:before { content: @fa-var-ellipsis-v; } .@{fa-css-prefix}-rss-square:before { content: @fa-var-rss-square; } .@{fa-css-prefix}-play-circle:before { content: @fa-var-play-circle; } .@{fa-css-prefix}-ticket:before { content: @fa-var-ticket; } @@ -410,3 +416,137 @@ .@{fa-css-prefix}-vimeo-square:before { content: @fa-var-vimeo-square; } .@{fa-css-prefix}-turkish-lira:before, .@{fa-css-prefix}-try:before { content: @fa-var-try; } +.@{fa-css-prefix}-plus-square-o:before { content: @fa-var-plus-square-o; } +.@{fa-css-prefix}-space-shuttle:before { content: @fa-var-space-shuttle; } +.@{fa-css-prefix}-slack:before { content: @fa-var-slack; } +.@{fa-css-prefix}-envelope-square:before { content: @fa-var-envelope-square; } +.@{fa-css-prefix}-wordpress:before { content: @fa-var-wordpress; } +.@{fa-css-prefix}-openid:before { content: @fa-var-openid; } +.@{fa-css-prefix}-institution:before, +.@{fa-css-prefix}-bank:before, +.@{fa-css-prefix}-university:before { content: @fa-var-university; } +.@{fa-css-prefix}-mortar-board:before, +.@{fa-css-prefix}-graduation-cap:before { content: @fa-var-graduation-cap; } +.@{fa-css-prefix}-yahoo:before { content: @fa-var-yahoo; } +.@{fa-css-prefix}-google:before { content: @fa-var-google; } +.@{fa-css-prefix}-reddit:before { content: @fa-var-reddit; } +.@{fa-css-prefix}-reddit-square:before { content: @fa-var-reddit-square; } +.@{fa-css-prefix}-stumbleupon-circle:before { content: @fa-var-stumbleupon-circle; } +.@{fa-css-prefix}-stumbleupon:before { content: @fa-var-stumbleupon; } +.@{fa-css-prefix}-delicious:before { content: @fa-var-delicious; } +.@{fa-css-prefix}-digg:before { content: @fa-var-digg; } +.@{fa-css-prefix}-pied-piper:before { content: @fa-var-pied-piper; } +.@{fa-css-prefix}-pied-piper-alt:before { content: @fa-var-pied-piper-alt; } +.@{fa-css-prefix}-drupal:before { content: @fa-var-drupal; } +.@{fa-css-prefix}-joomla:before { content: @fa-var-joomla; } +.@{fa-css-prefix}-language:before { content: @fa-var-language; } +.@{fa-css-prefix}-fax:before { content: @fa-var-fax; } +.@{fa-css-prefix}-building:before { content: @fa-var-building; } +.@{fa-css-prefix}-child:before { content: @fa-var-child; } +.@{fa-css-prefix}-paw:before { content: @fa-var-paw; } +.@{fa-css-prefix}-spoon:before { content: @fa-var-spoon; } +.@{fa-css-prefix}-cube:before { content: @fa-var-cube; } +.@{fa-css-prefix}-cubes:before { content: @fa-var-cubes; } +.@{fa-css-prefix}-behance:before { content: @fa-var-behance; } +.@{fa-css-prefix}-behance-square:before { content: @fa-var-behance-square; } +.@{fa-css-prefix}-steam:before { content: @fa-var-steam; } +.@{fa-css-prefix}-steam-square:before { content: @fa-var-steam-square; } +.@{fa-css-prefix}-recycle:before { content: @fa-var-recycle; } +.@{fa-css-prefix}-automobile:before, +.@{fa-css-prefix}-car:before { content: @fa-var-car; } +.@{fa-css-prefix}-cab:before, +.@{fa-css-prefix}-taxi:before { content: @fa-var-taxi; } +.@{fa-css-prefix}-tree:before { content: @fa-var-tree; } +.@{fa-css-prefix}-spotify:before { content: @fa-var-spotify; } +.@{fa-css-prefix}-deviantart:before { content: @fa-var-deviantart; } +.@{fa-css-prefix}-soundcloud:before { content: @fa-var-soundcloud; } +.@{fa-css-prefix}-database:before { content: @fa-var-database; } +.@{fa-css-prefix}-file-pdf-o:before { content: @fa-var-file-pdf-o; } +.@{fa-css-prefix}-file-word-o:before { content: @fa-var-file-word-o; } +.@{fa-css-prefix}-file-excel-o:before { content: @fa-var-file-excel-o; } +.@{fa-css-prefix}-file-powerpoint-o:before { content: @fa-var-file-powerpoint-o; } +.@{fa-css-prefix}-file-photo-o:before, +.@{fa-css-prefix}-file-picture-o:before, +.@{fa-css-prefix}-file-image-o:before { content: @fa-var-file-image-o; } +.@{fa-css-prefix}-file-zip-o:before, +.@{fa-css-prefix}-file-archive-o:before { content: @fa-var-file-archive-o; } +.@{fa-css-prefix}-file-sound-o:before, +.@{fa-css-prefix}-file-audio-o:before { content: @fa-var-file-audio-o; } +.@{fa-css-prefix}-file-movie-o:before, +.@{fa-css-prefix}-file-video-o:before { content: @fa-var-file-video-o; } +.@{fa-css-prefix}-file-code-o:before { content: @fa-var-file-code-o; } +.@{fa-css-prefix}-vine:before { content: @fa-var-vine; } +.@{fa-css-prefix}-codepen:before { content: @fa-var-codepen; } +.@{fa-css-prefix}-jsfiddle:before { content: @fa-var-jsfiddle; } +.@{fa-css-prefix}-life-bouy:before, +.@{fa-css-prefix}-life-buoy:before, +.@{fa-css-prefix}-life-saver:before, +.@{fa-css-prefix}-support:before, +.@{fa-css-prefix}-life-ring:before { content: @fa-var-life-ring; } +.@{fa-css-prefix}-circle-o-notch:before { content: @fa-var-circle-o-notch; } +.@{fa-css-prefix}-ra:before, +.@{fa-css-prefix}-rebel:before { content: @fa-var-rebel; } +.@{fa-css-prefix}-ge:before, +.@{fa-css-prefix}-empire:before { content: @fa-var-empire; } +.@{fa-css-prefix}-git-square:before { content: @fa-var-git-square; } +.@{fa-css-prefix}-git:before { content: @fa-var-git; } +.@{fa-css-prefix}-hacker-news:before { content: @fa-var-hacker-news; } +.@{fa-css-prefix}-tencent-weibo:before { content: @fa-var-tencent-weibo; } +.@{fa-css-prefix}-qq:before { content: @fa-var-qq; } +.@{fa-css-prefix}-wechat:before, +.@{fa-css-prefix}-weixin:before { content: @fa-var-weixin; } +.@{fa-css-prefix}-send:before, +.@{fa-css-prefix}-paper-plane:before { content: @fa-var-paper-plane; } +.@{fa-css-prefix}-send-o:before, +.@{fa-css-prefix}-paper-plane-o:before { content: @fa-var-paper-plane-o; } +.@{fa-css-prefix}-history:before { content: @fa-var-history; } +.@{fa-css-prefix}-circle-thin:before { content: @fa-var-circle-thin; } +.@{fa-css-prefix}-header:before { content: @fa-var-header; } +.@{fa-css-prefix}-paragraph:before { content: @fa-var-paragraph; } +.@{fa-css-prefix}-sliders:before { content: @fa-var-sliders; } +.@{fa-css-prefix}-share-alt:before { content: @fa-var-share-alt; } +.@{fa-css-prefix}-share-alt-square:before { content: @fa-var-share-alt-square; } +.@{fa-css-prefix}-bomb:before { content: @fa-var-bomb; } +.@{fa-css-prefix}-soccer-ball-o:before, +.@{fa-css-prefix}-futbol-o:before { content: @fa-var-futbol-o; } +.@{fa-css-prefix}-tty:before { content: @fa-var-tty; } +.@{fa-css-prefix}-binoculars:before { content: @fa-var-binoculars; } +.@{fa-css-prefix}-plug:before { content: @fa-var-plug; } +.@{fa-css-prefix}-slideshare:before { content: @fa-var-slideshare; } +.@{fa-css-prefix}-twitch:before { content: @fa-var-twitch; } +.@{fa-css-prefix}-yelp:before { content: @fa-var-yelp; } +.@{fa-css-prefix}-newspaper-o:before { content: @fa-var-newspaper-o; } +.@{fa-css-prefix}-wifi:before { content: @fa-var-wifi; } +.@{fa-css-prefix}-calculator:before { content: @fa-var-calculator; } +.@{fa-css-prefix}-paypal:before { content: @fa-var-paypal; } +.@{fa-css-prefix}-google-wallet:before { content: @fa-var-google-wallet; } +.@{fa-css-prefix}-cc-visa:before { content: @fa-var-cc-visa; } +.@{fa-css-prefix}-cc-mastercard:before { content: @fa-var-cc-mastercard; } +.@{fa-css-prefix}-cc-discover:before { content: @fa-var-cc-discover; } +.@{fa-css-prefix}-cc-amex:before { content: @fa-var-cc-amex; } +.@{fa-css-prefix}-cc-paypal:before { content: @fa-var-cc-paypal; } +.@{fa-css-prefix}-cc-stripe:before { content: @fa-var-cc-stripe; } +.@{fa-css-prefix}-bell-slash:before { content: @fa-var-bell-slash; } +.@{fa-css-prefix}-bell-slash-o:before { content: @fa-var-bell-slash-o; } +.@{fa-css-prefix}-trash:before { content: @fa-var-trash; } +.@{fa-css-prefix}-copyright:before { content: @fa-var-copyright; } +.@{fa-css-prefix}-at:before { content: @fa-var-at; } +.@{fa-css-prefix}-eyedropper:before { content: @fa-var-eyedropper; } +.@{fa-css-prefix}-paint-brush:before { content: @fa-var-paint-brush; } +.@{fa-css-prefix}-birthday-cake:before { content: @fa-var-birthday-cake; } +.@{fa-css-prefix}-area-chart:before { content: @fa-var-area-chart; } +.@{fa-css-prefix}-pie-chart:before { content: @fa-var-pie-chart; } +.@{fa-css-prefix}-line-chart:before { content: @fa-var-line-chart; } +.@{fa-css-prefix}-lastfm:before { content: @fa-var-lastfm; } +.@{fa-css-prefix}-lastfm-square:before { content: @fa-var-lastfm-square; } +.@{fa-css-prefix}-toggle-off:before { content: @fa-var-toggle-off; } +.@{fa-css-prefix}-toggle-on:before { content: @fa-var-toggle-on; } +.@{fa-css-prefix}-bicycle:before { content: @fa-var-bicycle; } +.@{fa-css-prefix}-bus:before { content: @fa-var-bus; } +.@{fa-css-prefix}-ioxhost:before { content: @fa-var-ioxhost; } +.@{fa-css-prefix}-angellist:before { content: @fa-var-angellist; } +.@{fa-css-prefix}-cc:before { content: @fa-var-cc; } +.@{fa-css-prefix}-shekel:before, +.@{fa-css-prefix}-sheqel:before, +.@{fa-css-prefix}-ils:before { content: @fa-var-ils; } +.@{fa-css-prefix}-meanpath:before { content: @fa-var-meanpath; } diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/style/src/less/fontawesome/list.less --- a/static/style/src/less/fontawesome/list.less +++ b/static/style/src/less/fontawesome/list.less @@ -14,6 +14,6 @@ top: (2em / 14); text-align: center; &.@{fa-css-prefix}-lg { - left: -@fa-li-width + (4em / 14); + left: (-@fa-li-width + (4em / 14)); } } diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/style/src/less/fontawesome/mixins.less --- a/static/style/src/less/fontawesome/mixins.less +++ b/static/style/src/less/fontawesome/mixins.less @@ -1,20 +1,25 @@ // Mixins // -------------------------- +.fa-icon() { + display: inline-block; + font: normal normal normal 14px/1 FontAwesome; // shortening font declaration + font-size: inherit; // can't have font-size inherit on line above, so need to override + text-rendering: auto; // optimizelegibility throws things off #1094 + -webkit-font-smoothing: antialiased; + -moz-osx-font-smoothing: grayscale; +} + .fa-icon-rotate(@degrees, @rotation) { filter: progid:DXImageTransform.Microsoft.BasicImage(rotation=@rotation); -webkit-transform: rotate(@degrees); - -moz-transform: rotate(@degrees); -ms-transform: rotate(@degrees); - -o-transform: rotate(@degrees); transform: rotate(@degrees); } .fa-icon-flip(@horiz, @vert, @rotation) { filter: progid:DXImageTransform.Microsoft.BasicImage(rotation=@rotation, mirror=1); -webkit-transform: scale(@horiz, @vert); - -moz-transform: scale(@horiz, @vert); -ms-transform: scale(@horiz, @vert); - -o-transform: scale(@horiz, @vert); transform: scale(@horiz, @vert); } diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/style/src/less/fontawesome/rotated-flipped.less --- a/static/style/src/less/fontawesome/rotated-flipped.less +++ b/static/style/src/less/fontawesome/rotated-flipped.less @@ -7,3 +7,14 @@ .@{fa-css-prefix}-flip-horizontal { .fa-icon-flip(-1, 1, 0); } .@{fa-css-prefix}-flip-vertical { .fa-icon-flip(1, -1, 2); } + +// Hook for IE8-9 +// ------------------------- + +:root .@{fa-css-prefix}-rotate-90, +:root .@{fa-css-prefix}-rotate-180, +:root .@{fa-css-prefix}-rotate-270, +:root .@{fa-css-prefix}-flip-horizontal, +:root .@{fa-css-prefix}-flip-vertical { + filter: none; +} diff -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae -r 5bdce43378bddc43988616a16b3fdb055c315d52 static/style/src/less/fontawesome/spinning.less --- a/static/style/src/less/fontawesome/spinning.less +++ b/static/style/src/less/fontawesome/spinning.less @@ -2,29 +2,28 @@ // -------------------------- .@{fa-css-prefix}-spin { - -webkit-animation: spin 2s infinite linear; - -moz-animation: spin 2s infinite linear; - -o-animation: spin 2s infinite linear; - animation: spin 2s infinite linear; + -webkit-animation: fa-spin 2s infinite linear; + animation: fa-spin 2s infinite linear; } -@-moz-keyframes spin { - 0% { -moz-transform: rotate(0deg); } - 100% { -moz-transform: rotate(359deg); } +@-webkit-keyframes fa-spin { + 0% { + -webkit-transform: rotate(0deg); + transform: rotate(0deg); + } + 100% { + -webkit-transform: rotate(359deg); + transform: rotate(359deg); + } } -@-webkit-keyframes spin { - 0% { -webkit-transform: rotate(0deg); } - 100% { -webkit-transform: rotate(359deg); } + +@keyframes fa-spin { + 0% { + -webkit-transform: rotate(0deg); + transform: rotate(0deg); + } + 100% { + -webkit-transform: rotate(359deg); + transform: rotate(359deg); + } } -@-o-keyframes spin { - 0% { -o-transform: rotate(0deg); } - 100% { -o-transform: rotate(359deg); } -} -@-ms-keyframes spin { - 0% { -ms-transform: rotate(0deg); } - 100% { -ms-transform: rotate(359deg); } -} -@keyframes spin { - 0% { transform: rotate(0deg); } - 100% { transform: rotate(359deg); } -} This diff is so big that we needed to truncate the remainder. Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: natefoo: Update tag latest_2014.10.06 for changeset 3e7adbbe91a0
by commits-noreply＠bitbucket.org 09 Dec '14

09 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/2db0fb9594d6/ Changeset: 2db0fb9594d6 Branch: stable User: natefoo Date: 2014-12-09 19:00:15+00:00 Summary: Update tag latest_2014.10.06 for changeset 3e7adbbe91a0 Affected #: 1 file diff -r 3e7adbbe91a06d30a96e7a7101707e040376aba1 -r 2db0fb9594d6c315e4e0a4be70f64373cfc708f6 .hgtags --- a/.hgtags +++ b/.hgtags @@ -20,4 +20,4 @@ ca45b78adb4152fc6e7395514d46eba6b7d0b838 release_2014.08.11 548ab24667d6206780237bd807f7d857a484c461 latest_2014.08.11 2092948937ac30ef82f71463a235c66d34987088 release_2014.10.06 -782cf1a1f6b56f8a9c0b3e5e9ffd29fd93b16ce3 latest_2014.10.06 +3e7adbbe91a06d30a96e7a7101707e040376aba1 latest_2014.10.06 Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: carlfeberhard: Client build: remove references to ui.js in client and templates; mv scripts/jq-plugins/ui to more generic/catch-all scripts/ui/
by commits-noreply＠bitbucket.org 09 Dec '14

09 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/336a1e96bf51/ Changeset: 336a1e96bf51 User: carlfeberhard Date: 2014-12-09 18:52:24+00:00 Summary: Client build: remove references to ui.js in client and templates; mv scripts/jq-plugins/ui to more generic/catch-all scripts/ui/ Affected #: 73 files diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/jq-plugins/ui/fa-icon-button.js --- a/client/galaxy/scripts/jq-plugins/ui/fa-icon-button.js +++ /dev/null @@ -1,48 +0,0 @@ -(function (root, factory) { - if (typeof define === 'function' && define.amd) { - define([], factory); - } else { - root.faIconButton = factory(); - } - -}(this, function () { -//============================================================================ - /** Returns a jQuery object containing a clickable font-awesome button. - * options: - * tooltipConfig : option map for bootstrap tool tip - * classes : array of class names (will always be classed as icon-btn) - * disabled : T/F - add the 'disabled' class? - * title : tooltip/title string - * target : optional href target - * href : optional href - * faIcon : which font awesome icon to use - * onclick : function to call when the button is clicked - */ - var faIconButton = function( options ){ - options = options || {}; - options.tooltipConfig = options.tooltipConfig || { placement: 'bottom' }; - - options.classes = [ 'icon-btn' ].concat( options.classes || [] ); - if( options.disabled ){ - options.classes.push( 'disabled' ); - } - - var html = [ - '<a class="', options.classes.join( ' ' ), '"', - (( options.title )?( ' title="' + options.title + '"' ):( '' )), - (( !options.disabled && options.target )? ( ' target="' + options.target + '"' ):( '' )), - ' href="', (( !options.disabled && options.href )?( options.href ):( 'javascript:void(0);' )), '">', - // could go with something less specific here - like 'html' - '<span class="fa ', options.faIcon, '"></span>', - '</a>' - ].join( '' ); - var $button = $( html ).tooltip( options.tooltipConfig ); - if( _.isFunction( options.onclick ) ){ - $button.click( options.onclick ); - } - return $button; - }; - -//============================================================================ - return faIconButton; -})); diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/jq-plugins/ui/filter-control.js --- a/client/galaxy/scripts/jq-plugins/ui/filter-control.js +++ /dev/null @@ -1,204 +0,0 @@ -// from: https://raw.githubusercontent.com/umdjs/umd/master/jqueryPlugin.js -// Uses AMD or browser globals to create a jQuery plugin. -(function (factory) { - if (typeof define === 'function' && define.amd) { - // AMD. Register as an anonymous module. - define(['jquery'], factory); - } else { - // Browser globals - factory(jQuery); - } - -}(function ($) { - //============================================================================== - /** - * Template function that produces a bootstrap dropdown to replace the - * vanilla HTML select input. Pass in an array of options and an initial selection: - * $( '.my-div' ).append( dropDownSelect( [ 'option1', 'option2' ], 'option2' ); - * - * When the user changes the selected option a 'change.dropdown-select' event will - * fire with both the jq event and the new selection text as arguments. - * - * Get the currently selected choice using: - * var userChoice = $( '.my-div .dropdown-select .dropdown-select-selected' ).text(); - * - */ - function dropDownSelect( options, selected ){ - // replacement for vanilla select element using bootstrap dropdowns instead - selected = selected || (( !_.isEmpty( options ) )?( options[0] ):( '' )); - var $select = $([ - '<div class="dropdown-select btn-group">', - '<button type="button" class="btn btn-default">', - '<span class="dropdown-select-selected">' + selected + '</span>', - '</button>', - '</div>' - ].join( '\n' )); - - // if there's only one option, do not style/create as buttons, dropdown - use simple span - // otherwise, a dropdown displaying the current selection - if( options && options.length > 1 ){ - $select.find( 'button' ) - .addClass( 'dropdown-toggle' ).attr( 'data-toggle', 'dropdown' ) - .append( ' <span class="caret"></span>' ); - $select.append([ - '<ul class="dropdown-menu" role="menu">', - _.map( options, function( option ){ - return [ - '<li><a href="javascript:void(0)">', option, '</a></li>' - ].join( '' ); - }).join( '\n' ), - '</ul>' - ].join( '\n' )); - } - - // trigger 'change.dropdown-select' when a new selection is made using the dropdown - function selectThis( event ){ - var $this = $( this ), - $select = $this.parents( '.dropdown-select' ), - newSelection = $this.text(); - $select.find( '.dropdown-select-selected' ).text( newSelection ); - $select.trigger( 'change.dropdown-select', newSelection ); - } - - $select.find( 'a' ).click( selectThis ); - return $select; - } - - //============================================================================== - /** - * Creates a three part bootstrap button group (key, op, value) meant to - * allow the user control of filters (e.g. { key: 'name', op: 'contains', value: 'my_history' }) - * - * Each field uses a dropDownSelect (from ui.js) to allow selection - * (with the 'value' field appearing as an input when set to do so). - * - * Any change or update in any of the fields will trigger a 'change.filter-control' - * event which will be passed an object containing those fields (as the example above). - * - * Pass in an array of possible filter objects to control what the user can select. - * Each filter object should have: - * key : generally the attribute name on which to filter something - * ops : an array of 1 or more filter operations (e.g. [ 'is', '<', 'contains', '!=' ]) - * values (optional) : an array of possible values for the filter (e.g. [ 'true', 'false' ]) - * @example: - * $( '.my-div' ).filterControl({ - * filters : [ - * { key: 'name', ops: [ 'is exactly', 'contains' ] } - * { key: 'deleted', ops: [ 'is' ], values: [ 'true', 'false' ] } - * ] - * }); - * // after initialization, you can prog. get the current value using: - * $( '.my-div' ).filterControl( 'val' ) - * - */ - function FilterControl( element, options ){ - return this.init( element, options ); - } - /** the data key that this object will be stored under in the DOM element */ - FilterControl.prototype.DATA_KEY = 'filter-control'; - - /** parses options, sets up instance vars, and does initial render */ - FilterControl.prototype.init = function _init( element, options ){ - options = options || { filters: [] }; - this.$element = $( element ).addClass( 'filter-control btn-group' ); - this.options = jQuery.extend( true, {}, this.defaults, options ); - - this.currFilter = this.options.filters[0]; - return this.render(); - }; - - /** render (or re-render) the controls on the element */ - FilterControl.prototype.render = function _render(){ - this.$element.empty() - .append([ this._renderKeySelect(), this._renderOpSelect(), this._renderValueInput() ]); - return this; - }; - - /** render the key dropDownSelect, bind a change event to it, and return it */ - FilterControl.prototype._renderKeySelect = function __renderKeySelect(){ - var filterControl = this; - var keys = this.options.filters.map( function( filter ){ - return filter.key; - }); - this.$keySelect = dropDownSelect( keys, this.currFilter.key ) - .addClass( 'filter-control-key' ) - .on( 'change.dropdown-select', function( event, selection ){ - filterControl.currFilter = _.findWhere( filterControl.options.filters, { key: selection }); - // when the filter/key changes, re-render the control entirely - filterControl.render()._triggerChange(); - }); - return this.$keySelect; - }; - - /** render the op dropDownSelect, bind a change event to it, and return it */ - FilterControl.prototype._renderOpSelect = function __renderOpSelect(){ - var filterControl = this, - ops = this.currFilter.ops; - //TODO: search for currOp in avail. ops: use that for selected if there; otherwise: first op - this.$opSelect = dropDownSelect( ops, ops[0] ) - .addClass( 'filter-control-op' ) - .on( 'change.dropdown-select', function( event, selection ){ - filterControl._triggerChange(); - }); - return this.$opSelect; - }; - - /** render the value control, bind a change event to it, and return it */ - FilterControl.prototype._renderValueInput = function __renderValueInput(){ - var filterControl = this; - // if a values attribute is prov. on the filter - make this a dropdown; otherwise, use an input - if( this.currFilter.values ){ - this.$valueSelect = dropDownSelect( this.currFilter.values, this.currFilter.values[0] ) - .on( 'change.dropdown-select', function( event, selection ){ - filterControl._triggerChange(); - }); - } else { - //TODO: allow setting a value type (mainly for which html5 input to use: range, number, etc.) - this.$valueSelect = $( '<input/>' ).addClass( 'form-control' ) - .on( 'change', function( event, value ){ - filterControl._triggerChange(); - }); - } - this.$valueSelect.addClass( 'filter-control-value' ); - return this.$valueSelect; - }; - - /** return the current state/setting for the filter as a three key object: key, op, value */ - FilterControl.prototype.val = function _val(){ - var key = this.$element.find( '.filter-control-key .dropdown-select-selected' ).text(), - op = this.$element.find( '.filter-control-op .dropdown-select-selected' ).text(), - // handle either a dropdown or plain input - $value = this.$element.find( '.filter-control-value' ), - value = ( $value.hasClass( 'dropdown-select' ) )?( $value.find( '.dropdown-select-selected' ).text() ) - :( $value.val() ); - return { key: key, op: op, value: value }; - }; - - // single point of change for change event - FilterControl.prototype._triggerChange = function __triggerChange(){ - this.$element.trigger( 'change.filter-control', this.val() ); - }; - - // as jq plugin - jQuery.fn.extend({ - filterControl : function $filterControl( options ){ - var nonOptionsArgs = jQuery.makeArray( arguments ).slice( 1 ); - return this.map( function(){ - var $this = $( this ), - data = $this.data( FilterControl.prototype.DATA_KEY ); - - if( jQuery.type( options ) === 'object' ){ - data = new FilterControl( $this, options ); - $this.data( FilterControl.prototype.DATA_KEY, data ); - } - if( data && jQuery.type( options ) === 'string' ){ - var fn = data[ options ]; - if( jQuery.type( fn ) === 'function' ){ - return fn.apply( data, nonOptionsArgs ); - } - } - return this; - }); - } - }); -})); diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/jq-plugins/ui/loading-indicator.js --- a/client/galaxy/scripts/jq-plugins/ui/loading-indicator.js +++ /dev/null @@ -1,98 +0,0 @@ -(function (root, factory) { - if (typeof define === 'function' && define.amd) { - // AMD. Register as an anonymous module. - define([], factory); - } else { - // Browser globals - root.LoadingIndicator = factory(); - } - -//============================================================================ -}(this, function () { - //TODO: too specific to history panel - function LoadingIndicator( $where, options ){ - - var self = this; - // defaults - options = jQuery.extend({ - cover : false - }, options || {} ); - - function render(){ - var html = [ - '<div class="loading-indicator">', - '<div class="loading-indicator-text">', - '<span class="fa fa-spinner fa-spin fa-lg"></span>', - '<span class="loading-indicator-message">loading...</span>', - '</div>', - '</div>' - ].join( '\n' ); - - var $indicator = $( html ).hide().css( options.css || { - position : 'fixed' - }), - $text = $indicator.children( '.loading-indicator-text' ); - - if( options.cover ){ - $indicator.css({ - 'z-index' : 2, - top : $where.css( 'top' ), - bottom : $where.css( 'bottom' ), - left : $where.css( 'left' ), - right : $where.css( 'right' ), - opacity : 0.5, - 'background-color': 'white', - 'text-align': 'center' - }); - $text = $indicator.children( '.loading-indicator-text' ).css({ - 'margin-top' : '20px' - }); - - } else { - $text = $indicator.children( '.loading-indicator-text' ).css({ - margin : '12px 0px 0px 10px', - opacity : '0.85', - color : 'grey' - }); - $text.children( '.loading-indicator-message' ).css({ - margin : '0px 8px 0px 0px', - 'font-style' : 'italic' - }); - } - return $indicator; - } - - self.show = function( msg, speed, callback ){ - msg = msg || 'loading...'; - speed = speed || 'fast'; - // remove previous - $where.parent().find( '.loading-indicator' ).remove(); - // since position is fixed - we insert as sibling - self.$indicator = render().insertBefore( $where ); - self.message( msg ); - self.$indicator.fadeIn( speed, callback ); - return self; - }; - - self.message = function( msg ){ - self.$indicator.find( 'i' ).text( msg ); - }; - - self.hide = function( speed, callback ){ - speed = speed || 'fast'; - if( self.$indicator && self.$indicator.size() ){ - self.$indicator.fadeOut( speed, function(){ - self.$indicator.remove(); - if( callback ){ callback(); } - }); - } else { - if( callback ){ callback(); } - } - return self; - }; - return self; - } - -//============================================================================ - return LoadingIndicator; -})); diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/jq-plugins/ui/mode-button.js --- a/client/galaxy/scripts/jq-plugins/ui/mode-button.js +++ /dev/null @@ -1,191 +0,0 @@ -// from: https://raw.githubusercontent.com/umdjs/umd/master/jqueryPlugin.js -// Uses AMD or browser globals to create a jQuery plugin. -(function (factory) { - if (typeof define === 'function' && define.amd) { - //TODO: So...this turns out to be an all or nothing thing. If I load jQuery in the define below, it will - // (of course) wipe the old jquery *and all the plugins loaded into it*. So the define below *is still - // relying on jquery being loaded globally* in order to preserve plugins. - define([], factory); - } else { - // Browser globals - factory(jQuery); - } - -}(function () { - - /** Multi 'mode' button (or any element really) that changes the html - * contents of itself when clicked. Pass in an ordered list of - * objects with 'html' and (optional) onclick functions. - * - * When clicked in a particular node, the onclick function will - * be called (with the element as this) and the element will - * switch to the next mode, replacing its html content with - * that mode's html. - * - * If there is no next mode, the element will switch back to - * the first mode. - * @example: - * $( '.myElement' ).modeButton({ - * modes : [ - * { - * mode: 'bler', - * html: '<h5>Bler</h5>', - * onclick : function(){ - * $( 'body' ).css( 'background-color', 'red' ); - * } - * }, - * { - * mode: 'bloo', - * html: '<h4>Bloo</h4>', - * onclick : function(){ - * $( 'body' ).css( 'background-color', 'blue' ); - * } - * }, - * { - * mode: 'blah', - * html: '<h3>Blah</h3>', - * onclick : function(){ - * $( 'body' ).css( 'background-color', 'grey' ); - * } - * }, - * ] - * }); - * $( '.myElement' ).modeButton( 'callModeFn', 'bler' ); - */ - /** constructor */ - function ModeButton( element, options ){ - this.currModeIndex = 0; - return this._init( element, options ); - } - - /** html5 data key to store this object inside an element */ - ModeButton.prototype.DATA_KEY = 'mode-button'; - /** default options */ - ModeButton.prototype.defaults = { - switchModesOnClick : true - }; - - // ---- private interface - /** set up options, intial mode, and the click handler */ - ModeButton.prototype._init = function _init( element, options ){ - //console.debug( 'ModeButton._init:', element, options ); - options = options || {}; - this.$element = $( element ); - this.options = $.extend( true, {}, this.defaults, options ); - if( !options.modes ){ - throw new Error( 'ModeButton requires a "modes" array' ); - } - - var modeButton = this; - this.$element.click( function _ModeButtonClick( event ){ - // call the curr mode fn - modeButton.callModeFn(); - // inc the curr mode index - if( modeButton.options.switchModesOnClick ){ modeButton._incModeIndex(); } - // set the element html - $( this ).html( modeButton.options.modes[ modeButton.currModeIndex ].html ); - }); - return this.reset(); - }; - /** increment the mode index to the next in the array, looping back to zero if at the last */ - ModeButton.prototype._incModeIndex = function _incModeIndex(){ - this.currModeIndex += 1; - if( this.currModeIndex >= this.options.modes.length ){ - this.currModeIndex = 0; - } - return this; - }; - /** get the mode index in the modes array for the given key (mode name) */ - ModeButton.prototype._getModeIndex = function _getModeIndex( modeKey ){ - for( var i=0; i<this.options.modes.length; i+=1 ){ - if( this.options.modes[ i ].mode === modeKey ){ return i; } - } - throw new Error( 'mode not found: ' + modeKey ); - }; - /** set the current mode to the one with the given index and set button html */ - ModeButton.prototype._setModeByIndex = function _setModeByIndex( index ){ - var newMode = this.options.modes[ index ]; - if( !newMode ){ - throw new Error( 'mode index not found: ' + index ); - } - this.currModeIndex = index; - if( newMode.html ){ - this.$element.html( newMode.html ); - } - return this; - }; - - // ---- public interface - /** get the current mode object (not just the mode name) */ - ModeButton.prototype.currentMode = function currentMode(){ - return this.options.modes[ this.currModeIndex ]; - }; - /** return the mode key of the current mode */ - ModeButton.prototype.current = function current(){ - // sugar for returning mode name - return this.currentMode().mode; - }; - /** get the mode with the given modeKey or the current mode if modeKey is undefined */ - ModeButton.prototype.getMode = function getMode( modeKey ){ - if( !modeKey ){ return this.currentMode(); } - return this.options.modes[( this._getModeIndex( modeKey ) )]; - }; - /** T/F if the button has the given mode */ - ModeButton.prototype.hasMode = function hasMode( modeKey ){ - try { - return !!this.getMode( modeKey ); - } catch( err ){} - return false; - }; - /** set the current mode to the mode with the given name */ - ModeButton.prototype.setMode = function setMode( modeKey ){ - return this._setModeByIndex( this._getModeIndex( modeKey ) ); - }; - /** reset to the initial mode */ - ModeButton.prototype.reset = function reset(){ - this.currModeIndex = 0; - if( this.options.initialMode ){ - this.currModeIndex = this._getModeIndex( this.options.initialMode ); - } - return this._setModeByIndex( this.currModeIndex ); - }; - /** manually call the click handler of the given mode */ - ModeButton.prototype.callModeFn = function callModeFn( modeKey ){ - var modeFn = this.getMode( modeKey ).onclick; - if( modeFn && $.type( modeFn === 'function' ) ){ - // call with the element as context (std jquery pattern) - return modeFn.call( this.$element.get(0) ); - } - return undefined; - }; - - // as jq plugin - $.fn.modeButton = function $modeButton( options ){ - if( !this.size() ){ return this; } - - //TODO: does map still work with jq multi selection (i.e. $( '.class-for-many-btns' ).modeButton)? - if( $.type( options ) === 'object' ){ - return this.map( function(){ - var $this = $( this ); - $this.data( 'mode-button', new ModeButton( $this, options ) ); - return this; - }); - } - - var $first = $( this[0] ), - button = $first.data( 'mode-button' ); - - if( !button ){ - throw new Error( 'modeButton needs an options object or string name of a function' ); - } - - if( button && $.type( options ) === 'string' ){ - var fnName = options; - if( button && $.type( button[ fnName ] ) === 'function' ){ - return button[ fnName ].apply( button, $.makeArray( arguments ).slice( 1 ) ); - } - } - return button; - }; - -})); diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/jq-plugins/ui/pagination.js --- a/client/galaxy/scripts/jq-plugins/ui/pagination.js +++ /dev/null @@ -1,226 +0,0 @@ -// from: https://raw.githubusercontent.com/umdjs/umd/master/jqueryPlugin.js -// Uses AMD or browser globals to create a jQuery plugin. -(function (factory) { - if (typeof define === 'function' && define.amd) { - // AMD. Register as an anonymous module. - define(['jquery'], factory); - } else { - // Browser globals - factory(jQuery); - } - -}(function ($) { - - /** Builds (twitter bootstrap styled) pagination controls. - * If the totalDataSize is not null, a horizontal list of page buttons is displayed. - * If totalDataSize is null, two links ('Prev' and 'Next) are displayed. - * When pages are changed, a 'pagination.page-change' event is fired - * sending the event and the (0-based) page requested. - */ - function Pagination( element, options ){ - /** the total number of pages */ - this.numPages = null; - /** the current, active page */ - this.currPage = 0; - return this.init( element, options ); - } - - /** data key under which this object will be stored in the element */ - Pagination.prototype.DATA_KEY = 'pagination'; - /** default options */ - Pagination.prototype.defaults = { - /** which page to begin at */ - startingPage : 0, - /** number of data per page */ - perPage : 20, - /** the total number of data (null == unknown) */ - totalDataSize : null, - /** size of current data on current page */ - currDataSize : null - }; - - /** init the control, calc numPages if possible, and render - * @param {jQuery} the element that will contain the pagination control - * @param {Object} options a map containing overrides to the pagination default options - */ - Pagination.prototype.init = function _init( $element, options ){ - options = options || {}; - this.$element = $element; - this.options = jQuery.extend( true, {}, this.defaults, options ); - - this.currPage = this.options.startingPage; - if( this.options.totalDataSize !== null ){ - this.numPages = Math.ceil( this.options.totalDataSize / this.options.perPage ); - // limit currPage by numPages - if( this.currPage >= this.numPages ){ - this.currPage = this.numPages - 1; - } - } - //console.debug( 'Pagination.prototype.init:', this.$element, this.currPage ); - //console.debug( JSON.stringify( this.options ) ); - - // bind to data of element - this.$element.data( Pagination.prototype.DATA_KEY, this ); - - this._render(); - return this; - }; - - /** helper to create a simple li + a combo */ - function _make$Li( contents ){ - return $([ - '<li><a href="javascript:void(0);">', contents, '</a></li>' - ].join( '' )); - } - - /** render previous and next pagination buttons */ - Pagination.prototype._render = function __render(){ - // no data - no pagination - if( this.options.totalDataSize === 0 ){ return this; } - // only one page - if( this.numPages === 1 ){ return this; } - - // when the number of pages are known, render each page as a link - if( this.numPages > 0 ){ - this._renderPages(); - this._scrollToActivePage(); - - // when the number of pages is not known, render previous or next - } else { - this._renderPrevNext(); - } - return this; - }; - - /** render previous and next pagination buttons */ - Pagination.prototype._renderPrevNext = function __renderPrevNext(){ - var pagination = this, - $prev = _make$Li( 'Prev' ), - $next = _make$Li( 'Next' ), - $paginationContainer = $( '<ul/>' ).addClass( 'pagination pagination-prev-next' ); - - // disable if it either end - if( this.currPage === 0 ){ - $prev.addClass( 'disabled' ); - } else { - $prev.click( function(){ pagination.prevPage(); }); - } - if( ( this.numPages && this.currPage === ( this.numPages - 1 ) ) - || ( this.options.currDataSize && this.options.currDataSize < this.options.perPage ) ){ - $next.addClass( 'disabled' ); - } else { - $next.click( function(){ pagination.nextPage(); }); - } - - this.$element.html( $paginationContainer.append([ $prev, $next ]) ); - //console.debug( this.$element, this.$element.html() ); - return this.$element; - }; - - /** render page links for each possible page (if we can) */ - Pagination.prototype._renderPages = function __renderPages(){ - // it's better to scroll the control and let the user see all pages - // than to force her/him to change pages in order to find the one they want (as traditional << >> does) - var pagination = this, - $scrollingContainer = $( '<div>' ).addClass( 'pagination-scroll-container' ), - $paginationContainer = $( '<ul/>' ).addClass( 'pagination pagination-page-list' ), - page$LiClick = function( ev ){ - pagination.goToPage( $( this ).data( 'page' ) ); - }; - - for( var i=0; i<this.numPages; i+=1 ){ - // add html5 data tag 'page' for later click event handler use - var $pageLi = _make$Li( i + 1 ).attr( 'data-page', i ).click( page$LiClick ); - // highlight the current page - if( i === this.currPage ){ - $pageLi.addClass( 'active' ); - } - //console.debug( '\t', $pageLi ); - $paginationContainer.append( $pageLi ); - } - return this.$element.html( $scrollingContainer.html( $paginationContainer ) ); - }; - - /** scroll scroll-container (if any) to show the active page */ - Pagination.prototype._scrollToActivePage = function __scrollToActivePage(){ - // scroll to show active page in center of scrollable area - var $container = this.$element.find( '.pagination-scroll-container' ); - // no scroll container : don't scroll - if( !$container.size() ){ return this; } - - var $activePage = this.$element.find( 'li.active' ), - midpoint = $container.width() / 2; - //console.debug( $container, $activePage, midpoint ); - $container.scrollLeft( $container.scrollLeft() + $activePage.position().left - midpoint ); - return this; - }; - - /** go to a certain page */ - Pagination.prototype.goToPage = function goToPage( page ){ - if( page <= 0 ){ page = 0; } - if( this.numPages && page >= this.numPages ){ page = this.numPages - 1; } - if( page === this.currPage ){ return this; } - - //console.debug( '\t going to page ' + page ) - this.currPage = page; - this.$element.trigger( 'pagination.page-change', this.currPage ); - //console.info( 'pagination:page-change', this.currPage ); - this._render(); - return this; - }; - - /** go to the previous page */ - Pagination.prototype.prevPage = function prevPage(){ - return this.goToPage( this.currPage - 1 ); - }; - - /** go to the next page */ - Pagination.prototype.nextPage = function nextPage(){ - return this.goToPage( this.currPage + 1 ); - }; - - /** return the current page */ - Pagination.prototype.page = function page(){ - return this.currPage; - }; - - // alternate constructor invocation - Pagination.create = function _create( $element, options ){ - return new Pagination( $element, options ); - }; - - // as jq plugin - jQuery.fn.extend({ - pagination : function $pagination( options ){ - var nonOptionsArgs = jQuery.makeArray( arguments ).slice( 1 ); - - // if passed an object - use that as an options map to create pagination for each selected - if( jQuery.type( options ) === 'object' ){ - return this.map( function(){ - Pagination.create( $( this ), options ); - return this; - }); - } - - // (other invocations only work on the first element in selected) - var $firstElement = $( this[0] ), - previousControl = $firstElement.data( Pagination.prototype.DATA_KEY ); - // if a pagination control was found for this element, either... - if( previousControl ){ - // invoke a function on the pagination object if passed a string (the function name) - if( jQuery.type( options ) === 'string' ){ - var fn = previousControl[ options ]; - if( jQuery.type( fn ) === 'function' ){ - return fn.apply( previousControl, nonOptionsArgs ); - } - - // if passed nothing, return the previously set control - } else { - return previousControl; - } - } - // if there is no control already set, return undefined - return undefined; - } - }); -})); diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/jq-plugins/ui/peek-column-selector.js --- a/client/galaxy/scripts/jq-plugins/ui/peek-column-selector.js +++ /dev/null @@ -1,317 +0,0 @@ -// from: https://raw.githubusercontent.com/umdjs/umd/master/jqueryPlugin.js -// Uses AMD or browser globals to create a jQuery plugin. -(function (factory) { - if (typeof define === 'function' && define.amd) { - // AMD. Register as an anonymous module. - define(['jquery'], factory); - } else { - // Browser globals - factory(jQuery); - } - -}(function ($) { - //============================================================================== - /** Column selection using the peek display as the control. - * Adds rows to the bottom of the peek with clickable areas in each cell - * to allow the user to select columns. - * Column selection can be limited to a single column or multiple. - * (Optionally) adds a left hand column of column selection prompts. - * (Optionally) allows the column headers to be clicked/renamed - * and set to some initial value. - * (Optionally) hides comment rows. - * (Optionally) allows pre-selecting and disabling certain columns for - * each row control. - * - * Construct by selecting a peek table to be used with jQuery and - * calling 'peekColumnSelector' with options. - * Options must include a 'controls' array and can include other options - * listed below. - * @example: - * $( 'pre.peek' ).peekColumnSelector({ - * columnNames : ["Chromosome", "Start", "Base", "", "", "Qual" ], - * controls : [ - * { label: 'X Column', id: 'xColumn' }, - * { label: 'Y Column', id: 'yColumn', selected: 2 }, - * { label: 'ID Column', id: 'idColumn', selected: 4, disabled: [ 1, 5 ] }, - * { label: 'Heatmap', id: 'heatmap', selected: [ 2, 4 ], disabled: [ 0, 1 ], multiselect: true, - * selectedText: 'Included', unselectedText: 'Excluded' } - * ], - * renameColumns : true, - * hideCommentRows : true, - * includePrompts : true, - * topLeftContent : 'Data sample:' - * }).on( 'peek-column-selector.change', function( ev, selection ){ - * console.info( 'new selection:', selection ); - * //{ yColumn: 2 } - * }).on( 'peek-column-selector.rename', function( ev, names ){ - * console.info( 'column names', names ); - * //[ 'Bler', 'Start', 'Base', '', '', 'Qual' ] - * }); - * - * An event is fired when column selection is changed and the event - * is passed an object in the form: { the row id : the new selection value }. - * An event is also fired when the table headers are re-named and - * is passed the new array of column names. - */ - - /** option defaults */ - var defaults = { - /** does this control allow renaming headers? */ - renameColumns : false, - /** does this control allow renaming headers? */ - columnNames : [], - /** the comment character used by the peek's datatype */ - commentChar : '#', - /** should comment rows be shown or hidden in the peek */ - hideCommentRows : false, - /** should a column of row control prompts be used */ - includePrompts : true, - /** what is the content of the top left cell (often a title) */ - topLeftContent : 'Columns:' - }, - /** class added to the pre.peek element (to allow css on just the control) */ - PEEKCONTROL_CLASS = 'peek-column-selector', - /** the string of the event fired when a control row changes */ - CHANGE_EVENT = 'peek-column-selector.change', - /** the string of the event fired when a column is renamed */ - RENAME_EVENT = 'peek-column-selector.rename', - /** class added to the control rows */ - ROW_CLASS = 'control', - /** class added to the left-hand cells that serve as row prompts */ - PROMPT_CLASS = 'control-prompt', - /** class added to selected _cells_/tds */ - SELECTED_CLASS = 'selected', - /** class added to disabled/un-clickable cells/tds */ - DISABLED_CLASS = 'disabled', - /** class added to the clickable surface within a cell to select it */ - BUTTON_CLASS = 'button', - /** class added to peek table header (th) cells to indicate they can be clicked and are renamable */ - RENAMABLE_HEADER_CLASS = 'renamable-header', - /** the data key used for each cell to store the column index ('data-...') */ - COLUMN_INDEX_DATA_KEY = 'column-index', - /** renamable header data key used to store the column name (w/o the number and dot: '1.Bler') */ - COLUMN_NAME_DATA_KEY = 'column-name'; - - //TODO: not happy with pure functional here - rows should polymorph (multi, single, etc.) - //TODO: needs clean up, move handlers to outer scope - - // ........................................................................ - /** validate the control data sent in for each row */ - function validateControl( control ){ - if( control.disabled && jQuery.type( control.disabled ) !== 'array' ){ - throw new Error( '"disabled" must be defined as an array of indeces: ' + JSON.stringify( control ) ); - } - if( control.multiselect && control.selected && jQuery.type( control.selected ) !== 'array' ){ - throw new Error( 'Mulitselect rows need an array for "selected": ' + JSON.stringify( control ) ); - } - if( !control.label || !control.id ){ - throw new Error( 'Peek controls need a label and id for each control row: ' + JSON.stringify( control ) ); - } - if( control.disabled && control.disabled.indexOf( control.selected ) !== -1 ){ - throw new Error( 'Selected column is in the list of disabled columns: ' + JSON.stringify( control ) ); - } - return control; - } - - /** build the inner control surface (i.e. button-like) */ - function buildButton( control, columnIndex ){ - return $( '<div/>' ).addClass( BUTTON_CLASS ).text( control.label ); - } - - /** build the basic (shared) cell structure */ - function buildControlCell( control, columnIndex ){ - var $td = $( '<td/>' ) - .html( buildButton( control, columnIndex ) ) - .attr( 'data-' + COLUMN_INDEX_DATA_KEY, columnIndex ); - - // disable if index in disabled array - if( control.disabled && control.disabled.indexOf( columnIndex ) !== -1 ){ - $td.addClass( DISABLED_CLASS ); - } - return $td; - } - - /** set the text of the control based on selected/un */ - function setSelectedText( $cell, control, columnIndex ){ - var $button = $cell.children( '.' + BUTTON_CLASS ); - if( $cell.hasClass( SELECTED_CLASS ) ){ - $button.html( ( control.selectedText !== undefined )?( control.selectedText ):( control.label ) ); - } else { - $button.html( ( control.unselectedText !== undefined )?( control.unselectedText ):( control.label ) ); - } - } - - /** build a cell for a row that only allows one selection */ - function buildSingleSelectCell( control, columnIndex ){ - // only one selection - selected is single index - var $cell = buildControlCell( control, columnIndex ); - if( control.selected === columnIndex ){ - $cell.addClass( SELECTED_CLASS ); - } - setSelectedText( $cell, control, columnIndex ); - - // only add the handler to non-disabled controls - if( !$cell.hasClass( DISABLED_CLASS ) ){ - $cell.click( function selectClick( ev ){ - var $cell = $( this ); - // don't re-select or fire event if already selected - if( !$cell.hasClass( SELECTED_CLASS ) ){ - // only one can be selected - remove selected on all others, add it here - var $otherSelected = $cell.parent().children( '.' + SELECTED_CLASS ).removeClass( SELECTED_CLASS ); - $otherSelected.each( function(){ - setSelectedText( $( this ), control, columnIndex ); - }); - - $cell.addClass( SELECTED_CLASS ); - setSelectedText( $cell, control, columnIndex ); - - // fire the event from the table itself, passing the id and index of selected - var eventData = {}, - key = $cell.parent().attr( 'id' ), - val = $cell.data( COLUMN_INDEX_DATA_KEY ); - eventData[ key ] = val; - $cell.parents( '.peek' ).trigger( CHANGE_EVENT, eventData ); - } - }); - } - return $cell; - } - - /** build a cell for a row that allows multiple selections */ - function buildMultiSelectCell( control, columnIndex ){ - var $cell = buildControlCell( control, columnIndex ); - // multiple selection - selected is an array - if( control.selected && control.selected.indexOf( columnIndex ) !== -1 ){ - $cell.addClass( SELECTED_CLASS ); - } - setSelectedText( $cell, control, columnIndex ); - - // only add the handler to non-disabled controls - if( !$cell.hasClass( DISABLED_CLASS ) ){ - $cell.click( function multiselectClick( ev ){ - var $cell = $( this ); - // can be more than one selected - toggle selected on this cell - $cell.toggleClass( SELECTED_CLASS ); - setSelectedText( $cell, control, columnIndex ); - var selectedColumnIndeces = $cell.parent().find( '.' + SELECTED_CLASS ).map( function( i, e ){ - return $( e ).data( COLUMN_INDEX_DATA_KEY ); - }); - // fire the event from the table itself, passing the id and index of selected - var eventData = {}, - key = $cell.parent().attr( 'id' ), - val = jQuery.makeArray( selectedColumnIndeces ); - eventData[ key ] = val; - $cell.parents( '.peek' ).trigger( CHANGE_EVENT, eventData ); - }); - } - return $cell; - } - - /** iterate over columns in peek and create a control for each */ - function buildControlCells( count, control ){ - var $cells = []; - // build a control for each column - using a build fn based on control - for( var columnIndex=0; columnIndex<count; columnIndex+=1 ){ - $cells.push( control.multiselect? buildMultiSelectCell( control, columnIndex ) - : buildSingleSelectCell( control, columnIndex ) ); - } - return $cells; - } - - /** build a row of controls for the peek */ - function buildControlRow( cellCount, control, includePrompts ){ - var $controlRow = $( '<tr/>' ).attr( 'id', control.id ).addClass( ROW_CLASS ); - if( includePrompts ){ - var $promptCell = $( '<td/>' ).addClass( PROMPT_CLASS ).text( control.label + ':' ); - $controlRow.append( $promptCell ); - } - $controlRow.append( buildControlCells( cellCount, control ) ); - return $controlRow; - } - - // ........................................................................ - /** add to the peek, using options for configuration, return the peek */ - function peekColumnSelector( options ){ - options = jQuery.extend( true, {}, defaults, options ); - - var $peek = $( this ).addClass( PEEKCONTROL_CLASS ), - $peektable = $peek.find( 'table' ), - // get the size of the tables - width and height, number of comment rows - columnCount = $peektable.find( 'th' ).size(), - rowCount = $peektable.find( 'tr' ).size(), - // get the rows containing text starting with the comment char (also make them grey) - $commentRows = $peektable.find( 'td[colspan]' ).map( function( e, i ){ - var $this = $( this ); - if( $this.text() && $this.text().match( new RegExp( '^' + options.commentChar ) ) ){ - return $( this ).css( 'color', 'grey' ).parent().get(0); - } - return null; - }); - - // should comment rows in the peek be hidden? - if( options.hideCommentRows ){ - $commentRows.hide(); - rowCount -= $commentRows.size(); - } - //console.debug( 'rowCount:', rowCount, 'columnCount:', columnCount, '$commentRows:', $commentRows ); - - // should a first column of control prompts be added? - if( options.includePrompts ){ - var $topLeft = $( '<th/>' ).addClass( 'top-left' ).text( options.topLeftContent ) - .attr( 'rowspan', rowCount ); - $peektable.find( 'tr' ).first().prepend( $topLeft ); - } - - // save either the options column name or the parsed text of each column header in html5 data attr and text - var $headers = $peektable.find( 'th:not(.top-left)' ).each( function( i, e ){ - var $this = $( this ), - // can be '1.name' or '1' - text = $this.text().replace( /^\d+\.*/, '' ), - name = options.columnNames[ i ] || text; - $this.attr( 'data-' + COLUMN_NAME_DATA_KEY, name ) - .text( ( i + 1 ) + (( name )?( '.' + name ):( '' )) ); - }); - - // allow renaming of columns when the header is clicked - if( options.renameColumns ){ - $headers.addClass( RENAMABLE_HEADER_CLASS ) - .click( function renameColumn(){ - // prompt for new name - var $this = $( this ), - index = $this.index() + ( options.includePrompts? 0: 1 ), - prevName = $this.data( COLUMN_NAME_DATA_KEY ), - newColumnName = prompt( 'New column name:', prevName ); - if( newColumnName !== null && newColumnName !== prevName ){ - // set the new text and data - $this.text( index + ( newColumnName?( '.' + newColumnName ):'' ) ) - .data( COLUMN_NAME_DATA_KEY, newColumnName ) - .attr( 'data-', COLUMN_NAME_DATA_KEY, newColumnName ); - // fire event for new column names - var columnNames = jQuery.makeArray( - $this.parent().children( 'th:not(.top-left)' ).map( function(){ - return $( this ).data( COLUMN_NAME_DATA_KEY ); - })); - $this.parents( '.peek' ).trigger( RENAME_EVENT, columnNames ); - } - }); - } - - // build a row for each control - options.controls.forEach( function( control, i ){ - validateControl( control ); - var $controlRow = buildControlRow( columnCount, control, options.includePrompts ); - $peektable.find( 'tbody' ).append( $controlRow ); - }); - return this; - } - - // ........................................................................ - // as jq plugin - jQuery.fn.extend({ - peekColumnSelector : function $peekColumnSelector( options ){ - return this.map( function(){ - return peekColumnSelector.call( this, options ); - }); - } - }); -})); diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/jq-plugins/ui/search-input.js --- a/client/galaxy/scripts/jq-plugins/ui/search-input.js +++ /dev/null @@ -1,159 +0,0 @@ -// from: https://raw.githubusercontent.com/umdjs/umd/master/jqueryPlugin.js -// Uses AMD or browser globals to create a jQuery plugin. -(function (factory) { - if (typeof define === 'function' && define.amd) { - //TODO: So...this turns out to be an all or nothing thing. If I load jQuery in the define below, it will - // (of course) wipe the old jquery *and all the plugins loaded into it*. So the define below *is still - // relying on jquery being loaded globally* in order to preserve plugins. - define([], factory); - } else { - // Browser globals - factory(jQuery); - } - -}(function () { - var _l = window._l || function( s ){ return s; }; - - /** searchInput: (jQuery plugin) - * Creates a search input, a clear button, and loading indicator - * within the selected node. - * - * When the user either presses return or enters some minimal number - * of characters, a callback is called. Pressing ESC when the input - * is focused will clear the input and call a separate callback. - */ - function searchInput( parentNode, options ){ -//TODO: consolidate with tool menu functionality, use there - var KEYCODE_ESC = 27, - KEYCODE_RETURN = 13, - $parentNode = $( parentNode ), - firstSearch = true, - defaults = { - initialVal : '', - name : 'search', - placeholder : 'search', - classes : '', - onclear : function(){}, - onfirstsearch : null, - onsearch : function( inputVal ){}, - minSearchLen : 0, - escWillClear : true, - oninit : function(){} - }; - - // .................................................................... input rendering and events - // visually clear the search, trigger an event, and call the callback - function clearSearchInput( event ){ - var $input = $( this ).parent().children( 'input' ); - //console.debug( this, 'clear', $input ); - $input.focus().val( '' ).trigger( 'clear:searchInput' ); - options.onclear(); - } - - // search for searchTerms, trigger an event, call the appropo callback (based on whether this is the first) - function search( event, searchTerms ){ - //console.debug( this, 'searching', searchTerms ); - //TODO: I don't think this is classic jq custom event form? search.searchInput? - $( this ).trigger( 'search:searchInput', searchTerms ); - if( typeof options.onfirstsearch === 'function' && firstSearch ){ - firstSearch = false; - options.onfirstsearch( searchTerms ); - } else { - options.onsearch( searchTerms ); - } - } - - // .................................................................... input rendering and events - function inputTemplate(){ - // class search-query is bootstrap 2.3 style that now lives in base.less - return [ '<input type="text" name="', options.name, '" placeholder="', options.placeholder, '" ', - 'class="search-query ', options.classes, '" ', '/>' ].join( '' ); - } - - // the search input that responds to keyboard events and displays the search value - function $input(){ - return $( inputTemplate() ) - // select all text on a focus - .focus( function( event ){ - $( this ).select(); - }) - // attach behaviors to esc, return if desired, search on some min len string - .keyup( function( event ){ - event.preventDefault(); - event.stopPropagation(); -//TODO: doesn't work - if( !$( this ).val() ){ $( this ).blur(); } - - // esc key will clear if desired - if( event.which === KEYCODE_ESC && options.escWillClear ){ - clearSearchInput.call( this, event ); - - } else { - var searchTerms = $( this ).val(); - // return key or the search string len > minSearchLen (if not 0) triggers search - if( ( event.which === KEYCODE_RETURN ) - || ( options.minSearchLen && searchTerms.length >= options.minSearchLen ) ){ - search.call( this, event, searchTerms ); - } else if( !searchTerms.length ){ - clearSearchInput.call( this, event ); - } - } - }) - .on( 'change', function( event ){ - search.call( this, event, $( this ).val() ); - }) - .val( options.initialVal ); - } - - // .................................................................... clear button rendering and events - // a button for clearing the search bar, placed on the right hand side - function $clearBtn(){ - return $([ '<span class="search-clear fa fa-times-circle" ', - 'title="', _l( 'clear search (esc)' ), '"></span>' ].join('') ) - .tooltip({ placement: 'bottom' }) - .click( function( event ){ - clearSearchInput.call( this, event ); - }); - } - - // .................................................................... loadingIndicator rendering - // a button for clearing the search bar, placed on the right hand side - function $loadingIndicator(){ - return $([ '<span class="search-loading fa fa-spinner fa-spin" ', - 'title="', _l( 'loading...' ), '"></span>' ].join('') ) - .hide().tooltip({ placement: 'bottom' }); - } - - // .................................................................... commands - // visually swap the load, clear buttons - function toggleLoadingIndicator(){ - $parentNode.find( '.search-loading' ).toggle(); - $parentNode.find( '.search-clear' ).toggle(); - } - - // .................................................................... init - // string command (not constructor) - if( jQuery.type( options ) === 'string' ){ - if( options === 'toggle-loading' ){ - toggleLoadingIndicator(); - } - return $parentNode; - } - - // initial render - if( jQuery.type( options ) === 'object' ){ - options = jQuery.extend( true, {}, defaults, options ); - } - //NOTE: prepended - return $parentNode.addClass( 'search-input' ).prepend([ $input(), $clearBtn(), $loadingIndicator() ]); - } - - // as jq plugin - jQuery.fn.extend({ - searchInput : function $searchInput( options ){ - return this.each( function(){ - return searchInput( this, options ); - }); - } - }); -})); diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/mvc/dataset/dataset-li-edit.js --- a/client/galaxy/scripts/mvc/dataset/dataset-li-edit.js +++ b/client/galaxy/scripts/mvc/dataset/dataset-li-edit.js @@ -3,7 +3,7 @@ "mvc/dataset/dataset-li", "mvc/tags", "mvc/annotations", - "jq-plugins/ui/fa-icon-button", + "ui/fa-icon-button", "mvc/base-mvc", "utils/localization" ], function( STATES, DATASET_LI, TAGS, ANNOTATIONS, faIconButton, BASE_MVC, _l ){ diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/mvc/dataset/dataset-li.js --- a/client/galaxy/scripts/mvc/dataset/dataset-li.js +++ b/client/galaxy/scripts/mvc/dataset/dataset-li.js @@ -1,7 +1,7 @@ define([ "mvc/list/list-item", "mvc/dataset/states", - "jq-plugins/ui/fa-icon-button", + "ui/fa-icon-button", "mvc/base-mvc", "utils/localization" ], function( LIST_ITEM, STATES, faIconButton, BASE_MVC, _l ){ diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/mvc/history/hdca-li-edit.js --- a/client/galaxy/scripts/mvc/history/hdca-li-edit.js +++ b/client/galaxy/scripts/mvc/history/hdca-li-edit.js @@ -1,7 +1,7 @@ define([ "mvc/dataset/states", "mvc/history/hdca-li", - "jq-plugins/ui/fa-icon-button", + "ui/fa-icon-button", "utils/localization" ], function( STATES, HDCA_LI, faIconButton, _l ){ //============================================================================== diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/mvc/history/history-panel-edit.js --- a/client/galaxy/scripts/mvc/history/history-panel-edit.js +++ b/client/galaxy/scripts/mvc/history/history-panel-edit.js @@ -7,7 +7,7 @@ "mvc/history/hdca-li-edit", "mvc/tags", "mvc/annotations", - "jq-plugins/ui/fa-icon-button", + "ui/fa-icon-button", "mvc/ui/popup-menu", "utils/localization" ], function( diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/mvc/history/history-panel.js --- a/client/galaxy/scripts/mvc/history/history-panel.js +++ b/client/galaxy/scripts/mvc/history/history-panel.js @@ -6,10 +6,10 @@ "mvc/history/hdca-li", "mvc/collection/collection-panel", "mvc/user/user-model", - "jq-plugins/ui/fa-icon-button", + "ui/fa-icon-button", "mvc/base-mvc", "utils/localization", - "jq-plugins/ui/search-input" + "ui/search-input" ], function( LIST_PANEL, HISTORY_MODEL, diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/mvc/history/multi-panel.js --- a/client/galaxy/scripts/mvc/history/multi-panel.js +++ b/client/galaxy/scripts/mvc/history/multi-panel.js @@ -3,8 +3,8 @@ "mvc/history/history-panel-edit", "mvc/base-mvc", "utils/ajax-queue", - "jq-plugins/ui/mode-button", - "jq-plugins/ui/search-input" + "ui/mode-button", + "ui/search-input" ], function( HISTORY_MODEL, HPANEL_EDIT, baseMVC, ajaxQueue ){ window.HISTORY_MODEL = HISTORY_MODEL; //============================================================================== diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/mvc/list/list-panel.js --- a/client/galaxy/scripts/mvc/list/list-panel.js +++ b/client/galaxy/scripts/mvc/list/list-panel.js @@ -1,9 +1,9 @@ define([ "mvc/list/list-item", - "jq-plugins/ui/loading-indicator", + "ui/loading-indicator", "mvc/base-mvc", "utils/localization", - "jq-plugins/ui/search-input" + "ui/search-input" ], function( LIST_ITEM, LoadingIndicator, BASE_MVC, _l ){ /* ============================================================================ TODO: diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/mvc/upload/upload-view.js --- a/client/galaxy/scripts/mvc/upload/upload-view.js +++ b/client/galaxy/scripts/mvc/upload/upload-view.js @@ -6,7 +6,6 @@ "mvc/upload/upload-ftp", "mvc/ui/ui-popover", "mvc/ui/ui-modal", - "mvc/ui", "utils/uploadbox"], function( Utils, diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/ui/fa-icon-button.js --- /dev/null +++ b/client/galaxy/scripts/ui/fa-icon-button.js @@ -0,0 +1,48 @@ +(function (root, factory) { + if (typeof define === 'function' && define.amd) { + define([], factory); + } else { + root.faIconButton = factory(); + } + +}(this, function () { +//============================================================================ + /** Returns a jQuery object containing a clickable font-awesome button. + * options: + * tooltipConfig : option map for bootstrap tool tip + * classes : array of class names (will always be classed as icon-btn) + * disabled : T/F - add the 'disabled' class? + * title : tooltip/title string + * target : optional href target + * href : optional href + * faIcon : which font awesome icon to use + * onclick : function to call when the button is clicked + */ + var faIconButton = function( options ){ + options = options || {}; + options.tooltipConfig = options.tooltipConfig || { placement: 'bottom' }; + + options.classes = [ 'icon-btn' ].concat( options.classes || [] ); + if( options.disabled ){ + options.classes.push( 'disabled' ); + } + + var html = [ + '<a class="', options.classes.join( ' ' ), '"', + (( options.title )?( ' title="' + options.title + '"' ):( '' )), + (( !options.disabled && options.target )? ( ' target="' + options.target + '"' ):( '' )), + ' href="', (( !options.disabled && options.href )?( options.href ):( 'javascript:void(0);' )), '">', + // could go with something less specific here - like 'html' + '<span class="fa ', options.faIcon, '"></span>', + '</a>' + ].join( '' ); + var $button = $( html ).tooltip( options.tooltipConfig ); + if( _.isFunction( options.onclick ) ){ + $button.click( options.onclick ); + } + return $button; + }; + +//============================================================================ + return faIconButton; +})); diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/ui/filter-control.js --- /dev/null +++ b/client/galaxy/scripts/ui/filter-control.js @@ -0,0 +1,204 @@ +// from: https://raw.githubusercontent.com/umdjs/umd/master/jqueryPlugin.js +// Uses AMD or browser globals to create a jQuery plugin. +(function (factory) { + if (typeof define === 'function' && define.amd) { + // AMD. Register as an anonymous module. + define(['jquery'], factory); + } else { + // Browser globals + factory(jQuery); + } + +}(function ($) { + //============================================================================== + /** + * Template function that produces a bootstrap dropdown to replace the + * vanilla HTML select input. Pass in an array of options and an initial selection: + * $( '.my-div' ).append( dropDownSelect( [ 'option1', 'option2' ], 'option2' ); + * + * When the user changes the selected option a 'change.dropdown-select' event will + * fire with both the jq event and the new selection text as arguments. + * + * Get the currently selected choice using: + * var userChoice = $( '.my-div .dropdown-select .dropdown-select-selected' ).text(); + * + */ + function dropDownSelect( options, selected ){ + // replacement for vanilla select element using bootstrap dropdowns instead + selected = selected || (( !_.isEmpty( options ) )?( options[0] ):( '' )); + var $select = $([ + '<div class="dropdown-select btn-group">', + '<button type="button" class="btn btn-default">', + '<span class="dropdown-select-selected">' + selected + '</span>', + '</button>', + '</div>' + ].join( '\n' )); + + // if there's only one option, do not style/create as buttons, dropdown - use simple span + // otherwise, a dropdown displaying the current selection + if( options && options.length > 1 ){ + $select.find( 'button' ) + .addClass( 'dropdown-toggle' ).attr( 'data-toggle', 'dropdown' ) + .append( ' <span class="caret"></span>' ); + $select.append([ + '<ul class="dropdown-menu" role="menu">', + _.map( options, function( option ){ + return [ + '<li><a href="javascript:void(0)">', option, '</a></li>' + ].join( '' ); + }).join( '\n' ), + '</ul>' + ].join( '\n' )); + } + + // trigger 'change.dropdown-select' when a new selection is made using the dropdown + function selectThis( event ){ + var $this = $( this ), + $select = $this.parents( '.dropdown-select' ), + newSelection = $this.text(); + $select.find( '.dropdown-select-selected' ).text( newSelection ); + $select.trigger( 'change.dropdown-select', newSelection ); + } + + $select.find( 'a' ).click( selectThis ); + return $select; + } + + //============================================================================== + /** + * Creates a three part bootstrap button group (key, op, value) meant to + * allow the user control of filters (e.g. { key: 'name', op: 'contains', value: 'my_history' }) + * + * Each field uses a dropDownSelect (from ui.js) to allow selection + * (with the 'value' field appearing as an input when set to do so). + * + * Any change or update in any of the fields will trigger a 'change.filter-control' + * event which will be passed an object containing those fields (as the example above). + * + * Pass in an array of possible filter objects to control what the user can select. + * Each filter object should have: + * key : generally the attribute name on which to filter something + * ops : an array of 1 or more filter operations (e.g. [ 'is', '<', 'contains', '!=' ]) + * values (optional) : an array of possible values for the filter (e.g. [ 'true', 'false' ]) + * @example: + * $( '.my-div' ).filterControl({ + * filters : [ + * { key: 'name', ops: [ 'is exactly', 'contains' ] } + * { key: 'deleted', ops: [ 'is' ], values: [ 'true', 'false' ] } + * ] + * }); + * // after initialization, you can prog. get the current value using: + * $( '.my-div' ).filterControl( 'val' ) + * + */ + function FilterControl( element, options ){ + return this.init( element, options ); + } + /** the data key that this object will be stored under in the DOM element */ + FilterControl.prototype.DATA_KEY = 'filter-control'; + + /** parses options, sets up instance vars, and does initial render */ + FilterControl.prototype.init = function _init( element, options ){ + options = options || { filters: [] }; + this.$element = $( element ).addClass( 'filter-control btn-group' ); + this.options = jQuery.extend( true, {}, this.defaults, options ); + + this.currFilter = this.options.filters[0]; + return this.render(); + }; + + /** render (or re-render) the controls on the element */ + FilterControl.prototype.render = function _render(){ + this.$element.empty() + .append([ this._renderKeySelect(), this._renderOpSelect(), this._renderValueInput() ]); + return this; + }; + + /** render the key dropDownSelect, bind a change event to it, and return it */ + FilterControl.prototype._renderKeySelect = function __renderKeySelect(){ + var filterControl = this; + var keys = this.options.filters.map( function( filter ){ + return filter.key; + }); + this.$keySelect = dropDownSelect( keys, this.currFilter.key ) + .addClass( 'filter-control-key' ) + .on( 'change.dropdown-select', function( event, selection ){ + filterControl.currFilter = _.findWhere( filterControl.options.filters, { key: selection }); + // when the filter/key changes, re-render the control entirely + filterControl.render()._triggerChange(); + }); + return this.$keySelect; + }; + + /** render the op dropDownSelect, bind a change event to it, and return it */ + FilterControl.prototype._renderOpSelect = function __renderOpSelect(){ + var filterControl = this, + ops = this.currFilter.ops; + //TODO: search for currOp in avail. ops: use that for selected if there; otherwise: first op + this.$opSelect = dropDownSelect( ops, ops[0] ) + .addClass( 'filter-control-op' ) + .on( 'change.dropdown-select', function( event, selection ){ + filterControl._triggerChange(); + }); + return this.$opSelect; + }; + + /** render the value control, bind a change event to it, and return it */ + FilterControl.prototype._renderValueInput = function __renderValueInput(){ + var filterControl = this; + // if a values attribute is prov. on the filter - make this a dropdown; otherwise, use an input + if( this.currFilter.values ){ + this.$valueSelect = dropDownSelect( this.currFilter.values, this.currFilter.values[0] ) + .on( 'change.dropdown-select', function( event, selection ){ + filterControl._triggerChange(); + }); + } else { + //TODO: allow setting a value type (mainly for which html5 input to use: range, number, etc.) + this.$valueSelect = $( '<input/>' ).addClass( 'form-control' ) + .on( 'change', function( event, value ){ + filterControl._triggerChange(); + }); + } + this.$valueSelect.addClass( 'filter-control-value' ); + return this.$valueSelect; + }; + + /** return the current state/setting for the filter as a three key object: key, op, value */ + FilterControl.prototype.val = function _val(){ + var key = this.$element.find( '.filter-control-key .dropdown-select-selected' ).text(), + op = this.$element.find( '.filter-control-op .dropdown-select-selected' ).text(), + // handle either a dropdown or plain input + $value = this.$element.find( '.filter-control-value' ), + value = ( $value.hasClass( 'dropdown-select' ) )?( $value.find( '.dropdown-select-selected' ).text() ) + :( $value.val() ); + return { key: key, op: op, value: value }; + }; + + // single point of change for change event + FilterControl.prototype._triggerChange = function __triggerChange(){ + this.$element.trigger( 'change.filter-control', this.val() ); + }; + + // as jq plugin + jQuery.fn.extend({ + filterControl : function $filterControl( options ){ + var nonOptionsArgs = jQuery.makeArray( arguments ).slice( 1 ); + return this.map( function(){ + var $this = $( this ), + data = $this.data( FilterControl.prototype.DATA_KEY ); + + if( jQuery.type( options ) === 'object' ){ + data = new FilterControl( $this, options ); + $this.data( FilterControl.prototype.DATA_KEY, data ); + } + if( data && jQuery.type( options ) === 'string' ){ + var fn = data[ options ]; + if( jQuery.type( fn ) === 'function' ){ + return fn.apply( data, nonOptionsArgs ); + } + } + return this; + }); + } + }); +})); diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/ui/loading-indicator.js --- /dev/null +++ b/client/galaxy/scripts/ui/loading-indicator.js @@ -0,0 +1,98 @@ +(function (root, factory) { + if (typeof define === 'function' && define.amd) { + // AMD. Register as an anonymous module. + define([], factory); + } else { + // Browser globals + root.LoadingIndicator = factory(); + } + +//============================================================================ +}(this, function () { + //TODO: too specific to history panel + function LoadingIndicator( $where, options ){ + + var self = this; + // defaults + options = jQuery.extend({ + cover : false + }, options || {} ); + + function render(){ + var html = [ + '<div class="loading-indicator">', + '<div class="loading-indicator-text">', + '<span class="fa fa-spinner fa-spin fa-lg"></span>', + '<span class="loading-indicator-message">loading...</span>', + '</div>', + '</div>' + ].join( '\n' ); + + var $indicator = $( html ).hide().css( options.css || { + position : 'fixed' + }), + $text = $indicator.children( '.loading-indicator-text' ); + + if( options.cover ){ + $indicator.css({ + 'z-index' : 2, + top : $where.css( 'top' ), + bottom : $where.css( 'bottom' ), + left : $where.css( 'left' ), + right : $where.css( 'right' ), + opacity : 0.5, + 'background-color': 'white', + 'text-align': 'center' + }); + $text = $indicator.children( '.loading-indicator-text' ).css({ + 'margin-top' : '20px' + }); + + } else { + $text = $indicator.children( '.loading-indicator-text' ).css({ + margin : '12px 0px 0px 10px', + opacity : '0.85', + color : 'grey' + }); + $text.children( '.loading-indicator-message' ).css({ + margin : '0px 8px 0px 0px', + 'font-style' : 'italic' + }); + } + return $indicator; + } + + self.show = function( msg, speed, callback ){ + msg = msg || 'loading...'; + speed = speed || 'fast'; + // remove previous + $where.parent().find( '.loading-indicator' ).remove(); + // since position is fixed - we insert as sibling + self.$indicator = render().insertBefore( $where ); + self.message( msg ); + self.$indicator.fadeIn( speed, callback ); + return self; + }; + + self.message = function( msg ){ + self.$indicator.find( 'i' ).text( msg ); + }; + + self.hide = function( speed, callback ){ + speed = speed || 'fast'; + if( self.$indicator && self.$indicator.size() ){ + self.$indicator.fadeOut( speed, function(){ + self.$indicator.remove(); + if( callback ){ callback(); } + }); + } else { + if( callback ){ callback(); } + } + return self; + }; + return self; + } + +//============================================================================ + return LoadingIndicator; +})); diff -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf -r 336a1e96bf5196955ec9f1b45d0446c42d4bc9ae client/galaxy/scripts/ui/mode-button.js --- /dev/null +++ b/client/galaxy/scripts/ui/mode-button.js @@ -0,0 +1,191 @@ +// from: https://raw.githubusercontent.com/umdjs/umd/master/jqueryPlugin.js +// Uses AMD or browser globals to create a jQuery plugin. +(function (factory) { + if (typeof define === 'function' && define.amd) { + //TODO: So...this turns out to be an all or nothing thing. If I load jQuery in the define below, it will + // (of course) wipe the old jquery *and all the plugins loaded into it*. So the define below *is still + // relying on jquery being loaded globally* in order to preserve plugins. + define([], factory); + } else { + // Browser globals + factory(jQuery); + } + +}(function () { + + /** Multi 'mode' button (or any element really) that changes the html + * contents of itself when clicked. Pass in an ordered list of + * objects with 'html' and (optional) onclick functions. + * + * When clicked in a particular node, the onclick function will + * be called (with the element as this) and the element will + * switch to the next mode, replacing its html content with + * that mode's html. + * + * If there is no next mode, the element will switch back to + * the first mode. + * @example: + * $( '.myElement' ).modeButton({ + * modes : [ + * { + * mode: 'bler', + * html: '<h5>Bler</h5>', + * onclick : function(){ + * $( 'body' ).css( 'background-color', 'red' ); + * } + * }, + * { + * mode: 'bloo', + * html: '<h4>Bloo</h4>', + * onclick : function(){ + * $( 'body' ).css( 'background-color', 'blue' ); + * } + * }, + * { + * mode: 'blah', + * html: '<h3>Blah</h3>', + * onclick : function(){ + * $( 'body' ).css( 'background-color', 'grey' ); + * } + * }, + * ] + * }); + * $( '.myElement' ).modeButton( 'callModeFn', 'bler' ); + */ + /** constructor */ + function ModeButton( element, options ){ + this.currModeIndex = 0; + return this._init( element, options ); + } + + /** html5 data key to store this object inside an element */ + ModeButton.prototype.DATA_KEY = 'mode-button'; + /** default options */ + ModeButton.prototype.defaults = { + switchModesOnClick : true + }; + + // ---- private interface + /** set up options, intial mode, and the click handler */ + ModeButton.prototype._init = function _init( element, options ){ + //console.debug( 'ModeButton._init:', element, options ); + options = options || {}; + this.$element = $( element ); + this.options = $.extend( true, {}, this.defaults, options ); + if( !options.modes ){ + throw new Error( 'ModeButton requires a "modes" array' ); + } + + var modeButton = this; + this.$element.click( function _ModeButtonClick( event ){ + // call the curr mode fn + modeButton.callModeFn(); + // inc the curr mode index + if( modeButton.options.switchModesOnClick ){ modeButton._incModeIndex(); } + // set the element html + $( this ).html( modeButton.options.modes[ modeButton.currModeIndex ].html ); + }); + return this.reset(); + }; + /** increment the mode index to the next in the array, looping back to zero if at the last */ + ModeButton.prototype._incModeIndex = function _incModeIndex(){ + this.currModeIndex += 1; + if( this.currModeIndex >= this.options.modes.length ){ + this.currModeIndex = 0; + } + return this; + }; + /** get the mode index in the modes array for the given key (mode name) */ + ModeButton.prototype._getModeIndex = function _getModeIndex( modeKey ){ + for( var i=0; i<this.options.modes.length; i+=1 ){ + if( this.options.modes[ i ].mode === modeKey ){ return i; } + } + throw new Error( 'mode not found: ' + modeKey ); + }; + /** set the current mode to the one with the given index and set button html */ + ModeButton.prototype._setModeByIndex = function _setModeByIndex( index ){ + var newMode = this.options.modes[ index ]; + if( !newMode ){ + throw new Error( 'mode index not found: ' + index ); + } + this.currModeIndex = index; + if( newMode.html ){ + this.$element.html( newMode.html ); + } + return this; + }; + + // ---- public interface + /** get the current mode object (not just the mode name) */ + ModeButton.prototype.currentMode = function currentMode(){ + return this.options.modes[ this.currModeIndex ]; + }; + /** return the mode key of the current mode */ + ModeButton.prototype.current = function current(){ + // sugar for returning mode name + return this.currentMode().mode; + }; + /** get the mode with the given modeKey or the current mode if modeKey is undefined */ + ModeButton.prototype.getMode = function getMode( modeKey ){ + if( !modeKey ){ return this.currentMode(); } + return this.options.modes[( this._getModeIndex( modeKey ) )]; + }; + /** T/F if the button has the given mode */ + ModeButton.prototype.hasMode = function hasMode( modeKey ){ + try { + return !!this.getMode( modeKey ); + } catch( err ){} + return false; + }; + /** set the current mode to the mode with the given name */ + ModeButton.prototype.setMode = function setMode( modeKey ){ + return this._setModeByIndex( this._getModeIndex( modeKey ) ); + }; + /** reset to the initial mode */ + ModeButton.prototype.reset = function reset(){ + this.currModeIndex = 0; + if( this.options.initialMode ){ + this.currModeIndex = this._getModeIndex( this.options.initialMode ); + } + return this._setModeByIndex( this.currModeIndex ); + }; + /** manually call the click handler of the given mode */ + ModeButton.prototype.callModeFn = function callModeFn( modeKey ){ + var modeFn = this.getMode( modeKey ).onclick; + if( modeFn && $.type( modeFn === 'function' ) ){ + // call with the element as context (std jquery pattern) + return modeFn.call( this.$element.get(0) ); + } + return undefined; + }; + + // as jq plugin + $.fn.modeButton = function $modeButton( options ){ + if( !this.size() ){ return this; } + + //TODO: does map still work with jq multi selection (i.e. $( '.class-for-many-btns' ).modeButton)? + if( $.type( options ) === 'object' ){ + return this.map( function(){ + var $this = $( this ); + $this.data( 'mode-button', new ModeButton( $this, options ) ); + return this; + }); + } + + var $first = $( this[0] ), + button = $first.data( 'mode-button' ); + + if( !button ){ + throw new Error( 'modeButton needs an options object or string name of a function' ); + } + + if( button && $.type( options ) === 'string' ){ + var fnName = options; + if( button && $.type( button[ fnName ] ) === 'function' ){ + return button[ fnName ].apply( button, $.makeArray( arguments ).slice( 1 ) ); + } + } + return button; + }; + +})); This diff is so big that we needed to truncate the remainder. Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: martenson: insert empty string instead of None for requirement.version
by commits-noreply＠bitbucket.org 09 Dec '14

09 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/6f73d9d8de65/ Changeset: 6f73d9d8de65 User: martenson Date: 2014-12-09 18:40:39+00:00 Summary: insert empty string instead of None for requirement.version Affected #: 1 file diff -r 31c50ee295791a8797ff8391986a469778091ee9 -r 6f73d9d8de65e81d16049f4507777ca5df7dc1bf templates/webapps/galaxy/tool_form.mako --- a/templates/webapps/galaxy/tool_form.mako +++ b/templates/webapps/galaxy/tool_form.mako @@ -362,7 +362,7 @@ <a href="#" class="icon-btn" title="Underlying versions" tabindex="0" data-toggle="popover" data-placement="bottom" data-content= " %for i, requirement in enumerate( tool.requirements ): - ${ requirement.name } v ${ requirement.version } ${ '' if i + 1 == len( tool.requirements ) else ' | ' } + ${ requirement.name } ${ ('v ' + requirement.version ) if requirement.version else ' ' } ${ '' if i + 1 == len( tool.requirements ) else ' | ' } %endfor " onclick="$(function () { Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: carlfeberhard: Client build: remove ui.js; modularize icon button from ui.js
by commits-noreply＠bitbucket.org 09 Dec '14

09 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/31c50ee29579/ Changeset: 31c50ee29579 User: carlfeberhard Date: 2014-12-09 18:28:57+00:00 Summary: Client build: remove ui.js; modularize icon button from ui.js Affected #: 21 files diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 client/galaxy/scripts/mvc/data.js --- a/client/galaxy/scripts/mvc/data.js +++ b/client/galaxy/scripts/mvc/data.js @@ -1,5 +1,5 @@ // Additional dependencies: jQuery, underscore. -define(['mvc/ui/ui-modal', 'mvc/ui/ui-frames'], function(Modal, Frames) { +define(['mvc/ui/ui-modal', 'mvc/ui/ui-frames', 'mvc/ui/icon-button'], function(Modal, Frames, mod_icon_btn) { /** * Dataset metedata. @@ -447,8 +447,8 @@ } // create the icon - var btn_viz = new IconButtonView({ - model : new IconButton({ + var btn_viz = new mod_icon_btn.IconButtonView({ + model : new mod_icon_btn.IconButton({ title : 'Visualize', icon_class : 'chart_curve', id : 'btn_viz' diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 client/galaxy/scripts/mvc/ui.js --- a/client/galaxy/scripts/mvc/ui.js +++ /dev/null @@ -1,171 +0,0 @@ -/** - * functions for creating major ui elements - */ - -/** - * backbone model for icon buttons - */ -var IconButton = Backbone.Model.extend({ - defaults: { - title : "", - icon_class : "", - on_click : null, - menu_options : null, - is_menu_button : true, - id : null, - href : null, - target : null, - enabled : true, - visible : true, - tooltip_config : {} - } -}); - -/** - * backbone view for icon buttons - */ -var IconButtonView = Backbone.View.extend({ - - initialize : function(){ - // better rendering this way - this.model.attributes.tooltip_config = { placement : 'bottom' }; - this.model.bind( 'change', this.render, this ); - }, - - render : function( ){ - // hide tooltip - this.$el.tooltip( 'hide' ); - - var new_elem = this.template( this.model.toJSON() ); - // configure tooltip - new_elem.tooltip( this.model.get( 'tooltip_config' )); - this.$el.replaceWith( new_elem ); - this.setElement( new_elem ); - return this; - }, - - events : { - 'click' : 'click' - }, - - click : function( event ){ - // if on_click pass to that function - if( _.isFunction( this.model.get( 'on_click' ) ) ){ - this.model.get( 'on_click' )( event ); - return false; - } - // otherwise, bubble up ( to href or whatever ) - return true; - }, - - // generate html element - template: function( options ){ - var buffer = 'title="' + options.title + '" class="icon-button'; - - if( options.is_menu_button ){ - buffer += ' menu-button'; - } - - buffer += ' ' + options.icon_class; - - if( !options.enabled ){ - buffer += '_disabled'; - } - - // close class tag - buffer += '"'; - - if( options.id ){ - buffer += ' id="' + options.id + '"'; - } - - buffer += ' href="' + options.href + '"'; - // add target for href - if( options.target ){ - buffer += ' target="' + options.target + '"'; - } - // set visibility - if( !options.visible ){ - buffer += ' style="display: none;"'; - } - - // enabled/disabled - if ( options.enabled ){ - buffer = '<a ' + buffer + '/>'; - } else { - buffer = '<span ' + buffer + '/>'; - } - - // return element - return $( buffer ); - } -} ); - -// define collection -var IconButtonCollection = Backbone.Collection.extend({ - model: IconButton -}); - -/** - * menu with multiple icon buttons - * views are not needed nor used for individual buttons - */ -var IconButtonMenuView = Backbone.View.extend({ - - tagName: 'div', - - initialize: function(){ - this.render(); - }, - - render: function(){ - // initialize icon buttons - var self = this; - this.collection.each(function(button){ - // create and add icon button to menu - var elt = $('<a/>') - .attr('href', 'javascript:void(0)') - .attr('title', button.attributes.title) - .addClass('icon-button menu-button') - .addClass(button.attributes.icon_class) - .appendTo(self.$el) - .click(button.attributes.on_click); - - // configure tooltip - if (button.attributes.tooltip_config){ - elt.tooltip(button.attributes.tooltip_config); - } - - // add popup menu to icon - var menu_options = button.get('options'); - if (menu_options){ - make_popupmenu(elt, menu_options); - } - }); - - // return - return this; - } -}); - -/** - * Returns an IconButtonMenuView for the provided configuration. - * Configuration is a list of dictionaries where each dictionary - * defines an icon button. Each dictionary must have the following - * elements: icon_class, title, and on_click. - */ -var create_icon_buttons_menu = function(config, global_config) -{ - // initialize global configuration - if (!global_config) global_config = {}; - - // create and initialize menu - var buttons = new IconButtonCollection( - _.map(config, function(button_config){ - return new IconButton(_.extend(button_config, global_config)); - }) - ); - - // return menu - return new IconButtonMenuView( {collection: buttons} ); -}; diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 client/galaxy/scripts/mvc/ui/icon-button.js --- /dev/null +++ b/client/galaxy/scripts/mvc/ui/icon-button.js @@ -0,0 +1,183 @@ +define([ + //jquery + //backbone +], function(){ +//============================================================================= +/** + * backbone model for icon buttons + */ +var IconButton = Backbone.Model.extend({ + defaults: { + title : "", + icon_class : "", + on_click : null, + menu_options : null, + is_menu_button : true, + id : null, + href : null, + target : null, + enabled : true, + visible : true, + tooltip_config : {} + } +}); + +/** + * backbone view for icon buttons + */ +var IconButtonView = Backbone.View.extend({ + + initialize : function(){ + // better rendering this way + this.model.attributes.tooltip_config = { placement : 'bottom' }; + this.model.bind( 'change', this.render, this ); + }, + + render : function( ){ + // hide tooltip + this.$el.tooltip( 'hide' ); + + var new_elem = this.template( this.model.toJSON() ); + // configure tooltip + new_elem.tooltip( this.model.get( 'tooltip_config' )); + this.$el.replaceWith( new_elem ); + this.setElement( new_elem ); + return this; + }, + + events : { + 'click' : 'click' + }, + + click : function( event ){ + // if on_click pass to that function + if( _.isFunction( this.model.get( 'on_click' ) ) ){ + this.model.get( 'on_click' )( event ); + return false; + } + // otherwise, bubble up ( to href or whatever ) + return true; + }, + + // generate html element + template: function( options ){ + var buffer = 'title="' + options.title + '" class="icon-button'; + + if( options.is_menu_button ){ + buffer += ' menu-button'; + } + + buffer += ' ' + options.icon_class; + + if( !options.enabled ){ + buffer += '_disabled'; + } + + // close class tag + buffer += '"'; + + if( options.id ){ + buffer += ' id="' + options.id + '"'; + } + + buffer += ' href="' + options.href + '"'; + // add target for href + if( options.target ){ + buffer += ' target="' + options.target + '"'; + } + // set visibility + if( !options.visible ){ + buffer += ' style="display: none;"'; + } + + // enabled/disabled + if ( options.enabled ){ + buffer = '<a ' + buffer + '/>'; + } else { + buffer = '<span ' + buffer + '/>'; + } + + // return element + return $( buffer ); + } +} ); + +// define collection +var IconButtonCollection = Backbone.Collection.extend({ + model: IconButton +}); + +/** + * menu with multiple icon buttons + * views are not needed nor used for individual buttons + */ +var IconButtonMenuView = Backbone.View.extend({ + + tagName: 'div', + + initialize: function(){ + this.render(); + }, + + render: function(){ + // initialize icon buttons + var self = this; + this.collection.each(function(button){ + // create and add icon button to menu + var elt = $('<a/>') + .attr('href', 'javascript:void(0)') + .attr('title', button.attributes.title) + .addClass('icon-button menu-button') + .addClass(button.attributes.icon_class) + .appendTo(self.$el) + .click(button.attributes.on_click); + + // configure tooltip + if (button.attributes.tooltip_config){ + elt.tooltip(button.attributes.tooltip_config); + } + + // add popup menu to icon + var menu_options = button.get('options'); + if (menu_options){ + make_popupmenu(elt, menu_options); + } + }); + + // return + return this; + } +}); + +/** + * Returns an IconButtonMenuView for the provided configuration. + * Configuration is a list of dictionaries where each dictionary + * defines an icon button. Each dictionary must have the following + * elements: icon_class, title, and on_click. + */ +var create_icon_buttons_menu = function(config, global_config) +{ + // initialize global configuration + if (!global_config) global_config = {}; + + // create and initialize menu + var buttons = new IconButtonCollection( + _.map(config, function(button_config){ + return new IconButton(_.extend(button_config, global_config)); + }) + ); + + // return menu + return new IconButtonMenuView( {collection: buttons} ); +}; + + +//============================================================================= + return { + IconButton : IconButton, + IconButtonView : IconButtonView, + IconButtonCollection : IconButtonCollection, + IconButtonMenuView : IconButtonMenuView, + create_icon_buttons_menu: create_icon_buttons_menu + }; +}) diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 client/galaxy/scripts/viz/circster.js --- a/client/galaxy/scripts/viz/circster.js +++ b/client/galaxy/scripts/viz/circster.js @@ -2,8 +2,9 @@ require( [ 'utils/utils', + 'mvc/ui/icon-button', 'libs/farbtastic', -], function(mod_utils) +], function(mod_utils, mod_icon_btn) { // load css mod_utils.cssLoadFile("static/style/circster.css"); @@ -1075,7 +1076,7 @@ $('#center .unified-panel-header-inner').append(galaxy_config.app.viz_config.title + " " + galaxy_config.app.viz_config.dbkey); // setup menu - var menu = create_icon_buttons_menu([ + var menu = mod_icon_btn.create_icon_buttons_menu([ { icon_class: 'plus-button', title: 'Add tracks', on_click: function() { diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 client/galaxy/scripts/viz/phyloviz.js --- a/client/galaxy/scripts/viz/phyloviz.js +++ b/client/galaxy/scripts/viz/phyloviz.js @@ -1,4 +1,9 @@ -define(['libs/d3', 'viz/visualization', 'mvc/data'], function(d3, visualization_mod, data_mod) { +define([ + 'libs/d3', + 'viz/visualization', + 'mvc/data', + 'mvc/ui/icon-button' +], function(d3, visualization_mod, data_mod, mod_icon_btn) { /** * Base class of any menus that takes in user interaction. Contains checking methods. @@ -720,7 +725,7 @@ initRightHeaderBtns : function(){ var self = this; - rightMenu = create_icon_buttons_menu([ + rightMenu = mod_icon_btn.create_icon_buttons_menu([ { icon_class: 'gear', title: 'PhyloViz Settings', on_click: function(){ $("#SettingsMenu").show(); self.settingsMenu.updateUI(); @@ -748,7 +753,7 @@ initNavBtns: function() { var self = this, - navMenu = create_icon_buttons_menu([ + navMenu = mod_icon_btn.create_icon_buttons_menu([ { icon_class: 'zoom-in', title: 'Zoom in', on_click: function() { self.phylovizView.zoomAndPan({ zoom : "+"}); } }, diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 client/galaxy/scripts/viz/sweepster.js --- a/client/galaxy/scripts/viz/sweepster.js +++ b/client/galaxy/scripts/viz/sweepster.js @@ -3,8 +3,8 @@ * genomic visualization. */ -define(["libs/underscore", "libs/d3", "viz/trackster/util", "viz/visualization", "viz/trackster/tracks", "mvc/tools", "mvc/data", "utils/config"], - function(_, d3, util, visualization, tracks, tools, data, config) { +define(["libs/underscore", "libs/d3", "viz/trackster/util", "viz/visualization", "viz/trackster/tracks", "mvc/tools", "mvc/data", "utils/config", "mvc/ui/icon-button"], + function(_, d3, util, visualization, tracks, tools, data, config, mod_icon_btn) { /** * A collection of tool input settings. Object is useful for keeping a list of settings @@ -375,7 +375,7 @@ settings_div.toggle(); self.trigger('run_on_dataset', settings); }); - var icon_menu = create_icon_buttons_menu([ + var icon_menu = mod_icon_btn.create_icon_buttons_menu([ { title: 'Settings', icon_class: 'gear track-settings', @@ -486,7 +486,7 @@ // Add buttons for adding/removing parameter. var self = this, - menu = create_icon_buttons_menu([ + menu = mod_icon_btn.create_icon_buttons_menu([ { title: 'Add parameter to tree', icon_class: 'plus-button', @@ -723,7 +723,7 @@ // Help includes text and a close button. var help_div = $(this.helpText).addClass('help'), - close_button = create_icon_buttons_menu([ + close_button = mod_icon_btn.create_icon_buttons_menu([ { title: 'Close', icon_class: 'cross-circle', @@ -745,7 +745,7 @@ this.handle_node_clicks(); // Set up visualization menu. - var menu = create_icon_buttons_menu( + var menu = mod_icon_btn.create_icon_buttons_menu( [ // Save. /* @@ -939,4 +939,4 @@ SweepsterVisualizationView: SweepsterVisualizationView }; -}); \ No newline at end of file +}); diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 client/galaxy/scripts/viz/trackster.js --- a/client/galaxy/scripts/viz/trackster.js +++ b/client/galaxy/scripts/viz/trackster.js @@ -12,6 +12,7 @@ [ // load js libraries 'utils/utils', + 'mvc/ui/icon-button', 'libs/jquery/jquery.event.drag', 'libs/jquery/jquery.event.hover', 'libs/jquery/jquery.mousewheel', @@ -21,7 +22,7 @@ 'libs/jquery/jquery.form', 'libs/jquery/jquery.rating', 'mvc/ui' -], function(mod_utils) +], function(mod_utils, mod_icon_btn) { // load css mod_utils.cssLoadFile("static/style/jquery.rating.css"); @@ -101,7 +102,7 @@ */ createButtonMenu: function() { var self = this, - menu = create_icon_buttons_menu([ + menu = mod_icon_btn.create_icon_buttons_menu([ { icon_class: 'plus-button', title: 'Add tracks', on_click: function() { visualization.select_datasets(galaxy_config.root + "visualization/list_current_history_datasets", galaxy_config.root + "api/datasets", { 'f-dbkey': view.dbkey }, function(new_tracks) { @@ -571,4 +572,4 @@ GalaxyApp : TracksterView }; -}); \ No newline at end of file +}); diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/mvc/data.js --- a/static/scripts/mvc/data.js +++ b/static/scripts/mvc/data.js @@ -1,5 +1,5 @@ // Additional dependencies: jQuery, underscore. -define(['mvc/ui/ui-modal', 'mvc/ui/ui-frames'], function(Modal, Frames) { +define(['mvc/ui/ui-modal', 'mvc/ui/ui-frames', 'mvc/ui/icon-button'], function(Modal, Frames, mod_icon_btn) { /** * Dataset metedata. @@ -447,8 +447,8 @@ } // create the icon - var btn_viz = new IconButtonView({ - model : new IconButton({ + var btn_viz = new mod_icon_btn.IconButtonView({ + model : new mod_icon_btn.IconButton({ title : 'Visualize', icon_class : 'chart_curve', id : 'btn_viz' diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/mvc/ui.js --- a/static/scripts/mvc/ui.js +++ /dev/null @@ -1,171 +0,0 @@ -/** - * functions for creating major ui elements - */ - -/** - * backbone model for icon buttons - */ -var IconButton = Backbone.Model.extend({ - defaults: { - title : "", - icon_class : "", - on_click : null, - menu_options : null, - is_menu_button : true, - id : null, - href : null, - target : null, - enabled : true, - visible : true, - tooltip_config : {} - } -}); - -/** - * backbone view for icon buttons - */ -var IconButtonView = Backbone.View.extend({ - - initialize : function(){ - // better rendering this way - this.model.attributes.tooltip_config = { placement : 'bottom' }; - this.model.bind( 'change', this.render, this ); - }, - - render : function( ){ - // hide tooltip - this.$el.tooltip( 'hide' ); - - var new_elem = this.template( this.model.toJSON() ); - // configure tooltip - new_elem.tooltip( this.model.get( 'tooltip_config' )); - this.$el.replaceWith( new_elem ); - this.setElement( new_elem ); - return this; - }, - - events : { - 'click' : 'click' - }, - - click : function( event ){ - // if on_click pass to that function - if( _.isFunction( this.model.get( 'on_click' ) ) ){ - this.model.get( 'on_click' )( event ); - return false; - } - // otherwise, bubble up ( to href or whatever ) - return true; - }, - - // generate html element - template: function( options ){ - var buffer = 'title="' + options.title + '" class="icon-button'; - - if( options.is_menu_button ){ - buffer += ' menu-button'; - } - - buffer += ' ' + options.icon_class; - - if( !options.enabled ){ - buffer += '_disabled'; - } - - // close class tag - buffer += '"'; - - if( options.id ){ - buffer += ' id="' + options.id + '"'; - } - - buffer += ' href="' + options.href + '"'; - // add target for href - if( options.target ){ - buffer += ' target="' + options.target + '"'; - } - // set visibility - if( !options.visible ){ - buffer += ' style="display: none;"'; - } - - // enabled/disabled - if ( options.enabled ){ - buffer = '<a ' + buffer + '/>'; - } else { - buffer = '<span ' + buffer + '/>'; - } - - // return element - return $( buffer ); - } -} ); - -// define collection -var IconButtonCollection = Backbone.Collection.extend({ - model: IconButton -}); - -/** - * menu with multiple icon buttons - * views are not needed nor used for individual buttons - */ -var IconButtonMenuView = Backbone.View.extend({ - - tagName: 'div', - - initialize: function(){ - this.render(); - }, - - render: function(){ - // initialize icon buttons - var self = this; - this.collection.each(function(button){ - // create and add icon button to menu - var elt = $('<a/>') - .attr('href', 'javascript:void(0)') - .attr('title', button.attributes.title) - .addClass('icon-button menu-button') - .addClass(button.attributes.icon_class) - .appendTo(self.$el) - .click(button.attributes.on_click); - - // configure tooltip - if (button.attributes.tooltip_config){ - elt.tooltip(button.attributes.tooltip_config); - } - - // add popup menu to icon - var menu_options = button.get('options'); - if (menu_options){ - make_popupmenu(elt, menu_options); - } - }); - - // return - return this; - } -}); - -/** - * Returns an IconButtonMenuView for the provided configuration. - * Configuration is a list of dictionaries where each dictionary - * defines an icon button. Each dictionary must have the following - * elements: icon_class, title, and on_click. - */ -var create_icon_buttons_menu = function(config, global_config) -{ - // initialize global configuration - if (!global_config) global_config = {}; - - // create and initialize menu - var buttons = new IconButtonCollection( - _.map(config, function(button_config){ - return new IconButton(_.extend(button_config, global_config)); - }) - ); - - // return menu - return new IconButtonMenuView( {collection: buttons} ); -}; diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/mvc/ui/icon-button.js --- /dev/null +++ b/static/scripts/mvc/ui/icon-button.js @@ -0,0 +1,183 @@ +define([ + //jquery + //backbone +], function(){ +//============================================================================= +/** + * backbone model for icon buttons + */ +var IconButton = Backbone.Model.extend({ + defaults: { + title : "", + icon_class : "", + on_click : null, + menu_options : null, + is_menu_button : true, + id : null, + href : null, + target : null, + enabled : true, + visible : true, + tooltip_config : {} + } +}); + +/** + * backbone view for icon buttons + */ +var IconButtonView = Backbone.View.extend({ + + initialize : function(){ + // better rendering this way + this.model.attributes.tooltip_config = { placement : 'bottom' }; + this.model.bind( 'change', this.render, this ); + }, + + render : function( ){ + // hide tooltip + this.$el.tooltip( 'hide' ); + + var new_elem = this.template( this.model.toJSON() ); + // configure tooltip + new_elem.tooltip( this.model.get( 'tooltip_config' )); + this.$el.replaceWith( new_elem ); + this.setElement( new_elem ); + return this; + }, + + events : { + 'click' : 'click' + }, + + click : function( event ){ + // if on_click pass to that function + if( _.isFunction( this.model.get( 'on_click' ) ) ){ + this.model.get( 'on_click' )( event ); + return false; + } + // otherwise, bubble up ( to href or whatever ) + return true; + }, + + // generate html element + template: function( options ){ + var buffer = 'title="' + options.title + '" class="icon-button'; + + if( options.is_menu_button ){ + buffer += ' menu-button'; + } + + buffer += ' ' + options.icon_class; + + if( !options.enabled ){ + buffer += '_disabled'; + } + + // close class tag + buffer += '"'; + + if( options.id ){ + buffer += ' id="' + options.id + '"'; + } + + buffer += ' href="' + options.href + '"'; + // add target for href + if( options.target ){ + buffer += ' target="' + options.target + '"'; + } + // set visibility + if( !options.visible ){ + buffer += ' style="display: none;"'; + } + + // enabled/disabled + if ( options.enabled ){ + buffer = '<a ' + buffer + '/>'; + } else { + buffer = '<span ' + buffer + '/>'; + } + + // return element + return $( buffer ); + } +} ); + +// define collection +var IconButtonCollection = Backbone.Collection.extend({ + model: IconButton +}); + +/** + * menu with multiple icon buttons + * views are not needed nor used for individual buttons + */ +var IconButtonMenuView = Backbone.View.extend({ + + tagName: 'div', + + initialize: function(){ + this.render(); + }, + + render: function(){ + // initialize icon buttons + var self = this; + this.collection.each(function(button){ + // create and add icon button to menu + var elt = $('<a/>') + .attr('href', 'javascript:void(0)') + .attr('title', button.attributes.title) + .addClass('icon-button menu-button') + .addClass(button.attributes.icon_class) + .appendTo(self.$el) + .click(button.attributes.on_click); + + // configure tooltip + if (button.attributes.tooltip_config){ + elt.tooltip(button.attributes.tooltip_config); + } + + // add popup menu to icon + var menu_options = button.get('options'); + if (menu_options){ + make_popupmenu(elt, menu_options); + } + }); + + // return + return this; + } +}); + +/** + * Returns an IconButtonMenuView for the provided configuration. + * Configuration is a list of dictionaries where each dictionary + * defines an icon button. Each dictionary must have the following + * elements: icon_class, title, and on_click. + */ +var create_icon_buttons_menu = function(config, global_config) +{ + // initialize global configuration + if (!global_config) global_config = {}; + + // create and initialize menu + var buttons = new IconButtonCollection( + _.map(config, function(button_config){ + return new IconButton(_.extend(button_config, global_config)); + }) + ); + + // return menu + return new IconButtonMenuView( {collection: buttons} ); +}; + + +//============================================================================= + return { + IconButton : IconButton, + IconButtonView : IconButtonView, + IconButtonCollection : IconButtonCollection, + IconButtonMenuView : IconButtonMenuView, + create_icon_buttons_menu: create_icon_buttons_menu + }; +}) diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/packed/mvc/data.js --- a/static/scripts/packed/mvc/data.js +++ b/static/scripts/packed/mvc/data.js @@ -1,1 +1,1 @@ -define(["mvc/ui/ui-modal","mvc/ui/ui-frames"],function(j,i){var g=Backbone.Model.extend({});var b=Backbone.Model.extend({defaults:{id:"",type:"",name:"",hda_ldda:"hda",metadata:null},initialize:function(){if(!this.get("metadata")){this._set_metadata()}this.on("change",this._set_metadata,this)},_set_metadata:function(){var m=new g();_.each(_.keys(this.attributes),function(n){if(n.indexOf("metadata_")===0){var o=n.split("metadata_")[1];m.set(o,this.attributes[n]);delete this.attributes[n]}},this);this.set("metadata",m,{silent:true})},get_metadata:function(m){return this.attributes.metadata.get(m)},urlRoot:galaxy_config.root+"api/datasets"});var h=b.extend({defaults:_.extend({},b.prototype.defaults,{chunk_url:null,first_data_chunk:null,chunk_index:-1,at_eof:false}),initialize:function(m){b.prototype.initialize.call(this);this.attributes.chunk_index=(this.attributes.first_data_chunk?1:0);this.attributes.chunk_url=galaxy_config.root+"dataset/display?dataset_id="+this.id;this.attributes.url_viz=galaxy_config.root+"visualization"},get_next_chunk:function(){if(this.attributes.at_eof){return null}var m=this,n=$.Deferred();$.getJSON(this.attributes.chunk_url,{chunk:m.attributes.chunk_index++}).success(function(o){var p;if(o.ck_data!==""){p=o}else{m.attributes.at_eof=true;p=null}n.resolve(p)});return n}});var e=Backbone.Collection.extend({model:b});var a=Backbone.View.extend({initialize:function(m){this.row_count=0;this.loading_chunk=false;this.header_color="#AAA";this.dark_row_color="#DDD";new d({model:m.model,$el:this.$el})},expand_to_container:function(){if(this.$el.height()<this.scroll_elt.height()){this.attempt_to_fetch()}},attempt_to_fetch:function(n){var m=this;if(!this.loading_chunk&&this.scrolled_to_bottom()){this.loading_chunk=true;this.loading_indicator.show();$.when(m.model.get_next_chunk()).then(function(o){if(o){m._renderChunk(o);m.loading_chunk=false}m.loading_indicator.hide();m.expand_to_container()})}},render:function(){this.loading_indicator=$("<div/>").attr("id","loading_indicator");this.$el.append(this.loading_indicator);var p=$("<table/>").attr({id:"content_table",cellpadding:0});this.$el.append(p);var m=this.model.get_metadata("column_names"),q=$("<tr/>").css("background-color",this.header_color).appendTo(p);if(m){q.append("<th>"+m.join("</th><th>")+"</th>")}var o=this,n=this.model.get("first_data_chunk");if(n){this._renderChunk(n)}else{$.when(o.model.get_next_chunk()).then(function(r){o._renderChunk(r)})}this.scroll_elt.scroll(function(){o.attempt_to_fetch()})},scrolled_to_bottom:function(){return false},_renderCell:function(p,m,q){var n=$("<td>").text(p);var o=this.model.get_metadata("column_types");if(q!==undefined){n.attr("colspan",q).addClass("stringalign")}else{if(o){if(m<o.length){if(o[m]==="str"||o[m]==="list"){n.addClass("stringalign")}}}}return n},_renderRow:function(m){var n=m.split("\t"),p=$("<tr>"),o=this.model.get_metadata("columns");if(this.row_count%2!==0){p.css("background-color",this.dark_row_color)}if(n.length===o){_.each(n,function(r,q){p.append(this._renderCell(r,q))},this)}else{if(n.length>o){_.each(n.slice(0,o-1),function(r,q){p.append(this._renderCell(r,q))},this);p.append(this._renderCell(n.slice(o-1).join("\t"),o-1))}else{if(o>5&&n.length===o-1){_.each(n,function(r,q){p.append(this._renderCell(r,q))},this);p.append($("<td>"))}else{p.append(this._renderCell(m,0,o))}}}this.row_count++;return p},_renderChunk:function(m){var n=this.$el.find("table");_.each(m.ck_data.split("\n"),function(o,p){if(o!==""){n.append(this._renderRow(o))}},this)}});var f=a.extend({initialize:function(m){a.prototype.initialize.call(this,m);scroll_elt=_.find(this.$el.parents(),function(n){return $(n).css("overflow")==="auto"});if(!scroll_elt){scroll_elt=window}this.scroll_elt=$(scroll_elt)},scrolled_to_bottom:function(){return(this.$el.height()-this.scroll_elt.scrollTop()-this.scroll_elt.height()<=0)}});var l=a.extend({initialize:function(m){a.prototype.initialize.call(this,m);this.scroll_elt=this.$el.css({position:"relative",overflow:"scroll",height:this.options.height||"500px"})},scrolled_to_bottom:function(){return this.$el.scrollTop()+this.$el.innerHeight()>=this.el.scrollHeight}});var d=Backbone.View.extend({col:{chrom:null,start:null,end:null},url_viz:null,dataset_id:null,genome_build:null,file_ext:null,initialize:function(o){var r=parent.Galaxy;if(r&&r.modal){this.modal=r.modal}if(r&&r.frame){this.frame=r.frame}if(!this.modal||!this.frame){return}var n=o.model;var q=n.get("metadata");if(!n.get("file_ext")){return}this.file_ext=n.get("file_ext");if(this.file_ext=="bed"){if(q.get("chromCol")&&q.get("startCol")&&q.get("endCol")){this.col.chrom=q.get("chromCol")-1;this.col.start=q.get("startCol")-1;this.col.end=q.get("endCol")-1}else{console.log("TabularButtonTrackster : Bed-file metadata incomplete.");return}}if(this.file_ext=="vcf"){function p(t,u){for(var s=0;s<u.length;s++){if(u[s].match(t)){return s}}return -1}this.col.chrom=p("Chrom",q.get("column_names"));this.col.start=p("Pos",q.get("column_names"));this.col.end=null;if(this.col.chrom==-1||this.col.start==-1){console.log("TabularButtonTrackster : VCF-file metadata incomplete.");return}}if(this.col.chrom===undefined){return}if(n.id){this.dataset_id=n.id}else{console.log("TabularButtonTrackster : Dataset identification is missing.");return}if(n.get("url_viz")){this.url_viz=n.get("url_viz")}else{console.log("TabularButtonTrackster : Url for visualization controller is missing.");return}if(n.get("genome_build")){this.genome_build=n.get("genome_build")}var m=new IconButtonView({model:new IconButton({title:"Visualize",icon_class:"chart_curve",id:"btn_viz"})});this.setElement(o.$el);this.$el.append(m.render().$el);this.hide()},events:{"mouseover tr":"show",mouseleave:"hide"},show:function(r){function q(w){return !isNaN(parseFloat(w))&&isFinite(w)}if(this.col.chrom===null){return}var v=$(r.target).parent();var s=v.children().eq(this.col.chrom).html();var m=v.children().eq(this.col.start).html();var o=this.col.end?v.children().eq(this.col.end).html():m;if(!s.match("^#")&&s!==""&&q(m)){var u={dataset_id:this.dataset_id,gene_region:s+":"+m+"-"+o};var p=v.offset();var n=p.left-10;var t=p.top-$(window).scrollTop()+3;$("#btn_viz").css({position:"fixed",top:t+"px",left:n+"px"});$("#btn_viz").off("click");$("#btn_viz").click(this.create_trackster_action(this.url_viz,u,this.genome_build));$("#btn_viz").show()}else{$("#btn_viz").hide()}},hide:function(){this.$el.find("#btn_viz").hide()},create_trackster_action:function(m,p,o){var n=this;return function(){var q={};if(o){q["f-dbkey"]=o}$.ajax({url:m+"/list_tracks?"+$.param(q),dataType:"html",error:function(){n.modal.show({title:"Something went wrong!",body:"Unfortunately we could not add this dataset to the track browser. Please try again or contact us.",buttons:{Cancel:function(){n.modal.hide()}}})},success:function(r){n.modal.show({title:"View Data in a New or Saved Visualization",buttons:{Cancel:function(){n.modal.hide()},"View in saved visualization":function(){n.modal.show({title:"Add Data to Saved Visualization",body:r,buttons:{Cancel:function(){n.modal.hide()},"Add to visualization":function(){n.modal.hide();n.modal.$el.find("input[name=id]:checked").each(function(){var s=$(this).val();p.id=s;n.frame.add({title:"Trackster",type:"url",content:m+"/trackster?"+$.param(p)})})}}})},"View in new visualization":function(){n.modal.hide();n.frame.add({title:"Trackster",type:"url",content:m+"/trackster?"+$.param(p)})}}})}});return false}}});var k=function(p,n,q,m){var o=new n({model:new p(q)});o.render();if(m){m.append(o.$el)}return o};var c=function(o){if(!o.model){o.model=new h(o.dataset_config)}var n=o.parent_elt;var p=o.embedded;delete o.embedded;delete o.parent_elt;delete o.dataset_config;var m=(p?new l(o):new f(o));m.render();if(n){n.append(m.$el);m.expand_to_container()}return m};return{Dataset:b,TabularDataset:h,DatasetCollection:e,TabularDatasetChunkedView:a,createTabularDatasetChunkedView:c}}); \ No newline at end of file +define(["mvc/ui/ui-modal","mvc/ui/ui-frames","mvc/ui/icon-button"],function(k,j,f){var h=Backbone.Model.extend({});var b=Backbone.Model.extend({defaults:{id:"",type:"",name:"",hda_ldda:"hda",metadata:null},initialize:function(){if(!this.get("metadata")){this._set_metadata()}this.on("change",this._set_metadata,this)},_set_metadata:function(){var n=new h();_.each(_.keys(this.attributes),function(o){if(o.indexOf("metadata_")===0){var p=o.split("metadata_")[1];n.set(p,this.attributes[o]);delete this.attributes[o]}},this);this.set("metadata",n,{silent:true})},get_metadata:function(n){return this.attributes.metadata.get(n)},urlRoot:galaxy_config.root+"api/datasets"});var i=b.extend({defaults:_.extend({},b.prototype.defaults,{chunk_url:null,first_data_chunk:null,chunk_index:-1,at_eof:false}),initialize:function(n){b.prototype.initialize.call(this);this.attributes.chunk_index=(this.attributes.first_data_chunk?1:0);this.attributes.chunk_url=galaxy_config.root+"dataset/display?dataset_id="+this.id;this.attributes.url_viz=galaxy_config.root+"visualization"},get_next_chunk:function(){if(this.attributes.at_eof){return null}var n=this,o=$.Deferred();$.getJSON(this.attributes.chunk_url,{chunk:n.attributes.chunk_index++}).success(function(p){var q;if(p.ck_data!==""){q=p}else{n.attributes.at_eof=true;q=null}o.resolve(q)});return o}});var e=Backbone.Collection.extend({model:b});var a=Backbone.View.extend({initialize:function(n){this.row_count=0;this.loading_chunk=false;this.header_color="#AAA";this.dark_row_color="#DDD";new d({model:n.model,$el:this.$el})},expand_to_container:function(){if(this.$el.height()<this.scroll_elt.height()){this.attempt_to_fetch()}},attempt_to_fetch:function(o){var n=this;if(!this.loading_chunk&&this.scrolled_to_bottom()){this.loading_chunk=true;this.loading_indicator.show();$.when(n.model.get_next_chunk()).then(function(p){if(p){n._renderChunk(p);n.loading_chunk=false}n.loading_indicator.hide();n.expand_to_container()})}},render:function(){this.loading_indicator=$("<div/>").attr("id","loading_indicator");this.$el.append(this.loading_indicator);var q=$("<table/>").attr({id:"content_table",cellpadding:0});this.$el.append(q);var n=this.model.get_metadata("column_names"),r=$("<tr/>").css("background-color",this.header_color).appendTo(q);if(n){r.append("<th>"+n.join("</th><th>")+"</th>")}var p=this,o=this.model.get("first_data_chunk");if(o){this._renderChunk(o)}else{$.when(p.model.get_next_chunk()).then(function(s){p._renderChunk(s)})}this.scroll_elt.scroll(function(){p.attempt_to_fetch()})},scrolled_to_bottom:function(){return false},_renderCell:function(q,n,r){var o=$("<td>").text(q);var p=this.model.get_metadata("column_types");if(r!==undefined){o.attr("colspan",r).addClass("stringalign")}else{if(p){if(n<p.length){if(p[n]==="str"||p[n]==="list"){o.addClass("stringalign")}}}}return o},_renderRow:function(n){var o=n.split("\t"),q=$("<tr>"),p=this.model.get_metadata("columns");if(this.row_count%2!==0){q.css("background-color",this.dark_row_color)}if(o.length===p){_.each(o,function(s,r){q.append(this._renderCell(s,r))},this)}else{if(o.length>p){_.each(o.slice(0,p-1),function(s,r){q.append(this._renderCell(s,r))},this);q.append(this._renderCell(o.slice(p-1).join("\t"),p-1))}else{if(p>5&&o.length===p-1){_.each(o,function(s,r){q.append(this._renderCell(s,r))},this);q.append($("<td>"))}else{q.append(this._renderCell(n,0,p))}}}this.row_count++;return q},_renderChunk:function(n){var o=this.$el.find("table");_.each(n.ck_data.split("\n"),function(p,q){if(p!==""){o.append(this._renderRow(p))}},this)}});var g=a.extend({initialize:function(n){a.prototype.initialize.call(this,n);scroll_elt=_.find(this.$el.parents(),function(o){return $(o).css("overflow")==="auto"});if(!scroll_elt){scroll_elt=window}this.scroll_elt=$(scroll_elt)},scrolled_to_bottom:function(){return(this.$el.height()-this.scroll_elt.scrollTop()-this.scroll_elt.height()<=0)}});var m=a.extend({initialize:function(n){a.prototype.initialize.call(this,n);this.scroll_elt=this.$el.css({position:"relative",overflow:"scroll",height:this.options.height||"500px"})},scrolled_to_bottom:function(){return this.$el.scrollTop()+this.$el.innerHeight()>=this.el.scrollHeight}});var d=Backbone.View.extend({col:{chrom:null,start:null,end:null},url_viz:null,dataset_id:null,genome_build:null,file_ext:null,initialize:function(p){var s=parent.Galaxy;if(s&&s.modal){this.modal=s.modal}if(s&&s.frame){this.frame=s.frame}if(!this.modal||!this.frame){return}var o=p.model;var r=o.get("metadata");if(!o.get("file_ext")){return}this.file_ext=o.get("file_ext");if(this.file_ext=="bed"){if(r.get("chromCol")&&r.get("startCol")&&r.get("endCol")){this.col.chrom=r.get("chromCol")-1;this.col.start=r.get("startCol")-1;this.col.end=r.get("endCol")-1}else{console.log("TabularButtonTrackster : Bed-file metadata incomplete.");return}}if(this.file_ext=="vcf"){function q(u,v){for(var t=0;t<v.length;t++){if(v[t].match(u)){return t}}return -1}this.col.chrom=q("Chrom",r.get("column_names"));this.col.start=q("Pos",r.get("column_names"));this.col.end=null;if(this.col.chrom==-1||this.col.start==-1){console.log("TabularButtonTrackster : VCF-file metadata incomplete.");return}}if(this.col.chrom===undefined){return}if(o.id){this.dataset_id=o.id}else{console.log("TabularButtonTrackster : Dataset identification is missing.");return}if(o.get("url_viz")){this.url_viz=o.get("url_viz")}else{console.log("TabularButtonTrackster : Url for visualization controller is missing.");return}if(o.get("genome_build")){this.genome_build=o.get("genome_build")}var n=new f.IconButtonView({model:new f.IconButton({title:"Visualize",icon_class:"chart_curve",id:"btn_viz"})});this.setElement(p.$el);this.$el.append(n.render().$el);this.hide()},events:{"mouseover tr":"show",mouseleave:"hide"},show:function(s){function r(x){return !isNaN(parseFloat(x))&&isFinite(x)}if(this.col.chrom===null){return}var w=$(s.target).parent();var t=w.children().eq(this.col.chrom).html();var n=w.children().eq(this.col.start).html();var p=this.col.end?w.children().eq(this.col.end).html():n;if(!t.match("^#")&&t!==""&&r(n)){var v={dataset_id:this.dataset_id,gene_region:t+":"+n+"-"+p};var q=w.offset();var o=q.left-10;var u=q.top-$(window).scrollTop()+3;$("#btn_viz").css({position:"fixed",top:u+"px",left:o+"px"});$("#btn_viz").off("click");$("#btn_viz").click(this.create_trackster_action(this.url_viz,v,this.genome_build));$("#btn_viz").show()}else{$("#btn_viz").hide()}},hide:function(){this.$el.find("#btn_viz").hide()},create_trackster_action:function(n,q,p){var o=this;return function(){var r={};if(p){r["f-dbkey"]=p}$.ajax({url:n+"/list_tracks?"+$.param(r),dataType:"html",error:function(){o.modal.show({title:"Something went wrong!",body:"Unfortunately we could not add this dataset to the track browser. Please try again or contact us.",buttons:{Cancel:function(){o.modal.hide()}}})},success:function(s){o.modal.show({title:"View Data in a New or Saved Visualization",buttons:{Cancel:function(){o.modal.hide()},"View in saved visualization":function(){o.modal.show({title:"Add Data to Saved Visualization",body:s,buttons:{Cancel:function(){o.modal.hide()},"Add to visualization":function(){o.modal.hide();o.modal.$el.find("input[name=id]:checked").each(function(){var t=$(this).val();q.id=t;o.frame.add({title:"Trackster",type:"url",content:n+"/trackster?"+$.param(q)})})}}})},"View in new visualization":function(){o.modal.hide();o.frame.add({title:"Trackster",type:"url",content:n+"/trackster?"+$.param(q)})}}})}});return false}}});var l=function(q,o,r,n){var p=new o({model:new q(r)});p.render();if(n){n.append(p.$el)}return p};var c=function(p){if(!p.model){p.model=new i(p.dataset_config)}var o=p.parent_elt;var q=p.embedded;delete p.embedded;delete p.parent_elt;delete p.dataset_config;var n=(q?new m(p):new g(p));n.render();if(o){o.append(n.$el);n.expand_to_container()}return n};return{Dataset:b,TabularDataset:i,DatasetCollection:e,TabularDatasetChunkedView:a,createTabularDatasetChunkedView:c}}); \ No newline at end of file diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/packed/mvc/ui.js --- a/static/scripts/packed/mvc/ui.js +++ /dev/null @@ -1,1 +0,0 @@ -var IconButton=Backbone.Model.extend({defaults:{title:"",icon_class:"",on_click:null,menu_options:null,is_menu_button:true,id:null,href:null,target:null,enabled:true,visible:true,tooltip_config:{}}});var IconButtonView=Backbone.View.extend({initialize:function(){this.model.attributes.tooltip_config={placement:"bottom"};this.model.bind("change",this.render,this)},render:function(){this.$el.tooltip("hide");var a=this.template(this.model.toJSON());a.tooltip(this.model.get("tooltip_config"));this.$el.replaceWith(a);this.setElement(a);return this},events:{click:"click"},click:function(a){if(_.isFunction(this.model.get("on_click"))){this.model.get("on_click")(a);return false}return true},template:function(b){var a='title="'+b.title+'" class="icon-button';if(b.is_menu_button){a+=" menu-button"}a+=" "+b.icon_class;if(!b.enabled){a+="_disabled"}a+='"';if(b.id){a+=' id="'+b.id+'"'}a+=' href="'+b.href+'"';if(b.target){a+=' target="'+b.target+'"'}if(!b.visible){a+=' style="display: none;"'}if(b.enabled){a="<a "+a+"/>"}else{a="<span "+a+"/>"}return $(a)}});var IconButtonCollection=Backbone.Collection.extend({model:IconButton});var IconButtonMenuView=Backbone.View.extend({tagName:"div",initialize:function(){this.render()},render:function(){var a=this;this.collection.each(function(d){var b=$("<a/>").attr("href","javascript:void(0)").attr("title",d.attributes.title).addClass("icon-button menu-button").addClass(d.attributes.icon_class).appendTo(a.$el).click(d.attributes.on_click);if(d.attributes.tooltip_config){b.tooltip(d.attributes.tooltip_config)}var c=d.get("options");if(c){make_popupmenu(b,c)}});return this}});var create_icon_buttons_menu=function(b,a){if(!a){a={}}var c=new IconButtonCollection(_.map(b,function(d){return new IconButton(_.extend(d,a))}));return new IconButtonMenuView({collection:c})}; \ No newline at end of file diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/packed/mvc/ui/icon-button.js --- /dev/null +++ b/static/scripts/packed/mvc/ui/icon-button.js @@ -0,0 +1,1 @@ +define([],function(){var e=Backbone.Model.extend({defaults:{title:"",icon_class:"",on_click:null,menu_options:null,is_menu_button:true,id:null,href:null,target:null,enabled:true,visible:true,tooltip_config:{}}});var d=Backbone.View.extend({initialize:function(){this.model.attributes.tooltip_config={placement:"bottom"};this.model.bind("change",this.render,this)},render:function(){this.$el.tooltip("hide");var f=this.template(this.model.toJSON());f.tooltip(this.model.get("tooltip_config"));this.$el.replaceWith(f);this.setElement(f);return this},events:{click:"click"},click:function(f){if(_.isFunction(this.model.get("on_click"))){this.model.get("on_click")(f);return false}return true},template:function(g){var f='title="'+g.title+'" class="icon-button';if(g.is_menu_button){f+=" menu-button"}f+=" "+g.icon_class;if(!g.enabled){f+="_disabled"}f+='"';if(g.id){f+=' id="'+g.id+'"'}f+=' href="'+g.href+'"';if(g.target){f+=' target="'+g.target+'"'}if(!g.visible){f+=' style="display: none;"'}if(g.enabled){f="<a "+f+"/>"}else{f="<span "+f+"/>"}return $(f)}});var a=Backbone.Collection.extend({model:e});var b=Backbone.View.extend({tagName:"div",initialize:function(){this.render()},render:function(){var f=this;this.collection.each(function(i){var g=$("<a/>").attr("href","javascript:void(0)").attr("title",i.attributes.title).addClass("icon-button menu-button").addClass(i.attributes.icon_class).appendTo(f.$el).click(i.attributes.on_click);if(i.attributes.tooltip_config){g.tooltip(i.attributes.tooltip_config)}var h=i.get("options");if(h){make_popupmenu(g,h)}});return this}});var c=function(g,f){if(!f){f={}}var h=new a(_.map(g,function(i){return new e(_.extend(i,f))}));return new b({collection:h})};return{IconButton:e,IconButtonView:d,IconButtonCollection:a,IconButtonMenuView:b,create_icon_buttons_menu:c}}); \ No newline at end of file diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/packed/viz/circster.js --- a/static/scripts/packed/viz/circster.js +++ b/static/scripts/packed/viz/circster.js @@ -1,1 +1,1 @@ -require(["utils/utils","libs/farbtastic",],function(a){a.cssLoadFile("static/style/circster.css")});define(["libs/underscore","libs/d3","viz/visualization","utils/config"],function(h,m,j,c){var n=Backbone.Model.extend({is_visible:function(r,o){var p=r.getBoundingClientRect(),q=$("svg")[0].getBoundingClientRect();if(p.right<0||p.left>q.right||p.bottom<0||p.top>q.bottom){return false}return true}});var i={drawTicks:function(s,r,w,q,o){var v=s.append("g").selectAll("g").data(r).enter().append("g").selectAll("g").data(w).enter().append("g").attr("class","tick").attr("transform",function(x){return"rotate("+(x.angle*180/Math.PI-90)+")translate("+x.radius+",0)"});var u=[],t=[],p=function(x){return x.angle>Math.PI?"end":null};if(o){u=[0,0,0,-4];t=[4,0,"",".35em"];p=null}else{u=[1,0,4,0];t=[0,4,".35em",""]}v.append("line").attr("x1",u[0]).attr("y1",u[1]).attr("x2",u[2]).attr("y1",u[3]).style("stroke","#000");return v.append("text").attr("x",t[0]).attr("y",t[1]).attr("dx",t[2]).attr("dy",t[3]).attr("text-anchor",p).attr("transform",q).text(function(x){return x.label})},formatNum:function(p,o){if(o===undefined){o=2}if(p===null){return null}var r=null;if(Math.abs(p)<1){r=p.toPrecision(o)}else{var q=Math.round(p.toPrecision(o));p=Math.abs(p);if(p<1000){r=q}else{if(p<1000000){r=Math.round((q/1000).toPrecision(3)).toFixed(0)+"K"}else{if(p<1000000000){r=Math.round((q/1000000).toPrecision(3)).toFixed(0)+"M"}}}}return r}};var d=Backbone.Model.extend({});var a=Backbone.View.extend({className:"circster",initialize:function(o){this.genome=o.genome;this.label_arc_height=50;this.scale=1;this.circular_views=null;this.chords_views=null;this.model.get("drawables").on("add",this.add_track,this);this.model.get("drawables").on("remove",this.remove_track,this);var p=this.model.get("config");p.get("arc_dataset_height").on("change:value",this.update_track_bounds,this);p.get("track_gap").on("change:value",this.update_track_bounds,this)},get_circular_tracks:function(){return this.model.get("drawables").filter(function(o){return o.get("track_type")!=="DiagonalHeatmapTrack"})},get_chord_tracks:function(){return this.model.get("drawables").filter(function(o){return o.get("track_type")==="DiagonalHeatmapTrack"})},get_tracks_bounds:function(){var q=this.get_circular_tracks(),s=this.model.get("config").get_value("arc_dataset_height"),r=this.model.get("config").get_value("track_gap"),o=Math.min(this.$el.width(),this.$el.height())-20,u=o/2-q.length*(s+r)+r-this.label_arc_height,t=m.range(u,o/2,s+r);var p=this;return h.map(t,function(v){return[v,v+s]})},render:function(){var x=this,o=x.$el.width(),w=x.$el.height(),t=this.get_circular_tracks(),r=this.get_chord_tracks(),q=x.model.get("config").get_value("total_gap"),s=this.get_tracks_bounds(),p=m.select(x.$el[0]).append("svg").attr("width",o).attr("height",w).attr("pointer-events","all").append("svg:g").call(m.behavior.zoom().on("zoom",function(){var y=m.event.scale;p.attr("transform","translate("+m.event.translate+") scale("+y+")");if(x.scale!==y){if(x.zoom_drag_timeout){clearTimeout(x.zoom_drag_timeout)}x.zoom_drag_timeout=setTimeout(function(){},400)}})).attr("transform","translate("+o/2+","+w/2+")").append("svg:g").attr("class","tracks");this.circular_views=t.map(function(z,A){var y=new e({el:p.append("g")[0],track:z,radius_bounds:s[A],genome:x.genome,total_gap:q});y.render();return y});this.chords_views=r.map(function(z){var y=new k({el:p.append("g")[0],track:z,radius_bounds:s[0],genome:x.genome,total_gap:q});y.render();return y});var v=this.circular_views[this.circular_views.length-1].radius_bounds[1],u=[v,v+this.label_arc_height];this.label_track_view=new b({el:p.append("g")[0],track:new d(),radius_bounds:u,genome:x.genome,total_gap:q});this.label_track_view.render()},add_track:function(u){var p=this.model.get("config").get_value("total_gap");if(u.get("track_type")==="DiagonalHeatmapTrack"){var q=this.circular_views[0].radius_bounds,t=new k({el:m.select("g.tracks").append("g")[0],track:u,radius_bounds:q,genome:this.genome,total_gap:p});t.render();this.chords_views.push(t)}else{var s=this.get_tracks_bounds();h.each(this.circular_views,function(v,w){v.update_radius_bounds(s[w])});h.each(this.chords_views,function(v){v.update_radius_bounds(s[0])});var r=this.circular_views.length,o=new e({el:m.select("g.tracks").append("g")[0],track:u,radius_bounds:s[r],genome:this.genome,total_gap:p});o.render();this.circular_views.push(o)}},remove_track:function(p,r,q){var o=this.circular_views[q.index];this.circular_views.splice(q.index,1);o.$el.remove();var s=this.get_tracks_bounds();h.each(this.circular_views,function(t,u){t.update_radius_bounds(s[u])})},update_track_bounds:function(){var o=this.get_tracks_bounds();h.each(this.circular_views,function(p,q){p.update_radius_bounds(o[q])});h.each(this.chords_views,function(p){p.update_radius_bounds(o[0])})}});var l=Backbone.View.extend({tagName:"g",initialize:function(o){this.bg_stroke="#ddd";this.loading_bg_fill="#ffc";this.bg_fill="#ddd";this.total_gap=o.total_gap;this.track=o.track;this.radius_bounds=o.radius_bounds;this.genome=o.genome;this.chroms_layout=this._chroms_layout();this.data_bounds=[];this.scale=1;this.parent_elt=m.select(this.$el[0])},get_fill_color:function(){var o=this.track.get("config").get_value("block_color");if(!o){o=this.track.get("config").get_value("color")}return o},render:function(){var s=this.parent_elt;var r=this.chroms_layout,u=m.svg.arc().innerRadius(this.radius_bounds[0]).outerRadius(this.radius_bounds[1]),o=s.selectAll("g").data(r).enter().append("svg:g"),q=o.append("path").attr("d",u).attr("class","chrom-background").style("stroke",this.bg_stroke).style("fill",this.loading_bg_fill);q.append("title").text(function(w){return w.data.chrom});var p=this,t=p.track.get("data_manager"),v=(t?t.data_is_ready():true);$.when(v).then(function(){$.when(p._render_data(s)).then(function(){q.style("fill",p.bg_fill);p.render_labels()})})},render_labels:function(){},update_radius_bounds:function(p){this.radius_bounds=p;var o=m.svg.arc().innerRadius(this.radius_bounds[0]).outerRadius(this.radius_bounds[1]);this.parent_elt.selectAll("g>path.chrom-background").transition().duration(1000).attr("d",o);this._transition_chrom_data();this._transition_labels()},update_scale:function(r){var q=this.scale;this.scale=r;if(r<=q){return}var p=this,o=new n();this.parent_elt.selectAll("path.chrom-data").filter(function(t,s){return o.is_visible(this)}).each(function(y,u){var x=m.select(this),t=x.attr("chrom"),w=p.genome.get_chrom_region(t),v=p.track.get("data_manager"),s;if(!v.can_get_more_detailed_data(w)){return}s=p.track.get("data_manager").get_more_detailed_data(w,"Coverage",0,r);$.when(s).then(function(B){x.remove();p._update_data_bounds();var A=h.find(p.chroms_layout,function(C){return C.data.chrom===t});var z=p.get_fill_color();p._render_chrom_data(p.parent_elt,A,B).style("stroke",z).style("fill",z)})});return p},_transition_chrom_data:function(){var p=this.track,r=this.chroms_layout,o=this.parent_elt.selectAll("g>path.chrom-data"),s=o[0].length;if(s>0){var q=this;$.when(p.get("data_manager").get_genome_wide_data(this.genome)).then(function(v){var u=h.reject(h.map(v,function(w,x){var y=null,z=q._get_path_function(r[x],w);if(z){y=z(w.data)}return y}),function(w){return w===null});var t=p.get("config").get_value("color");o.each(function(x,w){m.select(this).transition().duration(1000).style("stroke",t).style("fill",t).attr("d",u[w])})})}},_transition_labels:function(){},_update_data_bounds:function(p){var o=this.data_bounds;this.data_bounds=p||this.get_data_bounds(this.track.get("data_manager").get_genome_wide_data(this.genome));this._transition_chrom_data()},_render_data:function(r){var q=this,p=this.chroms_layout,o=this.track,s=$.Deferred();$.when(o.get("data_manager").get_genome_wide_data(this.genome)).then(function(u){q.data_bounds=q.get_data_bounds(u);o.get("config").set_value("min_value",q.data_bounds[0],{silent:true});o.get("config").set_value("max_value",q.data_bounds[1],{silent:true});layout_and_data=h.zip(p,u),chroms_data_layout=h.map(layout_and_data,function(v){var w=v[0],x=v[1];return q._render_chrom_data(r,w,x)});var t=q.get_fill_color();q.parent_elt.selectAll("path.chrom-data").style("stroke",t).style("fill",t);s.resolve(r)});return s},_render_chrom_data:function(o,p,q){},_get_path_function:function(p,o){},_chroms_layout:function(){var p=this.genome.get_chroms_info(),r=m.layout.pie().value(function(t){return t.len}).sort(null),s=r(p),o=2*Math.PI*this.total_gap/p.length,q=h.map(s,function(v,u){var t=v.endAngle-o;v.endAngle=(t>v.startAngle?t:v.startAngle);return v});return q}});var b=l.extend({initialize:function(o){l.prototype.initialize.call(this,o);this.innerRadius=this.radius_bounds[0];this.radius_bounds[0]=this.radius_bounds[1];this.bg_stroke="#fff";this.bg_fill="#fff";this.min_arc_len=0.05},_render_data:function(q){var p=this,o=q.selectAll("g");o.selectAll("path").attr("id",function(u){return"label-"+u.data.chrom});o.append("svg:text").filter(function(u){return u.endAngle-u.startAngle>p.min_arc_len}).attr("text-anchor","middle").append("svg:textPath").attr("class","chrom-label").attr("xlink:href",function(u){return"#label-"+u.data.chrom}).attr("startOffset","25%").text(function(u){return u.data.chrom});var r=function(w){var u=(w.endAngle-w.startAngle)/w.value,v=m.range(0,w.value,25000000).map(function(x,y){return{radius:p.innerRadius,angle:x*u+w.startAngle,label:y===0?0:(y%3?null:p.formatNum(x))}});if(v.length<4){v[v.length-1].label=p.formatNum(Math.round((v[v.length-1].angle-w.startAngle)/u))}return v};var t=function(u){return u.angle>Math.PI?"rotate(180)translate(-16)":null};var s=h.filter(this.chroms_layout,function(u){return u.endAngle-u.startAngle>p.min_arc_len});this.drawTicks(this.parent_elt,s,r,t)}});h.extend(b.prototype,i);var g=l.extend({initialize:function(o){l.prototype.initialize.call(this,o);var p=this.track.get("config");p.get("min_value").on("change:value",this._update_min_max,this);p.get("max_value").on("change:value",this._update_min_max,this);p.get("color").on("change:value",this._transition_chrom_data,this)},_update_min_max:function(){var p=this.track.get("config"),o=[p.get_value("min_value"),p.get_value("max_value")];this._update_data_bounds(o);this.parent_elt.selectAll(".min_max").text(function(r,q){return o[q]})},_quantile:function(p,o){p.sort(m.ascending);return m.quantile(p,o)},_render_chrom_data:function(o,r,p){var s=this._get_path_function(r,p);if(!s){return null}var q=o.datum(p.data),t=q.append("path").attr("class","chrom-data").attr("chrom",r.data.chrom).attr("d",s);return t},_get_path_function:function(r,q){if(typeof q==="string"||!q.data||q.data.length===0){return null}var o=m.scale.linear().domain(this.data_bounds).range(this.radius_bounds).clamp(true);var s=m.scale.linear().domain([0,q.data.length]).range([r.startAngle,r.endAngle]);var p=m.svg.line.radial().interpolate("linear").radius(function(t){return o(t[1])}).angle(function(u,t){return s(t)});return m.svg.area.radial().interpolate(p.interpolate()).innerRadius(o(0)).outerRadius(p.radius()).angle(p.angle())},render_labels:function(){var o=this,q=function(){return"rotate(90)"};var p=this.drawTicks(this.parent_elt,[this.chroms_layout[0]],this._data_bounds_ticks_fn(),q,true).classed("min_max",true);h.each(p,function(r){$(r).click(function(){var s=new c.ConfigSettingCollectionView({collection:o.track.get("config")});s.render_in_modal("Configure Track")})})},_transition_labels:function(){if(this.data_bounds.length===0){return}var p=this,r=h.filter(this.chroms_layout,function(s){return s.endAngle-s.startAngle>0.08}),q=h.filter(r,function(t,s){return s%3===0}),o=h.flatten(h.map(q,function(s){return p._data_bounds_ticks_fn()(s)}));this.parent_elt.selectAll("g.tick").data(o).transition().attr("transform",function(s){return"rotate("+(s.angle*180/Math.PI-90)+")translate("+s.radius+",0)"})},_data_bounds_ticks_fn:function(){var o=this;visibleChroms=0;return function(p){return[{radius:o.radius_bounds[0],angle:p.startAngle,label:o.formatNum(o.data_bounds[0])},{radius:o.radius_bounds[1],angle:p.startAngle,label:o.formatNum(o.data_bounds[1])}]}},get_data_bounds:function(o){}});h.extend(g.prototype,i);var e=g.extend({get_data_bounds:function(p){var o=h.flatten(h.map(p,function(q){if(q){return h.map(q.data,function(r){return parseInt(r[1],10)||0})}else{return 0}}));return[h.min(o),this._quantile(o,0.98)||h.max(o)]}});var k=l.extend({render:function(){var o=this;$.when(o.track.get("data_manager").data_is_ready()).then(function(){$.when(o.track.get("data_manager").get_genome_wide_data(o.genome)).then(function(r){var q=[],p=o.genome.get_chroms_info();h.each(r,function(v,u){var s=p[u].chrom;var t=h.map(v.data,function(x){var w=o._get_region_angle(s,x[1]),y=o._get_region_angle(x[3],x[4]);return{source:{startAngle:w,endAngle:w+0.01},target:{startAngle:y,endAngle:y+0.01}}});q=q.concat(t)});o.parent_elt.append("g").attr("class","chord").selectAll("path").data(q).enter().append("path").style("fill",o.get_fill_color()).attr("d",m.svg.chord().radius(o.radius_bounds[0])).style("opacity",1)})})},update_radius_bounds:function(o){this.radius_bounds=o;this.parent_elt.selectAll("path").transition().attr("d",m.svg.chord().radius(this.radius_bounds[0]))},_get_region_angle:function(q,o){var p=h.find(this.chroms_layout,function(r){return r.data.chrom===q});return p.endAngle-((p.endAngle-p.startAngle)*(p.data.len-o)/p.data.len)}});var f=Backbone.View.extend({initialize:function(){var o=new j.Genome(galaxy_config.app.genome),p=new j.GenomeVisualization(galaxy_config.app.viz_config);p.get("config").add([{key:"arc_dataset_height",label:"Arc Dataset Height",type:"int",value:25,view:"circster"},{key:"track_gap",label:"Gap Between Tracks",type:"int",value:5,view:"circster"},{key:"total_gap",label:"Gap [0-1]",type:"float",value:0.4,view:"circster",hidden:true}]);var r=new a({el:$("#center .unified-panel-body"),genome:o,model:p});r.render();$("#center .unified-panel-header-inner").append(galaxy_config.app.viz_config.title+" "+galaxy_config.app.viz_config.dbkey);var q=create_icon_buttons_menu([{icon_class:"plus-button",title:"Add tracks",on_click:function(){j.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",p.get("dbkey"),function(s){p.add_tracks(s)})}},{icon_class:"gear",title:"Settings",on_click:function(){var s=new c.ConfigSettingCollectionView({collection:p.get("config")});s.render_in_modal("Configure Visualization")}},{icon_class:"disk--arrow",title:"Save",on_click:function(){Galaxy.modal.show({title:"Saving...",body:"progress"});$.ajax({url:galaxy_config.root+"visualization/save",type:"POST",dataType:"json",data:{id:p.get("vis_id"),title:p.get("title"),dbkey:p.get("dbkey"),type:"trackster",vis_json:JSON.stringify(p)}}).success(function(s){Galaxy.modal.hide();p.set("vis_id",s.vis_id)}).error(function(){Galaxy.modal.show({title:"Could Not Save",body:"Could not save visualization. Please try again later.",buttons:{Cancel:function(){Galaxy.modal.hide()}}})})}},{icon_class:"cross-circle",title:"Close",on_click:function(){window.location=galaxy_config.root+"visualization/list"}}],{tooltip_config:{placement:"bottom"}});q.$el.attr("style","float: right");$("#center .unified-panel-header-inner").append(q.$el);$(".menu-button").tooltip({placement:"bottom"})}});return{GalaxyApp:f}}); \ No newline at end of file +require(["utils/utils","mvc/ui/icon-button","libs/farbtastic",],function(b,a){b.cssLoadFile("static/style/circster.css")});define(["libs/underscore","libs/d3","viz/visualization","utils/config"],function(h,m,j,c){var n=Backbone.Model.extend({is_visible:function(r,o){var p=r.getBoundingClientRect(),q=$("svg")[0].getBoundingClientRect();if(p.right<0||p.left>q.right||p.bottom<0||p.top>q.bottom){return false}return true}});var i={drawTicks:function(s,r,w,q,o){var v=s.append("g").selectAll("g").data(r).enter().append("g").selectAll("g").data(w).enter().append("g").attr("class","tick").attr("transform",function(x){return"rotate("+(x.angle*180/Math.PI-90)+")translate("+x.radius+",0)"});var u=[],t=[],p=function(x){return x.angle>Math.PI?"end":null};if(o){u=[0,0,0,-4];t=[4,0,"",".35em"];p=null}else{u=[1,0,4,0];t=[0,4,".35em",""]}v.append("line").attr("x1",u[0]).attr("y1",u[1]).attr("x2",u[2]).attr("y1",u[3]).style("stroke","#000");return v.append("text").attr("x",t[0]).attr("y",t[1]).attr("dx",t[2]).attr("dy",t[3]).attr("text-anchor",p).attr("transform",q).text(function(x){return x.label})},formatNum:function(p,o){if(o===undefined){o=2}if(p===null){return null}var r=null;if(Math.abs(p)<1){r=p.toPrecision(o)}else{var q=Math.round(p.toPrecision(o));p=Math.abs(p);if(p<1000){r=q}else{if(p<1000000){r=Math.round((q/1000).toPrecision(3)).toFixed(0)+"K"}else{if(p<1000000000){r=Math.round((q/1000000).toPrecision(3)).toFixed(0)+"M"}}}}return r}};var d=Backbone.Model.extend({});var a=Backbone.View.extend({className:"circster",initialize:function(o){this.genome=o.genome;this.label_arc_height=50;this.scale=1;this.circular_views=null;this.chords_views=null;this.model.get("drawables").on("add",this.add_track,this);this.model.get("drawables").on("remove",this.remove_track,this);var p=this.model.get("config");p.get("arc_dataset_height").on("change:value",this.update_track_bounds,this);p.get("track_gap").on("change:value",this.update_track_bounds,this)},get_circular_tracks:function(){return this.model.get("drawables").filter(function(o){return o.get("track_type")!=="DiagonalHeatmapTrack"})},get_chord_tracks:function(){return this.model.get("drawables").filter(function(o){return o.get("track_type")==="DiagonalHeatmapTrack"})},get_tracks_bounds:function(){var q=this.get_circular_tracks(),s=this.model.get("config").get_value("arc_dataset_height"),r=this.model.get("config").get_value("track_gap"),o=Math.min(this.$el.width(),this.$el.height())-20,u=o/2-q.length*(s+r)+r-this.label_arc_height,t=m.range(u,o/2,s+r);var p=this;return h.map(t,function(v){return[v,v+s]})},render:function(){var x=this,o=x.$el.width(),w=x.$el.height(),t=this.get_circular_tracks(),r=this.get_chord_tracks(),q=x.model.get("config").get_value("total_gap"),s=this.get_tracks_bounds(),p=m.select(x.$el[0]).append("svg").attr("width",o).attr("height",w).attr("pointer-events","all").append("svg:g").call(m.behavior.zoom().on("zoom",function(){var y=m.event.scale;p.attr("transform","translate("+m.event.translate+") scale("+y+")");if(x.scale!==y){if(x.zoom_drag_timeout){clearTimeout(x.zoom_drag_timeout)}x.zoom_drag_timeout=setTimeout(function(){},400)}})).attr("transform","translate("+o/2+","+w/2+")").append("svg:g").attr("class","tracks");this.circular_views=t.map(function(z,A){var y=new e({el:p.append("g")[0],track:z,radius_bounds:s[A],genome:x.genome,total_gap:q});y.render();return y});this.chords_views=r.map(function(z){var y=new k({el:p.append("g")[0],track:z,radius_bounds:s[0],genome:x.genome,total_gap:q});y.render();return y});var v=this.circular_views[this.circular_views.length-1].radius_bounds[1],u=[v,v+this.label_arc_height];this.label_track_view=new b({el:p.append("g")[0],track:new d(),radius_bounds:u,genome:x.genome,total_gap:q});this.label_track_view.render()},add_track:function(u){var p=this.model.get("config").get_value("total_gap");if(u.get("track_type")==="DiagonalHeatmapTrack"){var q=this.circular_views[0].radius_bounds,t=new k({el:m.select("g.tracks").append("g")[0],track:u,radius_bounds:q,genome:this.genome,total_gap:p});t.render();this.chords_views.push(t)}else{var s=this.get_tracks_bounds();h.each(this.circular_views,function(v,w){v.update_radius_bounds(s[w])});h.each(this.chords_views,function(v){v.update_radius_bounds(s[0])});var r=this.circular_views.length,o=new e({el:m.select("g.tracks").append("g")[0],track:u,radius_bounds:s[r],genome:this.genome,total_gap:p});o.render();this.circular_views.push(o)}},remove_track:function(p,r,q){var o=this.circular_views[q.index];this.circular_views.splice(q.index,1);o.$el.remove();var s=this.get_tracks_bounds();h.each(this.circular_views,function(t,u){t.update_radius_bounds(s[u])})},update_track_bounds:function(){var o=this.get_tracks_bounds();h.each(this.circular_views,function(p,q){p.update_radius_bounds(o[q])});h.each(this.chords_views,function(p){p.update_radius_bounds(o[0])})}});var l=Backbone.View.extend({tagName:"g",initialize:function(o){this.bg_stroke="#ddd";this.loading_bg_fill="#ffc";this.bg_fill="#ddd";this.total_gap=o.total_gap;this.track=o.track;this.radius_bounds=o.radius_bounds;this.genome=o.genome;this.chroms_layout=this._chroms_layout();this.data_bounds=[];this.scale=1;this.parent_elt=m.select(this.$el[0])},get_fill_color:function(){var o=this.track.get("config").get_value("block_color");if(!o){o=this.track.get("config").get_value("color")}return o},render:function(){var s=this.parent_elt;var r=this.chroms_layout,u=m.svg.arc().innerRadius(this.radius_bounds[0]).outerRadius(this.radius_bounds[1]),o=s.selectAll("g").data(r).enter().append("svg:g"),q=o.append("path").attr("d",u).attr("class","chrom-background").style("stroke",this.bg_stroke).style("fill",this.loading_bg_fill);q.append("title").text(function(w){return w.data.chrom});var p=this,t=p.track.get("data_manager"),v=(t?t.data_is_ready():true);$.when(v).then(function(){$.when(p._render_data(s)).then(function(){q.style("fill",p.bg_fill);p.render_labels()})})},render_labels:function(){},update_radius_bounds:function(p){this.radius_bounds=p;var o=m.svg.arc().innerRadius(this.radius_bounds[0]).outerRadius(this.radius_bounds[1]);this.parent_elt.selectAll("g>path.chrom-background").transition().duration(1000).attr("d",o);this._transition_chrom_data();this._transition_labels()},update_scale:function(r){var q=this.scale;this.scale=r;if(r<=q){return}var p=this,o=new n();this.parent_elt.selectAll("path.chrom-data").filter(function(t,s){return o.is_visible(this)}).each(function(y,u){var x=m.select(this),t=x.attr("chrom"),w=p.genome.get_chrom_region(t),v=p.track.get("data_manager"),s;if(!v.can_get_more_detailed_data(w)){return}s=p.track.get("data_manager").get_more_detailed_data(w,"Coverage",0,r);$.when(s).then(function(B){x.remove();p._update_data_bounds();var A=h.find(p.chroms_layout,function(C){return C.data.chrom===t});var z=p.get_fill_color();p._render_chrom_data(p.parent_elt,A,B).style("stroke",z).style("fill",z)})});return p},_transition_chrom_data:function(){var p=this.track,r=this.chroms_layout,o=this.parent_elt.selectAll("g>path.chrom-data"),s=o[0].length;if(s>0){var q=this;$.when(p.get("data_manager").get_genome_wide_data(this.genome)).then(function(v){var u=h.reject(h.map(v,function(w,x){var y=null,z=q._get_path_function(r[x],w);if(z){y=z(w.data)}return y}),function(w){return w===null});var t=p.get("config").get_value("color");o.each(function(x,w){m.select(this).transition().duration(1000).style("stroke",t).style("fill",t).attr("d",u[w])})})}},_transition_labels:function(){},_update_data_bounds:function(p){var o=this.data_bounds;this.data_bounds=p||this.get_data_bounds(this.track.get("data_manager").get_genome_wide_data(this.genome));this._transition_chrom_data()},_render_data:function(r){var q=this,p=this.chroms_layout,o=this.track,s=$.Deferred();$.when(o.get("data_manager").get_genome_wide_data(this.genome)).then(function(u){q.data_bounds=q.get_data_bounds(u);o.get("config").set_value("min_value",q.data_bounds[0],{silent:true});o.get("config").set_value("max_value",q.data_bounds[1],{silent:true});layout_and_data=h.zip(p,u),chroms_data_layout=h.map(layout_and_data,function(v){var w=v[0],x=v[1];return q._render_chrom_data(r,w,x)});var t=q.get_fill_color();q.parent_elt.selectAll("path.chrom-data").style("stroke",t).style("fill",t);s.resolve(r)});return s},_render_chrom_data:function(o,p,q){},_get_path_function:function(p,o){},_chroms_layout:function(){var p=this.genome.get_chroms_info(),r=m.layout.pie().value(function(t){return t.len}).sort(null),s=r(p),o=2*Math.PI*this.total_gap/p.length,q=h.map(s,function(v,u){var t=v.endAngle-o;v.endAngle=(t>v.startAngle?t:v.startAngle);return v});return q}});var b=l.extend({initialize:function(o){l.prototype.initialize.call(this,o);this.innerRadius=this.radius_bounds[0];this.radius_bounds[0]=this.radius_bounds[1];this.bg_stroke="#fff";this.bg_fill="#fff";this.min_arc_len=0.05},_render_data:function(q){var p=this,o=q.selectAll("g");o.selectAll("path").attr("id",function(u){return"label-"+u.data.chrom});o.append("svg:text").filter(function(u){return u.endAngle-u.startAngle>p.min_arc_len}).attr("text-anchor","middle").append("svg:textPath").attr("class","chrom-label").attr("xlink:href",function(u){return"#label-"+u.data.chrom}).attr("startOffset","25%").text(function(u){return u.data.chrom});var r=function(w){var u=(w.endAngle-w.startAngle)/w.value,v=m.range(0,w.value,25000000).map(function(x,y){return{radius:p.innerRadius,angle:x*u+w.startAngle,label:y===0?0:(y%3?null:p.formatNum(x))}});if(v.length<4){v[v.length-1].label=p.formatNum(Math.round((v[v.length-1].angle-w.startAngle)/u))}return v};var t=function(u){return u.angle>Math.PI?"rotate(180)translate(-16)":null};var s=h.filter(this.chroms_layout,function(u){return u.endAngle-u.startAngle>p.min_arc_len});this.drawTicks(this.parent_elt,s,r,t)}});h.extend(b.prototype,i);var g=l.extend({initialize:function(o){l.prototype.initialize.call(this,o);var p=this.track.get("config");p.get("min_value").on("change:value",this._update_min_max,this);p.get("max_value").on("change:value",this._update_min_max,this);p.get("color").on("change:value",this._transition_chrom_data,this)},_update_min_max:function(){var p=this.track.get("config"),o=[p.get_value("min_value"),p.get_value("max_value")];this._update_data_bounds(o);this.parent_elt.selectAll(".min_max").text(function(r,q){return o[q]})},_quantile:function(p,o){p.sort(m.ascending);return m.quantile(p,o)},_render_chrom_data:function(o,r,p){var s=this._get_path_function(r,p);if(!s){return null}var q=o.datum(p.data),t=q.append("path").attr("class","chrom-data").attr("chrom",r.data.chrom).attr("d",s);return t},_get_path_function:function(r,q){if(typeof q==="string"||!q.data||q.data.length===0){return null}var o=m.scale.linear().domain(this.data_bounds).range(this.radius_bounds).clamp(true);var s=m.scale.linear().domain([0,q.data.length]).range([r.startAngle,r.endAngle]);var p=m.svg.line.radial().interpolate("linear").radius(function(t){return o(t[1])}).angle(function(u,t){return s(t)});return m.svg.area.radial().interpolate(p.interpolate()).innerRadius(o(0)).outerRadius(p.radius()).angle(p.angle())},render_labels:function(){var o=this,q=function(){return"rotate(90)"};var p=this.drawTicks(this.parent_elt,[this.chroms_layout[0]],this._data_bounds_ticks_fn(),q,true).classed("min_max",true);h.each(p,function(r){$(r).click(function(){var s=new c.ConfigSettingCollectionView({collection:o.track.get("config")});s.render_in_modal("Configure Track")})})},_transition_labels:function(){if(this.data_bounds.length===0){return}var p=this,r=h.filter(this.chroms_layout,function(s){return s.endAngle-s.startAngle>0.08}),q=h.filter(r,function(t,s){return s%3===0}),o=h.flatten(h.map(q,function(s){return p._data_bounds_ticks_fn()(s)}));this.parent_elt.selectAll("g.tick").data(o).transition().attr("transform",function(s){return"rotate("+(s.angle*180/Math.PI-90)+")translate("+s.radius+",0)"})},_data_bounds_ticks_fn:function(){var o=this;visibleChroms=0;return function(p){return[{radius:o.radius_bounds[0],angle:p.startAngle,label:o.formatNum(o.data_bounds[0])},{radius:o.radius_bounds[1],angle:p.startAngle,label:o.formatNum(o.data_bounds[1])}]}},get_data_bounds:function(o){}});h.extend(g.prototype,i);var e=g.extend({get_data_bounds:function(p){var o=h.flatten(h.map(p,function(q){if(q){return h.map(q.data,function(r){return parseInt(r[1],10)||0})}else{return 0}}));return[h.min(o),this._quantile(o,0.98)||h.max(o)]}});var k=l.extend({render:function(){var o=this;$.when(o.track.get("data_manager").data_is_ready()).then(function(){$.when(o.track.get("data_manager").get_genome_wide_data(o.genome)).then(function(r){var q=[],p=o.genome.get_chroms_info();h.each(r,function(v,u){var s=p[u].chrom;var t=h.map(v.data,function(x){var w=o._get_region_angle(s,x[1]),y=o._get_region_angle(x[3],x[4]);return{source:{startAngle:w,endAngle:w+0.01},target:{startAngle:y,endAngle:y+0.01}}});q=q.concat(t)});o.parent_elt.append("g").attr("class","chord").selectAll("path").data(q).enter().append("path").style("fill",o.get_fill_color()).attr("d",m.svg.chord().radius(o.radius_bounds[0])).style("opacity",1)})})},update_radius_bounds:function(o){this.radius_bounds=o;this.parent_elt.selectAll("path").transition().attr("d",m.svg.chord().radius(this.radius_bounds[0]))},_get_region_angle:function(q,o){var p=h.find(this.chroms_layout,function(r){return r.data.chrom===q});return p.endAngle-((p.endAngle-p.startAngle)*(p.data.len-o)/p.data.len)}});var f=Backbone.View.extend({initialize:function(){var o=new j.Genome(galaxy_config.app.genome),p=new j.GenomeVisualization(galaxy_config.app.viz_config);p.get("config").add([{key:"arc_dataset_height",label:"Arc Dataset Height",type:"int",value:25,view:"circster"},{key:"track_gap",label:"Gap Between Tracks",type:"int",value:5,view:"circster"},{key:"total_gap",label:"Gap [0-1]",type:"float",value:0.4,view:"circster",hidden:true}]);var r=new a({el:$("#center .unified-panel-body"),genome:o,model:p});r.render();$("#center .unified-panel-header-inner").append(galaxy_config.app.viz_config.title+" "+galaxy_config.app.viz_config.dbkey);var q=mod_icon_btn.create_icon_buttons_menu([{icon_class:"plus-button",title:"Add tracks",on_click:function(){j.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",p.get("dbkey"),function(s){p.add_tracks(s)})}},{icon_class:"gear",title:"Settings",on_click:function(){var s=new c.ConfigSettingCollectionView({collection:p.get("config")});s.render_in_modal("Configure Visualization")}},{icon_class:"disk--arrow",title:"Save",on_click:function(){Galaxy.modal.show({title:"Saving...",body:"progress"});$.ajax({url:galaxy_config.root+"visualization/save",type:"POST",dataType:"json",data:{id:p.get("vis_id"),title:p.get("title"),dbkey:p.get("dbkey"),type:"trackster",vis_json:JSON.stringify(p)}}).success(function(s){Galaxy.modal.hide();p.set("vis_id",s.vis_id)}).error(function(){Galaxy.modal.show({title:"Could Not Save",body:"Could not save visualization. Please try again later.",buttons:{Cancel:function(){Galaxy.modal.hide()}}})})}},{icon_class:"cross-circle",title:"Close",on_click:function(){window.location=galaxy_config.root+"visualization/list"}}],{tooltip_config:{placement:"bottom"}});q.$el.attr("style","float: right");$("#center .unified-panel-header-inner").append(q.$el);$(".menu-button").tooltip({placement:"bottom"})}});return{GalaxyApp:f}}); \ No newline at end of file diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/packed/viz/phyloviz.js --- a/static/scripts/packed/viz/phyloviz.js +++ b/static/scripts/packed/viz/phyloviz.js @@ -1,1 +1,1 @@ -define(["libs/d3","viz/visualization","mvc/data"],function(m,f,g){var l=Backbone.View.extend({className:"UserMenuBase",isAcceptableValue:function(q,o,n){var r=q.val(),s=q.attr("displayLabel")||q.attr("id").replace("phyloViz","");function p(t){return !isNaN(parseFloat(t))&&isFinite(t)}if(!p(r)){alert(s+" is not a number!");return false}if(r>n){alert(s+" is too large.");return false}else{if(r<o){alert(s+" is too small.");return false}}return true},hasIllegalJsonCharacters:function(n){if(n.val().search(/"|'|\\/)!==-1){alert("Named fields cannot contain these illegal characters: double quote(\"), single guote('), or back slash(\\). ");return true}return false}});function h(){var w=this,r=m.layout.hierarchy().sort(null).value(null),v=360,q="Linear",u=18,s=200,t=0,p=0.5,n=50;w.leafHeight=function(x){if(typeof x==="undefined"){return u}else{u=x;return w}};w.layoutMode=function(x){if(typeof x==="undefined"){return q}else{q=x;return w}};w.layoutAngle=function(x){if(typeof x==="undefined"){return v}if(isNaN(x)||x<0||x>360){return w}else{v=x;return w}};w.separation=function(x){if(typeof x==="undefined"){return s}else{s=x;return w}};w.links=function(x){return m.layout.tree().links(x)};w.nodes=function(A,y){if(toString.call(A)==="[object Array]"){A=A[0]}var z=r.call(w,A,y),x=[],C=0,B=0;window._d=A;window._nodes=z;z.forEach(function(D){C=D.depth>C?D.depth:C;x.push(D)});x.forEach(function(D){if(!D.children){B+=1;D.depth=C}});u=q==="Circular"?v/B:u;t=0;o(x[0],C,u,null);return x};function o(B,D,A,z){var y=B.children,x=0;var C=B.dist||p;C=C>1?1:C;B.dist=C;if(z!==null){B.y0=z.y0+C*s}else{B.y0=n}if(!y){B.x0=t*A;t+=1}else{y.forEach(function(E){E.parent=B;x+=o(E,D,A,B)});B.x0=x/y.length}B.x=B.x0;B.y=B.y0;return B.x0}return w}var b=f.Visualization.extend({defaults:{layout:"Linear",separation:250,leafHeight:18,type:"phyloviz",title:"Title",scaleFactor:1,translate:[0,0],fontSize:12,selectedNode:null,nodeAttrChangedTime:0},initialize:function(n){this.set("dataset",new g.Dataset({id:n.dataset_id}))},root:{},toggle:function(n){if(typeof n==="undefined"){return}if(n.children){n._children=n.children;n.children=null}else{n.children=n._children;n._children=null}},toggleAll:function(n){if(n.children&&n.children.length!==0){n.children.forEach(this.toggleAll);toggle(n)}},getData:function(){return this.root},save:function(){var n=this.root;o(n);function o(q){delete q.parent;if(q._selected){delete q._selected}if(q.children){q.children.forEach(o)}if(q._children){q._children.forEach(o)}}var p=jQuery.extend(true,{},this.attributes);p.selectedNode=null;show_message("Saving to Galaxy","progress");return $.ajax({url:this.url(),type:"POST",dataType:"json",data:{config:JSON.stringify(p),type:"phyloviz"},success:function(q){hide_modal()}})}});var d=Backbone.View.extend({defaults:{nodeRadius:4.5},stdInit:function(o){var n=this;n.model.on("change:separation change:leafHeight change:fontSize change:nodeAttrChangedTime",n.updateAndRender,n);n.vis=o.vis;n.i=0;n.maxDepth=-1;n.width=o.width;n.height=o.height},updateAndRender:function(p){var o=m.select(".vis"),n=this;p=p||n.model.root;n.renderNodes(p);n.renderLinks(p);n.addTooltips()},renderLinks:function(n){var w=this;var o=w.diagonal;var p=w.duration;var r=w.layoutMode;var t=w.vis.selectAll("g.completeLink").data(w.tree.links(w.nodes),function(x){return x.target.id});var v=function(x){x.pos0=x.source.y0+" "+x.source.x0;x.pos1=x.source.y0+" "+x.target.x0;x.pos2=x.target.y0+" "+x.target.x0};var u=t.enter().insert("svg:g","g.node").attr("class","completeLink");u.append("svg:path").attr("class","link").attr("d",function(x){v(x);return"M "+x.pos0+" L "+x.pos1});var s=t.transition().duration(500);s.select("path.link").attr("d",function(x){v(x);return"M "+x.pos0+" L "+x.pos1+" L "+x.pos2});var q=t.exit().remove()},selectNode:function(o){var n=this;m.selectAll("g.node").classed("selectedHighlight",function(p){if(o.id===p.id){if(o._selected){delete o._selected;return false}else{o._selected=true;return true}}return false});n.model.set("selectedNode",o);$("#phyloVizSelectedNodeName").val(o.name);$("#phyloVizSelectedNodeDist").val(o.dist);$("#phyloVizSelectedNodeAnnotation").val(o.annotation||"")},addTooltips:function(){$(".tooltip").remove();$(".node").attr("data-original-title",function(){var o=this.__data__,n=o.annotation||"None";return o?(o.name?o.name+"<br/>":"")+"Dist: "+o.dist+" <br/>Annotation: "+n:""}).tooltip({placement:"top",trigger:"hover"})}});var a=d.extend({initialize:function(o){var n=this;n.margins=o.margins;n.layoutMode="Linear";n.stdInit(o);n.layout();n.updateAndRender(n.model.root)},layout:function(){var n=this;n.tree=new h().layoutMode("Linear");n.diagonal=m.svg.diagonal().projection(function(o){return[o.y,o.x]})},renderNodes:function(n){var u=this,v=u.model.get("fontSize")+"px";u.tree.separation(u.model.get("separation")).leafHeight(u.model.get("leafHeight"));var q=500,o=u.tree.separation(u.model.get("separation")).nodes(u.model.root);var p=u.vis.selectAll("g.node").data(o,function(w){return w.name+w.id||(w.id=++u.i)});u.nodes=o;u.duration=q;var r=p.enter().append("svg:g").attr("class","node").on("dblclick",function(){m.event.stopPropagation()}).on("click",function(w){if(m.event.altKey){u.selectNode(w)}else{if(w.children&&w.children.length===0){return}u.model.toggle(w);u.updateAndRender(w)}});if(toString.call(n)==="[object Array]"){n=n[0]}r.attr("transform",function(w){return"translate("+n.y0+","+n.x0+")"});r.append("svg:circle").attr("r",0.000001).style("fill",function(w){return w._children?"lightsteelblue":"#fff"});r.append("svg:text").attr("class","nodeLabel").attr("x",function(w){return w.children||w._children?-10:10}).attr("dy",".35em").attr("text-anchor",function(w){return w.children||w._children?"end":"start"}).style("fill-opacity",0.000001);var s=p.transition().duration(q);s.attr("transform",function(w){return"translate("+w.y+","+w.x+")"});s.select("circle").attr("r",u.defaults.nodeRadius).style("fill",function(w){return w._children?"lightsteelblue":"#fff"});s.select("text").style("fill-opacity",1).style("font-size",v).text(function(w){return w.name});var t=p.exit().transition().duration(q).remove();t.select("circle").attr("r",0.000001);t.select("text").style("fill-opacity",0.000001);o.forEach(function(w){w.x0=w.x;w.y0=w.y})}});var j=Backbone.View.extend({className:"phyloviz",initialize:function(o){var n=this;n.MIN_SCALE=0.05;n.MAX_SCALE=5;n.MAX_DISPLACEMENT=500;n.margins=[10,60,10,80];n.width=$("#PhyloViz").width();n.height=$("#PhyloViz").height();n.radius=n.width;n.data=o.data;$(window).resize(function(){n.width=$("#PhyloViz").width();n.height=$("#PhyloViz").height();n.render()});n.phyloTree=new b(o.config);n.phyloTree.root=n.data;n.zoomFunc=m.behavior.zoom().scaleExtent([n.MIN_SCALE,n.MAX_SCALE]);n.zoomFunc.translate(n.phyloTree.get("translate"));n.zoomFunc.scale(n.phyloTree.get("scaleFactor"));n.navMenu=new c(n);n.settingsMenu=new i({phyloTree:n.phyloTree});n.nodeSelectionView=new e({phyloTree:n.phyloTree});n.search=new k();setTimeout(function(){n.zoomAndPan()},1000)},render:function(){var o=this;$("#PhyloViz").empty();o.mainSVG=m.select("#PhyloViz").append("svg:svg").attr("width",o.width).attr("height",o.height).attr("pointer-events","all").call(o.zoomFunc.on("zoom",function(){o.zoomAndPan()}));o.boundingRect=o.mainSVG.append("svg:rect").attr("class","boundingRect").attr("width",o.width).attr("height",o.height).attr("stroke","black").attr("fill","white");o.vis=o.mainSVG.append("svg:g").attr("class","vis");o.layoutOptions={model:o.phyloTree,width:o.width,height:o.height,vis:o.vis,margins:o.margins};$("#title").text("Phylogenetic Tree from "+o.phyloTree.get("title")+":");var n=new a(o.layoutOptions)},zoomAndPan:function(n){var t,p;if(typeof n!=="undefined"){t=n.zoom;p=n.translate}var w=this,r=w.zoomFunc.scale(),v=w.zoomFunc.translate(),s="",u="";switch(t){case"reset":r=1;v=[0,0];break;case"+":r*=1.1;break;case"-":r*=0.9;break;default:if(typeof t==="number"){r=t}else{if(m.event!==null){r=m.event.scale}}}if(r<w.MIN_SCALE||r>w.MAX_SCALE){return}w.zoomFunc.scale(r);s="translate("+w.margins[3]+","+w.margins[0]+") scale("+r+")";if(m.event!==null){u="translate("+m.event.translate+")"}else{if(typeof p!=="undefined"){var q=p.split(",")[0];var o=p.split(",")[1];if(!isNaN(q)&&!isNaN(o)){v=[v[0]+parseFloat(q),v[1]+parseFloat(o)]}}w.zoomFunc.translate(v);u="translate("+v+")"}w.phyloTree.set("scaleFactor",r);w.phyloTree.set("translate",v);w.vis.attr("transform",u+s)},reloadViz:function(){var n=this,o=$("#phylovizNexSelector :selected").val();$.getJSON(n.phyloTree.get("dataset").url(),{tree_index:o,data_type:"raw_data"},function(p){n.data=p.data;n.config=p;n.render()})}});var c=Backbone.View.extend({initialize:function(o){var n=this;n.phylovizView=o;$("#panelHeaderRightBtns").empty();$("#phyloVizNavBtns").empty();$("#phylovizNexSelector").off();n.initNavBtns();n.initRightHeaderBtns();$("#phylovizNexSelector").off().on("change",function(){n.phylovizView.reloadViz()})},initRightHeaderBtns:function(){var n=this;rightMenu=create_icon_buttons_menu([{icon_class:"gear",title:"PhyloViz Settings",on_click:function(){$("#SettingsMenu").show();n.settingsMenu.updateUI()}},{icon_class:"disk",title:"Save visualization",on_click:function(){var o=$("#phylovizNexSelector option:selected").text();if(o){n.phylovizView.phyloTree.set("title",o)}n.phylovizView.phyloTree.save()}},{icon_class:"chevron-expand",title:"Search / Edit Nodes",on_click:function(){$("#nodeSelectionView").show()}},{icon_class:"information",title:"Phyloviz Help",on_click:function(){window.open("https://wiki.galaxyproject.org/Learn/Visualization/PhylogeneticTree")}}],{tooltip_config:{placement:"bottom"}});$("#panelHeaderRightBtns").append(rightMenu.$el)},initNavBtns:function(){var n=this,o=create_icon_buttons_menu([{icon_class:"zoom-in",title:"Zoom in",on_click:function(){n.phylovizView.zoomAndPan({zoom:"+"})}},{icon_class:"zoom-out",title:"Zoom out",on_click:function(){n.phylovizView.zoomAndPan({zoom:"-"})}},{icon_class:"arrow-circle",title:"Reset Zoom/Pan",on_click:function(){n.phylovizView.zoomAndPan({zoom:"reset"})}}],{tooltip_config:{placement:"bottom"}});$("#phyloVizNavBtns").append(o.$el)}});var i=l.extend({className:"Settings",initialize:function(o){var n=this;n.phyloTree=o.phyloTree;n.el=$("#SettingsMenu");n.inputs={separation:$("#phyloVizTreeSeparation"),leafHeight:$("#phyloVizTreeLeafHeight"),fontSize:$("#phyloVizTreeFontSize")};$("#settingsCloseBtn").off().on("click",function(){n.el.hide()});$("#phylovizResetSettingsBtn").off().on("click",function(){n.resetToDefaults()});$("#phylovizApplySettingsBtn").off().on("click",function(){n.apply()})},apply:function(){var n=this;if(!n.isAcceptableValue(n.inputs.separation,50,2500)||!n.isAcceptableValue(n.inputs.leafHeight,5,30)||!n.isAcceptableValue(n.inputs.fontSize,5,20)){return}$.each(n.inputs,function(o,p){n.phyloTree.set(o,p.val())})},updateUI:function(){var n=this;$.each(n.inputs,function(o,p){p.val(n.phyloTree.get(o))})},resetToDefaults:function(){$(".tooltip").remove();var n=this;$.each(n.phyloTree.defaults,function(o,p){n.phyloTree.set(o,p)});n.updateUI()},render:function(){}});var e=l.extend({className:"Settings",initialize:function(o){var n=this;n.el=$("#nodeSelectionView");n.phyloTree=o.phyloTree;n.UI={enableEdit:$("#phylovizEditNodesCheck"),saveChanges:$("#phylovizNodeSaveChanges"),cancelChanges:$("#phylovizNodeCancelChanges"),name:$("#phyloVizSelectedNodeName"),dist:$("#phyloVizSelectedNodeDist"),annotation:$("#phyloVizSelectedNodeAnnotation")};n.valuesOfConcern={name:null,dist:null,annotation:null};$("#nodeSelCloseBtn").off().on("click",function(){n.el.hide()});n.UI.saveChanges.off().on("click",function(){n.updateNodes()});n.UI.cancelChanges.off().on("click",function(){n.cancelChanges()});(function(p){p.fn.enable=function(q){return p(this).each(function(){if(q){p(this).removeAttr("disabled")}else{p(this).attr("disabled","disabled")}})}})(jQuery);n.UI.enableEdit.off().on("click",function(){n.toggleUI()})},toggleUI:function(){var n=this,o=n.UI.enableEdit.is(":checked");if(!o){n.cancelChanges()}$.each(n.valuesOfConcern,function(p,q){n.UI[p].enable(o)});if(o){n.UI.saveChanges.show();n.UI.cancelChanges.show()}else{n.UI.saveChanges.hide();n.UI.cancelChanges.hide()}},cancelChanges:function(){var n=this,o=n.phyloTree.get("selectedNode");if(o){$.each(n.valuesOfConcern,function(p,q){n.UI[p].val(o[p])})}},updateNodes:function(){var n=this,o=n.phyloTree.get("selectedNode");if(o){if(!n.isAcceptableValue(n.UI.dist,0,1)||n.hasIllegalJsonCharacters(n.UI.name)||n.hasIllegalJsonCharacters(n.UI.annotation)){return}$.each(n.valuesOfConcern,function(p,q){(o[p])=n.UI[p].val()});n.phyloTree.set("nodeAttrChangedTime",new Date())}else{alert("No node selected")}}});var k=l.extend({initialize:function(){var n=this;$("#phyloVizSearchBtn").on("click",function(){var p=$("#phyloVizSearchTerm"),q=$("#phyloVizSearchCondition").val().split("-"),o=q[0],r=q[1];n.hasIllegalJsonCharacters(p);if(o==="dist"){n.isAcceptableValue(p,0,1)}n.searchTree(o,r,p.val())})},searchTree:function(n,p,o){m.selectAll("g.node").classed("searchHighlight",function(r){var q=r[n];if(typeof q!=="undefined"&&q!==null){if(n==="dist"){switch(p){case"greaterEqual":return q>=+o;case"lesserEqual":return q<=+o;default:return}}else{if(n==="name"||n==="annotation"){return q.toLowerCase().indexOf(o.toLowerCase())!==-1}}}})}});return{PhylovizView:j}}); \ No newline at end of file +define(["libs/d3","viz/visualization","mvc/data","mvc/ui/icon-button"],function(n,g,h,c){var m=Backbone.View.extend({className:"UserMenuBase",isAcceptableValue:function(r,p,o){var s=r.val(),t=r.attr("displayLabel")||r.attr("id").replace("phyloViz","");function q(u){return !isNaN(parseFloat(u))&&isFinite(u)}if(!q(s)){alert(t+" is not a number!");return false}if(s>o){alert(t+" is too large.");return false}else{if(s<p){alert(t+" is too small.");return false}}return true},hasIllegalJsonCharacters:function(o){if(o.val().search(/"|'|\\/)!==-1){alert("Named fields cannot contain these illegal characters: double quote(\"), single guote('), or back slash(\\). ");return true}return false}});function i(){var x=this,s=n.layout.hierarchy().sort(null).value(null),w=360,r="Linear",v=18,t=200,u=0,q=0.5,o=50;x.leafHeight=function(y){if(typeof y==="undefined"){return v}else{v=y;return x}};x.layoutMode=function(y){if(typeof y==="undefined"){return r}else{r=y;return x}};x.layoutAngle=function(y){if(typeof y==="undefined"){return w}if(isNaN(y)||y<0||y>360){return x}else{w=y;return x}};x.separation=function(y){if(typeof y==="undefined"){return t}else{t=y;return x}};x.links=function(y){return n.layout.tree().links(y)};x.nodes=function(B,z){if(toString.call(B)==="[object Array]"){B=B[0]}var A=s.call(x,B,z),y=[],D=0,C=0;window._d=B;window._nodes=A;A.forEach(function(E){D=E.depth>D?E.depth:D;y.push(E)});y.forEach(function(E){if(!E.children){C+=1;E.depth=D}});v=r==="Circular"?w/C:v;u=0;p(y[0],D,v,null);return y};function p(C,E,B,A){var z=C.children,y=0;var D=C.dist||q;D=D>1?1:D;C.dist=D;if(A!==null){C.y0=A.y0+D*t}else{C.y0=o}if(!z){C.x0=u*B;u+=1}else{z.forEach(function(F){F.parent=C;y+=p(F,E,B,C)});C.x0=y/z.length}C.x=C.x0;C.y=C.y0;return C.x0}return x}var b=g.Visualization.extend({defaults:{layout:"Linear",separation:250,leafHeight:18,type:"phyloviz",title:"Title",scaleFactor:1,translate:[0,0],fontSize:12,selectedNode:null,nodeAttrChangedTime:0},initialize:function(o){this.set("dataset",new h.Dataset({id:o.dataset_id}))},root:{},toggle:function(o){if(typeof o==="undefined"){return}if(o.children){o._children=o.children;o.children=null}else{o.children=o._children;o._children=null}},toggleAll:function(o){if(o.children&&o.children.length!==0){o.children.forEach(this.toggleAll);toggle(o)}},getData:function(){return this.root},save:function(){var o=this.root;p(o);function p(r){delete r.parent;if(r._selected){delete r._selected}if(r.children){r.children.forEach(p)}if(r._children){r._children.forEach(p)}}var q=jQuery.extend(true,{},this.attributes);q.selectedNode=null;show_message("Saving to Galaxy","progress");return $.ajax({url:this.url(),type:"POST",dataType:"json",data:{config:JSON.stringify(q),type:"phyloviz"},success:function(r){hide_modal()}})}});var e=Backbone.View.extend({defaults:{nodeRadius:4.5},stdInit:function(p){var o=this;o.model.on("change:separation change:leafHeight change:fontSize change:nodeAttrChangedTime",o.updateAndRender,o);o.vis=p.vis;o.i=0;o.maxDepth=-1;o.width=p.width;o.height=p.height},updateAndRender:function(q){var p=n.select(".vis"),o=this;q=q||o.model.root;o.renderNodes(q);o.renderLinks(q);o.addTooltips()},renderLinks:function(o){var x=this;var p=x.diagonal;var q=x.duration;var s=x.layoutMode;var u=x.vis.selectAll("g.completeLink").data(x.tree.links(x.nodes),function(y){return y.target.id});var w=function(y){y.pos0=y.source.y0+" "+y.source.x0;y.pos1=y.source.y0+" "+y.target.x0;y.pos2=y.target.y0+" "+y.target.x0};var v=u.enter().insert("svg:g","g.node").attr("class","completeLink");v.append("svg:path").attr("class","link").attr("d",function(y){w(y);return"M "+y.pos0+" L "+y.pos1});var t=u.transition().duration(500);t.select("path.link").attr("d",function(y){w(y);return"M "+y.pos0+" L "+y.pos1+" L "+y.pos2});var r=u.exit().remove()},selectNode:function(p){var o=this;n.selectAll("g.node").classed("selectedHighlight",function(q){if(p.id===q.id){if(p._selected){delete p._selected;return false}else{p._selected=true;return true}}return false});o.model.set("selectedNode",p);$("#phyloVizSelectedNodeName").val(p.name);$("#phyloVizSelectedNodeDist").val(p.dist);$("#phyloVizSelectedNodeAnnotation").val(p.annotation||"")},addTooltips:function(){$(".tooltip").remove();$(".node").attr("data-original-title",function(){var p=this.__data__,o=p.annotation||"None";return p?(p.name?p.name+"<br/>":"")+"Dist: "+p.dist+" <br/>Annotation: "+o:""}).tooltip({placement:"top",trigger:"hover"})}});var a=e.extend({initialize:function(p){var o=this;o.margins=p.margins;o.layoutMode="Linear";o.stdInit(p);o.layout();o.updateAndRender(o.model.root)},layout:function(){var o=this;o.tree=new i().layoutMode("Linear");o.diagonal=n.svg.diagonal().projection(function(p){return[p.y,p.x]})},renderNodes:function(o){var v=this,w=v.model.get("fontSize")+"px";v.tree.separation(v.model.get("separation")).leafHeight(v.model.get("leafHeight"));var r=500,p=v.tree.separation(v.model.get("separation")).nodes(v.model.root);var q=v.vis.selectAll("g.node").data(p,function(x){return x.name+x.id||(x.id=++v.i)});v.nodes=p;v.duration=r;var s=q.enter().append("svg:g").attr("class","node").on("dblclick",function(){n.event.stopPropagation()}).on("click",function(x){if(n.event.altKey){v.selectNode(x)}else{if(x.children&&x.children.length===0){return}v.model.toggle(x);v.updateAndRender(x)}});if(toString.call(o)==="[object Array]"){o=o[0]}s.attr("transform",function(x){return"translate("+o.y0+","+o.x0+")"});s.append("svg:circle").attr("r",0.000001).style("fill",function(x){return x._children?"lightsteelblue":"#fff"});s.append("svg:text").attr("class","nodeLabel").attr("x",function(x){return x.children||x._children?-10:10}).attr("dy",".35em").attr("text-anchor",function(x){return x.children||x._children?"end":"start"}).style("fill-opacity",0.000001);var t=q.transition().duration(r);t.attr("transform",function(x){return"translate("+x.y+","+x.x+")"});t.select("circle").attr("r",v.defaults.nodeRadius).style("fill",function(x){return x._children?"lightsteelblue":"#fff"});t.select("text").style("fill-opacity",1).style("font-size",w).text(function(x){return x.name});var u=q.exit().transition().duration(r).remove();u.select("circle").attr("r",0.000001);u.select("text").style("fill-opacity",0.000001);p.forEach(function(x){x.x0=x.x;x.y0=x.y})}});var k=Backbone.View.extend({className:"phyloviz",initialize:function(p){var o=this;o.MIN_SCALE=0.05;o.MAX_SCALE=5;o.MAX_DISPLACEMENT=500;o.margins=[10,60,10,80];o.width=$("#PhyloViz").width();o.height=$("#PhyloViz").height();o.radius=o.width;o.data=p.data;$(window).resize(function(){o.width=$("#PhyloViz").width();o.height=$("#PhyloViz").height();o.render()});o.phyloTree=new b(p.config);o.phyloTree.root=o.data;o.zoomFunc=n.behavior.zoom().scaleExtent([o.MIN_SCALE,o.MAX_SCALE]);o.zoomFunc.translate(o.phyloTree.get("translate"));o.zoomFunc.scale(o.phyloTree.get("scaleFactor"));o.navMenu=new d(o);o.settingsMenu=new j({phyloTree:o.phyloTree});o.nodeSelectionView=new f({phyloTree:o.phyloTree});o.search=new l();setTimeout(function(){o.zoomAndPan()},1000)},render:function(){var p=this;$("#PhyloViz").empty();p.mainSVG=n.select("#PhyloViz").append("svg:svg").attr("width",p.width).attr("height",p.height).attr("pointer-events","all").call(p.zoomFunc.on("zoom",function(){p.zoomAndPan()}));p.boundingRect=p.mainSVG.append("svg:rect").attr("class","boundingRect").attr("width",p.width).attr("height",p.height).attr("stroke","black").attr("fill","white");p.vis=p.mainSVG.append("svg:g").attr("class","vis");p.layoutOptions={model:p.phyloTree,width:p.width,height:p.height,vis:p.vis,margins:p.margins};$("#title").text("Phylogenetic Tree from "+p.phyloTree.get("title")+":");var o=new a(p.layoutOptions)},zoomAndPan:function(o){var u,q;if(typeof o!=="undefined"){u=o.zoom;q=o.translate}var z=this,s=z.zoomFunc.scale(),w=z.zoomFunc.translate(),t="",v="";switch(u){case"reset":s=1;w=[0,0];break;case"+":s*=1.1;break;case"-":s*=0.9;break;default:if(typeof u==="number"){s=u}else{if(n.event!==null){s=n.event.scale}}}if(s<z.MIN_SCALE||s>z.MAX_SCALE){return}z.zoomFunc.scale(s);t="translate("+z.margins[3]+","+z.margins[0]+") scale("+s+")";if(n.event!==null){v="translate("+n.event.translate+")"}else{if(typeof q!=="undefined"){var r=q.split(",")[0];var p=q.split(",")[1];if(!isNaN(r)&&!isNaN(p)){w=[w[0]+parseFloat(r),w[1]+parseFloat(p)]}}z.zoomFunc.translate(w);v="translate("+w+")"}z.phyloTree.set("scaleFactor",s);z.phyloTree.set("translate",w);z.vis.attr("transform",v+t)},reloadViz:function(){var o=this,p=$("#phylovizNexSelector :selected").val();$.getJSON(o.phyloTree.get("dataset").url(),{tree_index:p,data_type:"raw_data"},function(q){o.data=q.data;o.config=q;o.render()})}});var d=Backbone.View.extend({initialize:function(p){var o=this;o.phylovizView=p;$("#panelHeaderRightBtns").empty();$("#phyloVizNavBtns").empty();$("#phylovizNexSelector").off();o.initNavBtns();o.initRightHeaderBtns();$("#phylovizNexSelector").off().on("change",function(){o.phylovizView.reloadViz()})},initRightHeaderBtns:function(){var o=this;rightMenu=c.create_icon_buttons_menu([{icon_class:"gear",title:"PhyloViz Settings",on_click:function(){$("#SettingsMenu").show();o.settingsMenu.updateUI()}},{icon_class:"disk",title:"Save visualization",on_click:function(){var p=$("#phylovizNexSelector option:selected").text();if(p){o.phylovizView.phyloTree.set("title",p)}o.phylovizView.phyloTree.save()}},{icon_class:"chevron-expand",title:"Search / Edit Nodes",on_click:function(){$("#nodeSelectionView").show()}},{icon_class:"information",title:"Phyloviz Help",on_click:function(){window.open("https://wiki.galaxyproject.org/Learn/Visualization/PhylogeneticTree")}}],{tooltip_config:{placement:"bottom"}});$("#panelHeaderRightBtns").append(rightMenu.$el)},initNavBtns:function(){var o=this,p=c.create_icon_buttons_menu([{icon_class:"zoom-in",title:"Zoom in",on_click:function(){o.phylovizView.zoomAndPan({zoom:"+"})}},{icon_class:"zoom-out",title:"Zoom out",on_click:function(){o.phylovizView.zoomAndPan({zoom:"-"})}},{icon_class:"arrow-circle",title:"Reset Zoom/Pan",on_click:function(){o.phylovizView.zoomAndPan({zoom:"reset"})}}],{tooltip_config:{placement:"bottom"}});$("#phyloVizNavBtns").append(p.$el)}});var j=m.extend({className:"Settings",initialize:function(p){var o=this;o.phyloTree=p.phyloTree;o.el=$("#SettingsMenu");o.inputs={separation:$("#phyloVizTreeSeparation"),leafHeight:$("#phyloVizTreeLeafHeight"),fontSize:$("#phyloVizTreeFontSize")};$("#settingsCloseBtn").off().on("click",function(){o.el.hide()});$("#phylovizResetSettingsBtn").off().on("click",function(){o.resetToDefaults()});$("#phylovizApplySettingsBtn").off().on("click",function(){o.apply()})},apply:function(){var o=this;if(!o.isAcceptableValue(o.inputs.separation,50,2500)||!o.isAcceptableValue(o.inputs.leafHeight,5,30)||!o.isAcceptableValue(o.inputs.fontSize,5,20)){return}$.each(o.inputs,function(p,q){o.phyloTree.set(p,q.val())})},updateUI:function(){var o=this;$.each(o.inputs,function(p,q){q.val(o.phyloTree.get(p))})},resetToDefaults:function(){$(".tooltip").remove();var o=this;$.each(o.phyloTree.defaults,function(p,q){o.phyloTree.set(p,q)});o.updateUI()},render:function(){}});var f=m.extend({className:"Settings",initialize:function(p){var o=this;o.el=$("#nodeSelectionView");o.phyloTree=p.phyloTree;o.UI={enableEdit:$("#phylovizEditNodesCheck"),saveChanges:$("#phylovizNodeSaveChanges"),cancelChanges:$("#phylovizNodeCancelChanges"),name:$("#phyloVizSelectedNodeName"),dist:$("#phyloVizSelectedNodeDist"),annotation:$("#phyloVizSelectedNodeAnnotation")};o.valuesOfConcern={name:null,dist:null,annotation:null};$("#nodeSelCloseBtn").off().on("click",function(){o.el.hide()});o.UI.saveChanges.off().on("click",function(){o.updateNodes()});o.UI.cancelChanges.off().on("click",function(){o.cancelChanges()});(function(q){q.fn.enable=function(r){return q(this).each(function(){if(r){q(this).removeAttr("disabled")}else{q(this).attr("disabled","disabled")}})}})(jQuery);o.UI.enableEdit.off().on("click",function(){o.toggleUI()})},toggleUI:function(){var o=this,p=o.UI.enableEdit.is(":checked");if(!p){o.cancelChanges()}$.each(o.valuesOfConcern,function(q,r){o.UI[q].enable(p)});if(p){o.UI.saveChanges.show();o.UI.cancelChanges.show()}else{o.UI.saveChanges.hide();o.UI.cancelChanges.hide()}},cancelChanges:function(){var o=this,p=o.phyloTree.get("selectedNode");if(p){$.each(o.valuesOfConcern,function(q,r){o.UI[q].val(p[q])})}},updateNodes:function(){var o=this,p=o.phyloTree.get("selectedNode");if(p){if(!o.isAcceptableValue(o.UI.dist,0,1)||o.hasIllegalJsonCharacters(o.UI.name)||o.hasIllegalJsonCharacters(o.UI.annotation)){return}$.each(o.valuesOfConcern,function(q,r){(p[q])=o.UI[q].val()});o.phyloTree.set("nodeAttrChangedTime",new Date())}else{alert("No node selected")}}});var l=m.extend({initialize:function(){var o=this;$("#phyloVizSearchBtn").on("click",function(){var q=$("#phyloVizSearchTerm"),r=$("#phyloVizSearchCondition").val().split("-"),p=r[0],s=r[1];o.hasIllegalJsonCharacters(q);if(p==="dist"){o.isAcceptableValue(q,0,1)}o.searchTree(p,s,q.val())})},searchTree:function(o,q,p){n.selectAll("g.node").classed("searchHighlight",function(s){var r=s[o];if(typeof r!=="undefined"&&r!==null){if(o==="dist"){switch(q){case"greaterEqual":return r>=+p;case"lesserEqual":return r<=+p;default:return}}else{if(o==="name"||o==="annotation"){return r.toLowerCase().indexOf(p.toLowerCase())!==-1}}}})}});return{PhylovizView:k}}); \ No newline at end of file diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/packed/viz/sweepster.js --- a/static/scripts/packed/viz/sweepster.js +++ b/static/scripts/packed/viz/sweepster.js @@ -1,1 +1,1 @@ -define(["libs/underscore","libs/d3","viz/trackster/util","viz/visualization","viz/trackster/tracks","mvc/tools","mvc/data","utils/config"],function(q,p,e,j,m,n,r,o){var k=Backbone.Model.extend({defaults:{inputs:null,values:null}});var a=Backbone.Model.extend({defaults:{tool:null,tree_data:null},initialize:function(t){var s=this;this.get("tool").get("inputs").each(function(u){u.on("change:min change:max change:num_samples",function(v){if(v.get("in_ptree")){s.set_tree_data()}},s);u.on("change:in_ptree",function(v){if(v.get("in_ptree")){s.add_param(v)}else{s.remove_param(v)}s.set_tree_data()},s)});if(t.config){q.each(t.config,function(v){var u=s.get("tool").get("inputs").find(function(w){return w.get("name")===v.name});s.add_param(u);u.set(v)})}},add_param:function(s){if(s.get("ptree_index")){return}s.set("in_ptree",true);s.set("ptree_index",this.get_tree_params().length)},remove_param:function(s){s.set("in_ptree",false);s.set("ptree_index",null);q(this.get_tree_params()).each(function(t,u){t.set("ptree_index",u+1)})},set_tree_data:function(){var t=q.map(this.get_tree_params(),function(v){return{param:v,samples:v.get_samples()}});var s=0,u=function(y,v){var A=y[v],z=A.param,x=z.get("label"),w=A.samples;if(y.length-1===v){return q.map(w,function(B){return{id:s++,name:B,param:z,value:B}})}return q.map(w,function(B){return{id:s++,name:B,param:z,value:B,children:u(y,v+1)}})};this.set("tree_data",{name:"Root",id:s++,children:(t.length!==0?u(t,0):null)})},get_tree_params:function(){return q(this.get("tool").get("inputs").where({in_ptree:true})).sortBy(function(s){return s.get("ptree_index")})},get_num_leaves:function(){return this.get_tree_params().reduce(function(s,t){return s*t.get_samples().length},1)},get_node_settings:function(w){var u=this.get("tool").get_inputs_dict();var x=w.parent;if(x){while(x.depth!==0){u[x.param.get("name")]=x.value;x=x.parent}}var s=this,t=function(z,y){if(z.param){y[z.param.get("name")]=z.value}if(!z.children){return new k({inputs:s.get("tool").get("inputs"),values:y})}else{return q.flatten(q.map(z.children,function(A){return t(A,q.clone(y))}))}},v=t(w,u);if(!q.isArray(v)){v=[v]}return v},get_connected_nodes:function(u){var v=function(w){if(!w.children){return w}else{return q.flatten([w,q.map(w.children,function(x){return v(x)})])}};var t=[],s=u.parent;while(s){t.push(s);s=s.parent}return q.flatten([t,v(u)])},get_leaf:function(t){var u=this.get("tree_data"),s=function(v){return q.find(v,function(w){return t[w.param.get("name")]===w.value})};while(u.children){u=s(u.children)}return u},toJSON:function(){return this.get_tree_params().map(function(s){return{name:s.get("name"),min:s.get("min"),max:s.get("max"),num_samples:s.get("num_samples")}})}});var d=Backbone.Model.extend({defaults:{track:null,mode:"Pack",settings:null,regions:null},initialize:function(s){this.set("regions",s.regions);if(s.track){var t=q.extend({data_url:galaxy_config.root+"dummy1",converted_datasets_state_url:galaxy_config.root+"dummy2"},s.track);this.set("track",m.object_from_template(t,{},null))}},same_settings:function(s){var t=this.get("settings"),u=s.get("settings");for(var v in t){if(!u[v]||t[v]!==u[v]){return false}}return true},toJSON:function(){return{track:this.get("track").to_dict(),settings:this.get("settings"),regions:this.get("regions")}}});var l=Backbone.Collection.extend({model:d});var c=j.Visualization.extend({defaults:q.extend({},j.Visualization.prototype.defaults,{dataset:null,tool:null,parameter_tree:null,regions:null,tracks:null,default_mode:"Pack"}),initialize:function(s){this.set("dataset",new r.Dataset(s.dataset));this.set("tool",new n.Tool(s.tool));this.set("regions",new j.GenomeRegionCollection(s.regions));this.set("tracks",new l(s.tracks));var t=this.get("tool");this.set("tool_with_samplable_inputs",t);t.remove_inputs(["data","hidden_data","conditional","text"]);this.set("parameter_tree",new a({tool:t,config:s.tree_config}))},add_track:function(s){this.get("tracks").add(s)},toJSON:function(){return{id:this.get("id"),title:"Parameter exploration for dataset '"+this.get("dataset").get("name")+"'",type:"sweepster",dataset_id:this.get("dataset").id,tool_id:this.get("tool").id,regions:this.get("regions").toJSON(),tree_config:this.get("parameter_tree").toJSON(),tracks:this.get("tracks").toJSON()}}});var h=Backbone.View.extend({tagName:"tr",TILE_LEN:250,initialize:function(s){this.canvas_manager=s.canvas_manager;this.render();this.model.on("change:track change:mode",this.draw_tiles,this)},render:function(){var x=this.model.get("settings"),t=x.get("values"),v=$("<td/>").addClass("settings").appendTo(this.$el),u=$("<div/>").addClass("track-info").hide().appendTo(v);u.append($("<div/>").css("font-weight","bold").text("Track Settings"));x.get("inputs").each(function(z){u.append(z.get("label")+": "+t[z.get("name")]+"<br/>")});var s=this,y=$("<button/>").appendTo(u).text("Run on complete dataset").click(function(){u.toggle();s.trigger("run_on_dataset",x)});var w=create_icon_buttons_menu([{title:"Settings",icon_class:"gear track-settings",on_click:function(){u.toggle()}},{title:"Remove",icon_class:"cross-circle",on_click:function(){s.$el.remove();$(".tooltip").remove()}}]);v.prepend(w.$el);this.model.get("regions").each(function(){s.$el.append($("<td/>").addClass("tile").html($("<img/>").attr("src",galaxy_config.root+"images/loading_large_white_bg.gif")))});if(this.model.get("track")){this.draw_tiles()}},draw_tiles:function(){var t=this,s=this.model.get("track"),v=this.model.get("regions"),u=this.$el.find("td.tile");if(!s){return}$.when(s.data_manager.data_is_ready()).then(function(w){v.each(function(z,y){var x=z.length()/t.TILE_LEN,B=1/x,A=t.model.get("mode");$.when(s.data_manager.get_data(z,A,x,{})).then(function(D){var C=t.canvas_manager.new_canvas();C.width=t.TILE_LEN;C.height=s.get_canvas_height(D,A,B,C.width);s.draw_tile(D,C.getContext("2d"),A,z,B);$(u[y]).empty().append(C)})})})}});var g=Backbone.View.extend({number_input_template:'<div class="form-row-input sweep"><input class="min" type="text" size="6" value="<%= min %>"> - <input class="max" type="text" size="6" value="<%= max %>"> samples: <input class="num_samples" type="text" size="1" value="<%= num_samples %>"></div>',select_input_template:'<div class="form-row-input sweep"><%= options %></div>',initialize:function(s){this.$el=s.tool_row;this.render()},render:function(){var t=this.model,x=t.get("type"),z=this.$el.find(".form-row-input"),v=null;z.find(":input").change(function(){t.set("value",$(this).val())});if(t instanceof n.IntegerToolParameter){v=$(q.template(this.number_input_template,this.model.toJSON()))}else{if(t instanceof n.SelectToolParameter){var u=q.map(this.$el.find("select option"),function(A){return $(A).val()}),w=u.join(", ");v=$(q.template(this.select_input_template,{options:w}))}}v.insertAfter(z);var s=this,y=create_icon_buttons_menu([{title:"Add parameter to tree",icon_class:"plus-button",on_click:function(){t.set("in_ptree",true);z.hide();v.show();$(this).hide();s.$el.find(".icon-button.toggle").show()}},{title:"Remove parameter from tree",icon_class:"toggle",on_click:function(){t.set("in_ptree",false);v.hide();z.show();$(this).hide();s.$el.find(".icon-button.plus-button").show()}}],{});this.$el.prepend(y.$el);if(t.get("in_ptree")){z.hide();s.$el.find(".icon-button.plus-button").hide()}else{s.$el.find(".icon-button.toggle").hide();v.hide()}q.each(["min","max","num_samples"],function(A){v.find("."+A).change(function(){t.set(A,parseFloat($(this).val()))})})}});var i=Backbone.View.extend({className:"tree-design",initialize:function(s){this.render()},render:function(){var u=new n.ToolFormView({model:this.model.get("tool")});u.render();this.$el.append(u.$el);var t=this,s=t.model.get("tool").get("inputs");this.$el.find(".form-row").not(".form-actions").each(function(v){var w=new g({model:s.at(v),tool_row:$(this)})})}});var b=Backbone.View.extend({className:"tool-parameter-tree",initialize:function(s){this.model.on("change:tree_data",this.render,this)},render:function(){this.$el.children().remove();var A=this.model.get_tree_params();if(!A.length){return}this.width=100*(2+A.length);this.height=15*this.model.get_num_leaves();var z=this;var y=p.layout.cluster().size([this.height,this.width-160]);var u=p.svg.diagonal().projection(function(B){return[B.y,B.x]});var s=y.nodes(this.model.get("tree_data"));var v=q.uniq(q.pluck(s,"y"));q.each(A,function(D,C){var B=v[C+1],E=$("#center").position().left;z.$el.append($("<div>").addClass("label").text(D.get("label")).css("left",B+E))});var t=p.select(this.$el[0]).append("svg").attr("width",this.width).attr("height",this.height+30).append("g").attr("transform","translate(40, 20)");var x=t.selectAll("path.link").data(y.links(s)).enter().append("path").attr("class","link").attr("d",u);var w=t.selectAll("g.node").data(s).enter().append("g").attr("class","node").attr("transform",function(B){return"translate("+B.y+","+B.x+")"}).on("mouseover",function(C){var B=q.pluck(z.model.get_connected_nodes(C),"id");w.filter(function(D){return q.find(B,function(E){return E===D.id})!==undefined}).style("fill","#f00")}).on("mouseout",function(){w.style("fill","#000")});w.append("circle").attr("r",9);w.append("text").attr("dx",function(B){return B.children?-12:12}).attr("dy",3).attr("text-anchor",function(B){return B.children?"end":"start"}).text(function(B){return B.name})}});var f=Backbone.View.extend({className:"Sweepster",helpText:"<div><h4>Getting Started</h4><ol><li>Create a parameter tree by using the icons next to the tool's parameter names to add or remove parameters.<li>Adjust the tree by using parameter inputs to select min, max, and number of samples<li>Run the tool with different settings by clicking on tree nodes</ol></div>",initialize:function(t){this.canvas_manager=new j.CanvasManager(this.$el.parents("body"));this.tool_param_tree_view=new b({model:this.model.get("parameter_tree")});this.track_collection_container=$("<table/>").addClass("tracks");this.model.get("parameter_tree").on("change:tree_data",this.handle_node_clicks,this);var s=this;this.model.get("tracks").each(function(u){u.get("track").view=s});this.config=o.ConfigSettingCollection.from_models_and_saved_values([{key:"name",label:"Name",type:"text",default_value:""},{key:"a_color",label:"A Color",type:"color",default_value:"#FF0000"},{key:"c_color",label:"C Color",type:"color",default_value:"#00FF00"},{key:"g_color",label:"G Color",type:"color",default_value:"#0000FF"},{key:"t_color",label:"T Color",type:"color",default_value:"#FF00FF"},{key:"n_color",label:"N Color",type:"color",default_value:"#AAAAAA"},{key:"block_color",label:"Block color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},],{})},render:function(){var y=new i({model:this.model.get("parameter_tree")});$("#left").append(y.$el);var B=this,v=B.model.get("regions"),z=$("<tr/>").appendTo(this.track_collection_container);v.each(function(C){z.append($("<th>").text(C.toString()))});z.children().first().attr("colspan",2);var w=$("<div>").addClass("tiles");$("#right").append(w.append(this.track_collection_container));B.model.get("tracks").each(function(C){B.add_track(C)});var A=$(this.helpText).addClass("help"),x=create_icon_buttons_menu([{title:"Close",icon_class:"cross-circle",on_click:function(){$(".tooltip").remove();A.remove()}}]);A.prepend(x.$el.css("float","right"));$("#center").append(A);this.tool_param_tree_view.render();$("#center").append(this.tool_param_tree_view.$el);this.handle_node_clicks();var u=create_icon_buttons_menu([{icon_class:"chevron-expand",title:"Set display mode"},{icon_class:"cross-circle",title:"Close",on_click:function(){window.location="${h.url_for( controller='visualization', action='list' )}"}}],{tooltip_config:{placement:"bottom"}});var t=["Squish","Pack"],s={};q.each(t,function(C){s[C]=function(){B.model.set("default_mode",C);B.model.get("tracks").each(function(D){D.set("mode",C)})}});make_popupmenu(u.$el.find(".chevron-expand"),s);u.$el.attr("style","float: right");$("#right .unified-panel-header-inner").append(u.$el)},get_base_color:function(s){return this.config.get_value(s.toLowerCase()+"_color")||this.config.get_value("n_color")},run_tool_on_dataset:function(t){var s=this.model.get("tool"),v=s.get("name"),u=this.model.get("dataset");s.set_input_values(t.get("values"));$.when(s.rerun(u)).then(function(w){});show_modal("Running "+v+" on complete dataset",v+" is running on dataset '"+u.get("name")+"'. Outputs are in the dataset's history.",{Ok:function(){hide_modal()}})},add_track:function(v){var t=this,u=this.model.get("parameter_tree");t.model.add_track(v);var s=new h({model:v,canvas_manager:t.canvas_manager});s.on("run_on_dataset",t.run_tool_on_dataset,t);t.track_collection_container.append(s.$el);s.$el.hover(function(){var x=u.get_leaf(v.get("settings").get("values"));var w=q.pluck(u.get_connected_nodes(x),"id");p.select(t.tool_param_tree_view.$el[0]).selectAll("g.node").filter(function(y){return q.find(w,function(z){return z===y.id})!==undefined}).style("fill","#f00")},function(){p.select(t.tool_param_tree_view.$el[0]).selectAll("g.node").style("fill","#000")});return v},handle_node_clicks:function(){var s=this,t=this.model.get("parameter_tree"),v=this.model.get("regions"),u=p.select(this.tool_param_tree_view.$el[0]).selectAll("g.node");u.on("click",function(B,y){var x=s.model.get("tool"),A=s.model.get("dataset"),z=t.get_node_settings(B),w=$.Deferred();if(z.length>=10){show_modal("Whoa there cowboy!","You clicked on a node to try "+s.model.get("tool").get("name")+" with "+z.length+" different combinations of settings. You can only run 10 jobs at a time.",{Ok:function(){hide_modal();w.resolve(false)}})}else{w.resolve(true)}$.when(w).then(function(C){if(!C){return}var D=q.map(z,function(E){var F=new d({settings:E,regions:v,mode:s.model.get("default_mode")});s.add_track(F);return F});q.each(D,function(F,E){setTimeout(function(){x.set_input_values(F.get("settings").get("values"));$.when(x.rerun(A,v)).then(function(H){var I=H.first(),J=I.get("track_config");J.dataset=I;J.tool=null;J.prefs=s.config.to_key_value_dict();var G=m.object_from_template(J,s,null);G.init_for_tool_data();F.set("track",G)})},E*10000)})})})}});return{SweepsterVisualization:c,SweepsterVisualizationView:f}}); \ No newline at end of file +define(["libs/underscore","libs/d3","viz/trackster/util","viz/visualization","viz/trackster/tracks","mvc/tools","mvc/data","utils/config","mvc/ui/icon-button"],function(r,q,e,k,n,o,s,p,i){var l=Backbone.Model.extend({defaults:{inputs:null,values:null}});var b=Backbone.Model.extend({defaults:{tool:null,tree_data:null},initialize:function(u){var t=this;this.get("tool").get("inputs").each(function(v){v.on("change:min change:max change:num_samples",function(w){if(w.get("in_ptree")){t.set_tree_data()}},t);v.on("change:in_ptree",function(w){if(w.get("in_ptree")){t.add_param(w)}else{t.remove_param(w)}t.set_tree_data()},t)});if(u.config){r.each(u.config,function(w){var v=t.get("tool").get("inputs").find(function(x){return x.get("name")===w.name});t.add_param(v);v.set(w)})}},add_param:function(t){if(t.get("ptree_index")){return}t.set("in_ptree",true);t.set("ptree_index",this.get_tree_params().length)},remove_param:function(t){t.set("in_ptree",false);t.set("ptree_index",null);r(this.get_tree_params()).each(function(u,v){u.set("ptree_index",v+1)})},set_tree_data:function(){var u=r.map(this.get_tree_params(),function(w){return{param:w,samples:w.get_samples()}});var t=0,v=function(z,w){var B=z[w],A=B.param,y=A.get("label"),x=B.samples;if(z.length-1===w){return r.map(x,function(C){return{id:t++,name:C,param:A,value:C}})}return r.map(x,function(C){return{id:t++,name:C,param:A,value:C,children:v(z,w+1)}})};this.set("tree_data",{name:"Root",id:t++,children:(u.length!==0?v(u,0):null)})},get_tree_params:function(){return r(this.get("tool").get("inputs").where({in_ptree:true})).sortBy(function(t){return t.get("ptree_index")})},get_num_leaves:function(){return this.get_tree_params().reduce(function(t,u){return t*u.get_samples().length},1)},get_node_settings:function(x){var v=this.get("tool").get_inputs_dict();var y=x.parent;if(y){while(y.depth!==0){v[y.param.get("name")]=y.value;y=y.parent}}var t=this,u=function(A,z){if(A.param){z[A.param.get("name")]=A.value}if(!A.children){return new l({inputs:t.get("tool").get("inputs"),values:z})}else{return r.flatten(r.map(A.children,function(B){return u(B,r.clone(z))}))}},w=u(x,v);if(!r.isArray(w)){w=[w]}return w},get_connected_nodes:function(v){var w=function(x){if(!x.children){return x}else{return r.flatten([x,r.map(x.children,function(y){return w(y)})])}};var u=[],t=v.parent;while(t){u.push(t);t=t.parent}return r.flatten([u,w(v)])},get_leaf:function(u){var v=this.get("tree_data"),t=function(w){return r.find(w,function(x){return u[x.param.get("name")]===x.value})};while(v.children){v=t(v.children)}return v},toJSON:function(){return this.get_tree_params().map(function(t){return{name:t.get("name"),min:t.get("min"),max:t.get("max"),num_samples:t.get("num_samples")}})}});var d=Backbone.Model.extend({defaults:{track:null,mode:"Pack",settings:null,regions:null},initialize:function(t){this.set("regions",t.regions);if(t.track){var u=r.extend({data_url:galaxy_config.root+"dummy1",converted_datasets_state_url:galaxy_config.root+"dummy2"},t.track);this.set("track",n.object_from_template(u,{},null))}},same_settings:function(t){var u=this.get("settings"),v=t.get("settings");for(var w in u){if(!v[w]||u[w]!==v[w]){return false}}return true},toJSON:function(){return{track:this.get("track").to_dict(),settings:this.get("settings"),regions:this.get("regions")}}});var m=Backbone.Collection.extend({model:d});var c=k.Visualization.extend({defaults:r.extend({},k.Visualization.prototype.defaults,{dataset:null,tool:null,parameter_tree:null,regions:null,tracks:null,default_mode:"Pack"}),initialize:function(t){this.set("dataset",new s.Dataset(t.dataset));this.set("tool",new o.Tool(t.tool));this.set("regions",new k.GenomeRegionCollection(t.regions));this.set("tracks",new m(t.tracks));var u=this.get("tool");this.set("tool_with_samplable_inputs",u);u.remove_inputs(["data","hidden_data","conditional","text"]);this.set("parameter_tree",new b({tool:u,config:t.tree_config}))},add_track:function(t){this.get("tracks").add(t)},toJSON:function(){return{id:this.get("id"),title:"Parameter exploration for dataset '"+this.get("dataset").get("name")+"'",type:"sweepster",dataset_id:this.get("dataset").id,tool_id:this.get("tool").id,regions:this.get("regions").toJSON(),tree_config:this.get("parameter_tree").toJSON(),tracks:this.get("tracks").toJSON()}}});var h=Backbone.View.extend({tagName:"tr",TILE_LEN:250,initialize:function(t){this.canvas_manager=t.canvas_manager;this.render();this.model.on("change:track change:mode",this.draw_tiles,this)},render:function(){var y=this.model.get("settings"),u=y.get("values"),w=$("<td/>").addClass("settings").appendTo(this.$el),v=$("<div/>").addClass("track-info").hide().appendTo(w);v.append($("<div/>").css("font-weight","bold").text("Track Settings"));y.get("inputs").each(function(A){v.append(A.get("label")+": "+u[A.get("name")]+"<br/>")});var t=this,z=$("<button/>").appendTo(v).text("Run on complete dataset").click(function(){v.toggle();t.trigger("run_on_dataset",y)});var x=i.create_icon_buttons_menu([{title:"Settings",icon_class:"gear track-settings",on_click:function(){v.toggle()}},{title:"Remove",icon_class:"cross-circle",on_click:function(){t.$el.remove();$(".tooltip").remove()}}]);w.prepend(x.$el);this.model.get("regions").each(function(){t.$el.append($("<td/>").addClass("tile").html($("<img/>").attr("src",galaxy_config.root+"images/loading_large_white_bg.gif")))});if(this.model.get("track")){this.draw_tiles()}},draw_tiles:function(){var u=this,t=this.model.get("track"),w=this.model.get("regions"),v=this.$el.find("td.tile");if(!t){return}$.when(t.data_manager.data_is_ready()).then(function(x){w.each(function(A,z){var y=A.length()/u.TILE_LEN,C=1/y,B=u.model.get("mode");$.when(t.data_manager.get_data(A,B,y,{})).then(function(E){var D=u.canvas_manager.new_canvas();D.width=u.TILE_LEN;D.height=t.get_canvas_height(E,B,C,D.width);t.draw_tile(E,D.getContext("2d"),B,A,C);$(v[z]).empty().append(D)})})})}});var g=Backbone.View.extend({number_input_template:'<div class="form-row-input sweep"><input class="min" type="text" size="6" value="<%= min %>"> - <input class="max" type="text" size="6" value="<%= max %>"> samples: <input class="num_samples" type="text" size="1" value="<%= num_samples %>"></div>',select_input_template:'<div class="form-row-input sweep"><%= options %></div>',initialize:function(t){this.$el=t.tool_row;this.render()},render:function(){var u=this.model,y=u.get("type"),A=this.$el.find(".form-row-input"),w=null;A.find(":input").change(function(){u.set("value",$(this).val())});if(u instanceof o.IntegerToolParameter){w=$(r.template(this.number_input_template,this.model.toJSON()))}else{if(u instanceof o.SelectToolParameter){var v=r.map(this.$el.find("select option"),function(B){return $(B).val()}),x=v.join(", ");w=$(r.template(this.select_input_template,{options:x}))}}w.insertAfter(A);var t=this,z=i.create_icon_buttons_menu([{title:"Add parameter to tree",icon_class:"plus-button",on_click:function(){u.set("in_ptree",true);A.hide();w.show();$(this).hide();t.$el.find(".icon-button.toggle").show()}},{title:"Remove parameter from tree",icon_class:"toggle",on_click:function(){u.set("in_ptree",false);w.hide();A.show();$(this).hide();t.$el.find(".icon-button.plus-button").show()}}],{});this.$el.prepend(z.$el);if(u.get("in_ptree")){A.hide();t.$el.find(".icon-button.plus-button").hide()}else{t.$el.find(".icon-button.toggle").hide();w.hide()}r.each(["min","max","num_samples"],function(B){w.find("."+B).change(function(){u.set(B,parseFloat($(this).val()))})})}});var j=Backbone.View.extend({className:"tree-design",initialize:function(t){this.render()},render:function(){var v=new o.ToolFormView({model:this.model.get("tool")});v.render();this.$el.append(v.$el);var u=this,t=u.model.get("tool").get("inputs");this.$el.find(".form-row").not(".form-actions").each(function(w){var x=new g({model:t.at(w),tool_row:$(this)})})}});var a=Backbone.View.extend({className:"tool-parameter-tree",initialize:function(t){this.model.on("change:tree_data",this.render,this)},render:function(){this.$el.children().remove();var B=this.model.get_tree_params();if(!B.length){return}this.width=100*(2+B.length);this.height=15*this.model.get_num_leaves();var A=this;var z=q.layout.cluster().size([this.height,this.width-160]);var v=q.svg.diagonal().projection(function(C){return[C.y,C.x]});var t=z.nodes(this.model.get("tree_data"));var w=r.uniq(r.pluck(t,"y"));r.each(B,function(E,D){var C=w[D+1],F=$("#center").position().left;A.$el.append($("<div>").addClass("label").text(E.get("label")).css("left",C+F))});var u=q.select(this.$el[0]).append("svg").attr("width",this.width).attr("height",this.height+30).append("g").attr("transform","translate(40, 20)");var y=u.selectAll("path.link").data(z.links(t)).enter().append("path").attr("class","link").attr("d",v);var x=u.selectAll("g.node").data(t).enter().append("g").attr("class","node").attr("transform",function(C){return"translate("+C.y+","+C.x+")"}).on("mouseover",function(D){var C=r.pluck(A.model.get_connected_nodes(D),"id");x.filter(function(E){return r.find(C,function(F){return F===E.id})!==undefined}).style("fill","#f00")}).on("mouseout",function(){x.style("fill","#000")});x.append("circle").attr("r",9);x.append("text").attr("dx",function(C){return C.children?-12:12}).attr("dy",3).attr("text-anchor",function(C){return C.children?"end":"start"}).text(function(C){return C.name})}});var f=Backbone.View.extend({className:"Sweepster",helpText:"<div><h4>Getting Started</h4><ol><li>Create a parameter tree by using the icons next to the tool's parameter names to add or remove parameters.<li>Adjust the tree by using parameter inputs to select min, max, and number of samples<li>Run the tool with different settings by clicking on tree nodes</ol></div>",initialize:function(u){this.canvas_manager=new k.CanvasManager(this.$el.parents("body"));this.tool_param_tree_view=new a({model:this.model.get("parameter_tree")});this.track_collection_container=$("<table/>").addClass("tracks");this.model.get("parameter_tree").on("change:tree_data",this.handle_node_clicks,this);var t=this;this.model.get("tracks").each(function(v){v.get("track").view=t});this.config=p.ConfigSettingCollection.from_models_and_saved_values([{key:"name",label:"Name",type:"text",default_value:""},{key:"a_color",label:"A Color",type:"color",default_value:"#FF0000"},{key:"c_color",label:"C Color",type:"color",default_value:"#00FF00"},{key:"g_color",label:"G Color",type:"color",default_value:"#0000FF"},{key:"t_color",label:"T Color",type:"color",default_value:"#FF00FF"},{key:"n_color",label:"N Color",type:"color",default_value:"#AAAAAA"},{key:"block_color",label:"Block color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},],{})},render:function(){var z=new j({model:this.model.get("parameter_tree")});$("#left").append(z.$el);var C=this,w=C.model.get("regions"),A=$("<tr/>").appendTo(this.track_collection_container);w.each(function(D){A.append($("<th>").text(D.toString()))});A.children().first().attr("colspan",2);var x=$("<div>").addClass("tiles");$("#right").append(x.append(this.track_collection_container));C.model.get("tracks").each(function(D){C.add_track(D)});var B=$(this.helpText).addClass("help"),y=i.create_icon_buttons_menu([{title:"Close",icon_class:"cross-circle",on_click:function(){$(".tooltip").remove();B.remove()}}]);B.prepend(y.$el.css("float","right"));$("#center").append(B);this.tool_param_tree_view.render();$("#center").append(this.tool_param_tree_view.$el);this.handle_node_clicks();var v=i.create_icon_buttons_menu([{icon_class:"chevron-expand",title:"Set display mode"},{icon_class:"cross-circle",title:"Close",on_click:function(){window.location="${h.url_for( controller='visualization', action='list' )}"}}],{tooltip_config:{placement:"bottom"}});var u=["Squish","Pack"],t={};r.each(u,function(D){t[D]=function(){C.model.set("default_mode",D);C.model.get("tracks").each(function(E){E.set("mode",D)})}});make_popupmenu(v.$el.find(".chevron-expand"),t);v.$el.attr("style","float: right");$("#right .unified-panel-header-inner").append(v.$el)},get_base_color:function(t){return this.config.get_value(t.toLowerCase()+"_color")||this.config.get_value("n_color")},run_tool_on_dataset:function(u){var t=this.model.get("tool"),w=t.get("name"),v=this.model.get("dataset");t.set_input_values(u.get("values"));$.when(t.rerun(v)).then(function(x){});show_modal("Running "+w+" on complete dataset",w+" is running on dataset '"+v.get("name")+"'. Outputs are in the dataset's history.",{Ok:function(){hide_modal()}})},add_track:function(w){var u=this,v=this.model.get("parameter_tree");u.model.add_track(w);var t=new h({model:w,canvas_manager:u.canvas_manager});t.on("run_on_dataset",u.run_tool_on_dataset,u);u.track_collection_container.append(t.$el);t.$el.hover(function(){var y=v.get_leaf(w.get("settings").get("values"));var x=r.pluck(v.get_connected_nodes(y),"id");q.select(u.tool_param_tree_view.$el[0]).selectAll("g.node").filter(function(z){return r.find(x,function(A){return A===z.id})!==undefined}).style("fill","#f00")},function(){q.select(u.tool_param_tree_view.$el[0]).selectAll("g.node").style("fill","#000")});return w},handle_node_clicks:function(){var t=this,u=this.model.get("parameter_tree"),w=this.model.get("regions"),v=q.select(this.tool_param_tree_view.$el[0]).selectAll("g.node");v.on("click",function(C,z){var y=t.model.get("tool"),B=t.model.get("dataset"),A=u.get_node_settings(C),x=$.Deferred();if(A.length>=10){show_modal("Whoa there cowboy!","You clicked on a node to try "+t.model.get("tool").get("name")+" with "+A.length+" different combinations of settings. You can only run 10 jobs at a time.",{Ok:function(){hide_modal();x.resolve(false)}})}else{x.resolve(true)}$.when(x).then(function(D){if(!D){return}var E=r.map(A,function(F){var G=new d({settings:F,regions:w,mode:t.model.get("default_mode")});t.add_track(G);return G});r.each(E,function(G,F){setTimeout(function(){y.set_input_values(G.get("settings").get("values"));$.when(y.rerun(B,w)).then(function(I){var J=I.first(),K=J.get("track_config");K.dataset=J;K.tool=null;K.prefs=t.config.to_key_value_dict();var H=n.object_from_template(K,t,null);H.init_for_tool_data();G.set("track",H)})},F*10000)})})})}});return{SweepsterVisualization:c,SweepsterVisualizationView:f}}); \ No newline at end of file diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/packed/viz/trackster.js --- a/static/scripts/packed/viz/trackster.js +++ b/static/scripts/packed/viz/trackster.js @@ -1,1 +1,1 @@ -var ui=null;var view=null;var browser_router=null;require(["utils/utils","libs/jquery/jquery.event.drag","libs/jquery/jquery.event.hover","libs/jquery/jquery.mousewheel","libs/jquery/jquery-ui","libs/jquery/select2","libs/farbtastic","libs/jquery/jquery.form","libs/jquery/jquery.rating","mvc/ui"],function(a){a.cssLoadFile("static/style/jquery.rating.css");a.cssLoadFile("static/style/autocomplete_tagging.css");a.cssLoadFile("static/style/jquery-ui/smoothness/jquery-ui.css");a.cssLoadFile("static/style/library.css");a.cssLoadFile("static/style/trackster.css")});define(["libs/underscore","base","viz/trackster/tracks","viz/visualization"],function(b,e,a,c){var d=e.Base.extend({initialize:function(g){this.baseURL=g},save_viz:function(){Galaxy.modal.show({title:"Saving...",body:"progress"});var g=[];$(".bookmark").each(function(){g.push({position:$(this).children(".position").text(),annotation:$(this).children(".annotation").text()})});var h=(view.overview_drawable?view.overview_drawable.config.get_value("name"):null),j={view:view.to_dict(),viewport:{chrom:view.chrom,start:view.low,end:view.high,overview:h},bookmarks:g};return $.ajax({url:galaxy_config.root+"visualization/save",type:"POST",dataType:"json",data:{id:view.vis_id,title:view.config.get_value("name"),dbkey:view.dbkey,type:"trackster",vis_json:JSON.stringify(j)}}).success(function(k){Galaxy.modal.hide();view.vis_id=k.vis_id;view.has_changes=false;window.history.pushState({},"",k.url+window.location.hash)}).error(function(){Galaxy.modal.show({title:"Could Not Save",body:"Could not save visualization. Please try again later.",buttons:{Cancel:function(){Galaxy.modal.hide()}}})})},createButtonMenu:function(){var g=this,h=create_icon_buttons_menu([{icon_class:"plus-button",title:"Add tracks",on_click:function(){c.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":view.dbkey},function(j){b.each(j,function(k){view.add_drawable(a.object_from_template(k,view,view))})})}},{icon_class:"block--plus",title:"Add group",on_click:function(){view.add_drawable(new a.DrawableGroup(view,view,{name:"New Group"}))}},{icon_class:"bookmarks",title:"Bookmarks",on_click:function(){force_right_panel(($("div#right").css("right")=="0px"?"hide":"show"))}},{icon_class:"globe",title:"Circster",on_click:function(){window.location=g.baseURL+"visualization/circster?id="+view.vis_id}},{icon_class:"disk--arrow",title:"Save",on_click:function(){g.save_viz()}},{icon_class:"cross-circle",title:"Close",on_click:function(){g.handle_unsaved_changes(view)}}],{tooltip_config:{placement:"bottom"}});this.buttonMenu=h;return h},add_bookmarks:function(){var g=this,h=this.baseURL;Galaxy.modal.show({title:"Select dataset for new bookmarks",body:"progress"});$.ajax({url:this.baseURL+"/visualization/list_histories",data:{"f-dbkey":view.dbkey},error:function(){alert("Grid failed")},success:function(j){Galaxy.modal.show({title:"Select dataset for new bookmarks",body:j,buttons:{Cancel:function(){Galaxy.modal.hide()},Insert:function(){$("input[name=id]:checked,input[name=ldda_ids]:checked").first().each(function(){var k,l=$(this).val();if($(this).attr("name")==="id"){k={hda_id:l}}else{k={ldda_id:l}}$.ajax({url:this.baseURL+"/visualization/bookmarks_from_dataset",data:k,dataType:"json"}).then(function(m){for(i=0;i<m.data.length;i++){var n=m.data[i];g.add_bookmark(n[0],n[1])}})});Galaxy.modal.hide()}}})}})},add_bookmark:function(l,j,g){var n=$("#right .unified-panel-body"),p=$("<div/>").addClass("bookmark").appendTo(n);var q=$("<div/>").addClass("position").appendTo(p),m=$("<a href=''/>").text(l).appendTo(q).click(function(){view.go_to(l);return false}),k=$("<div/>").text(j).appendTo(p);if(g){var o=$("<div/>").addClass("delete-icon-container").prependTo(p).click(function(){p.slideUp("fast");p.remove();view.has_changes=true;return false}),h=$("<a href=''/>").addClass("icon-button delete").appendTo(o);k.make_text_editable({num_rows:3,use_textarea:true,help_text:"Edit bookmark note"}).addClass("annotation")}view.has_changes=true;return p},create_visualization:function(m,g,l,n,k){var j=this,h=new a.TracksterView(b.extend(m,{header:false}));h.editor=true;$.when(h.load_chroms_deferred).then(function(y){if(g){var w=g.chrom,o=g.start,t=g.end,q=g.overview;if(w&&(o!==undefined)&&t){h.change_chrom(w,o,t)}else{h.change_chrom(y[0].chrom)}}else{h.change_chrom(y[0].chrom)}if(l){var r,p,s;for(var u=0;u<l.length;u++){h.add_drawable(a.object_from_template(l[u],h,h))}}var x;for(var u=0;u<h.drawables.length;u++){if(h.drawables[u].config.get_value("name")===q){h.set_overview(h.drawables[u]);break}}if(n){var v;for(var u=0;u<n.length;u++){v=n[u];j.add_bookmark(v.position,v.annotation,k)}}h.has_changes=false});this.set_up_router({view:h});return h},set_up_router:function(g){new c.TrackBrowserRouter(g);Backbone.history.start()},init_keyboard_nav:function(g){$(document).keyup(function(h){if($(h.srcElement).is(":input")){return}switch(h.which){case 37:g.move_fraction(0.25);break;case 38:var j=Math.round(g.viewport_container.height()/15);g.viewport_container.scrollTop(g.viewport_container.scrollTop()-20);break;case 39:g.move_fraction(-0.25);break;case 40:var j=Math.round(g.viewport_container.height()/15);g.viewport_container.scrollTop(g.viewport_container.scrollTop()+20);break}})},handle_unsaved_changes:function(g){if(g.has_changes){var h=this;Galaxy.modal.show({title:"Close visualization",body:"There are unsaved changes to your visualization which will be lost if you do not save them.",buttons:{Cancel:function(){Galaxy.modal.hide()},"Leave without Saving":function(){$(window).off("beforeunload");window.location=galaxy_config.root+"visualization"},Save:function(){$.when(h.save_viz()).then(function(){window.location=galaxy_config.root+"visualization"})}}})}else{window.location=galaxy_config.root+"visualization"}}});var f=e.Backbone.View.extend({initialize:function(){ui=new d(galaxy_config.root);ui.createButtonMenu();ui.buttonMenu.$el.attr("style","float: right");$("#center .unified-panel-header-inner").append(ui.buttonMenu.$el);$("#right .unified-panel-title").append("Bookmarks");$("#right .unified-panel-icons").append("<a id='add-bookmark-button' class='icon-button menu-button plus-button' href='javascript:void(0);' title='Add bookmark'></a>");$("#right-border").click(function(){view.resize_window()});force_right_panel("hide");if(galaxy_config.app.id){this.view_existing()}else{this.view_new()}},view_existing:function(){var g=galaxy_config.app.viz_config;view=ui.create_visualization({container:$("#center .unified-panel-body"),name:g.title,vis_id:g.vis_id,dbkey:g.dbkey},g.viewport,g.tracks,g.bookmarks,true);this.init_editor()},view_new:function(){var g=this;$.ajax({url:galaxy_config.root+"api/genomes?chrom_info=True",data:{},error:function(){alert("Couldn't create new browser.")},success:function(h){Galaxy.modal.show({title:"New Visualization",body:g.template_view_new(h),buttons:{Cancel:function(){window.location=galaxy_config.root+"visualization/list"},Create:function(){g.create_browser($("#new-title").val(),$("#new-dbkey").val());Galaxy.modal.hide()}}});if(galaxy_config.app.default_dbkey){$("#new-dbkey").val(galaxy_config.app.default_dbkey)}$("#new-title").focus();$("select[name='dbkey']").select2();$("#overlay").css("overflow","auto")}})},template_view_new:function(g){var j='<form id="new-browser-form" action="javascript:void(0);" method="post" onsubmit="return false;"><div class="form-row"><label for="new-title">Browser name:</label><div class="form-row-input"><input type="text" name="title" id="new-title" value="Unnamed"></input></div><div style="clear: both;"></div></div><div class="form-row"><label for="new-dbkey">Reference genome build (dbkey): </label><div class="form-row-input"><select name="dbkey" id="new-dbkey">';for(var h=0;h<g.length;h++){j+='<option value="'+g[h][1]+'">'+g[h][0]+"</option>"}j+='</select></div><div style="clear: both;"></div></div><div class="form-row">Is the build not listed here? <a href="'+galaxy_config.root+'user/dbkeys?use_panels=True">Add a Custom Build</a></div></form>';return j},create_browser:function(h,g){$(document).trigger("convert_to_values");view=ui.create_visualization({container:$("#center .unified-panel-body"),name:h,dbkey:g},galaxy_config.app.gene_region);this.init_editor();view.editor=true},init_editor:function(){$("#center .unified-panel-title").text(view.config.get_value("name")+" ("+view.dbkey+")");if(galaxy_config.app.add_dataset){$.ajax({url:galaxy_config.root+"api/datasets/"+galaxy_config.app.add_dataset,data:{hda_ldda:"hda",data_type:"track_config"},dataType:"json",success:function(g){view.add_drawable(a.object_from_template(g,view,view))}})}$("#add-bookmark-button").click(function(){var h=view.chrom+":"+view.low+"-"+view.high,g="Bookmark description";return ui.add_bookmark(h,g,true)});ui.init_keyboard_nav(view);$(window).on("beforeunload",function(){if(view.has_changes){return"There are unsaved changes to your visualization that will be lost if you leave this page."}})}});return{TracksterUI:d,GalaxyApp:f}}); \ No newline at end of file +var ui=null;var view=null;var browser_router=null;require(["utils/utils","mvc/ui/icon-button","libs/jquery/jquery.event.drag","libs/jquery/jquery.event.hover","libs/jquery/jquery.mousewheel","libs/jquery/jquery-ui","libs/jquery/select2","libs/farbtastic","libs/jquery/jquery.form","libs/jquery/jquery.rating","mvc/ui"],function(b,a){b.cssLoadFile("static/style/jquery.rating.css");b.cssLoadFile("static/style/autocomplete_tagging.css");b.cssLoadFile("static/style/jquery-ui/smoothness/jquery-ui.css");b.cssLoadFile("static/style/library.css");b.cssLoadFile("static/style/trackster.css")});define(["libs/underscore","base","viz/trackster/tracks","viz/visualization"],function(b,e,a,c){var d=e.Base.extend({initialize:function(g){this.baseURL=g},save_viz:function(){Galaxy.modal.show({title:"Saving...",body:"progress"});var g=[];$(".bookmark").each(function(){g.push({position:$(this).children(".position").text(),annotation:$(this).children(".annotation").text()})});var h=(view.overview_drawable?view.overview_drawable.config.get_value("name"):null),j={view:view.to_dict(),viewport:{chrom:view.chrom,start:view.low,end:view.high,overview:h},bookmarks:g};return $.ajax({url:galaxy_config.root+"visualization/save",type:"POST",dataType:"json",data:{id:view.vis_id,title:view.config.get_value("name"),dbkey:view.dbkey,type:"trackster",vis_json:JSON.stringify(j)}}).success(function(k){Galaxy.modal.hide();view.vis_id=k.vis_id;view.has_changes=false;window.history.pushState({},"",k.url+window.location.hash)}).error(function(){Galaxy.modal.show({title:"Could Not Save",body:"Could not save visualization. Please try again later.",buttons:{Cancel:function(){Galaxy.modal.hide()}}})})},createButtonMenu:function(){var g=this,h=mod_icon_btn.create_icon_buttons_menu([{icon_class:"plus-button",title:"Add tracks",on_click:function(){c.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":view.dbkey},function(j){b.each(j,function(k){view.add_drawable(a.object_from_template(k,view,view))})})}},{icon_class:"block--plus",title:"Add group",on_click:function(){view.add_drawable(new a.DrawableGroup(view,view,{name:"New Group"}))}},{icon_class:"bookmarks",title:"Bookmarks",on_click:function(){force_right_panel(($("div#right").css("right")=="0px"?"hide":"show"))}},{icon_class:"globe",title:"Circster",on_click:function(){window.location=g.baseURL+"visualization/circster?id="+view.vis_id}},{icon_class:"disk--arrow",title:"Save",on_click:function(){g.save_viz()}},{icon_class:"cross-circle",title:"Close",on_click:function(){g.handle_unsaved_changes(view)}}],{tooltip_config:{placement:"bottom"}});this.buttonMenu=h;return h},add_bookmarks:function(){var g=this,h=this.baseURL;Galaxy.modal.show({title:"Select dataset for new bookmarks",body:"progress"});$.ajax({url:this.baseURL+"/visualization/list_histories",data:{"f-dbkey":view.dbkey},error:function(){alert("Grid failed")},success:function(j){Galaxy.modal.show({title:"Select dataset for new bookmarks",body:j,buttons:{Cancel:function(){Galaxy.modal.hide()},Insert:function(){$("input[name=id]:checked,input[name=ldda_ids]:checked").first().each(function(){var k,l=$(this).val();if($(this).attr("name")==="id"){k={hda_id:l}}else{k={ldda_id:l}}$.ajax({url:this.baseURL+"/visualization/bookmarks_from_dataset",data:k,dataType:"json"}).then(function(m){for(i=0;i<m.data.length;i++){var n=m.data[i];g.add_bookmark(n[0],n[1])}})});Galaxy.modal.hide()}}})}})},add_bookmark:function(l,j,g){var n=$("#right .unified-panel-body"),p=$("<div/>").addClass("bookmark").appendTo(n);var q=$("<div/>").addClass("position").appendTo(p),m=$("<a href=''/>").text(l).appendTo(q).click(function(){view.go_to(l);return false}),k=$("<div/>").text(j).appendTo(p);if(g){var o=$("<div/>").addClass("delete-icon-container").prependTo(p).click(function(){p.slideUp("fast");p.remove();view.has_changes=true;return false}),h=$("<a href=''/>").addClass("icon-button delete").appendTo(o);k.make_text_editable({num_rows:3,use_textarea:true,help_text:"Edit bookmark note"}).addClass("annotation")}view.has_changes=true;return p},create_visualization:function(m,g,l,n,k){var j=this,h=new a.TracksterView(b.extend(m,{header:false}));h.editor=true;$.when(h.load_chroms_deferred).then(function(y){if(g){var w=g.chrom,o=g.start,t=g.end,q=g.overview;if(w&&(o!==undefined)&&t){h.change_chrom(w,o,t)}else{h.change_chrom(y[0].chrom)}}else{h.change_chrom(y[0].chrom)}if(l){var r,p,s;for(var u=0;u<l.length;u++){h.add_drawable(a.object_from_template(l[u],h,h))}}var x;for(var u=0;u<h.drawables.length;u++){if(h.drawables[u].config.get_value("name")===q){h.set_overview(h.drawables[u]);break}}if(n){var v;for(var u=0;u<n.length;u++){v=n[u];j.add_bookmark(v.position,v.annotation,k)}}h.has_changes=false});this.set_up_router({view:h});return h},set_up_router:function(g){new c.TrackBrowserRouter(g);Backbone.history.start()},init_keyboard_nav:function(g){$(document).keyup(function(h){if($(h.srcElement).is(":input")){return}switch(h.which){case 37:g.move_fraction(0.25);break;case 38:var j=Math.round(g.viewport_container.height()/15);g.viewport_container.scrollTop(g.viewport_container.scrollTop()-20);break;case 39:g.move_fraction(-0.25);break;case 40:var j=Math.round(g.viewport_container.height()/15);g.viewport_container.scrollTop(g.viewport_container.scrollTop()+20);break}})},handle_unsaved_changes:function(g){if(g.has_changes){var h=this;Galaxy.modal.show({title:"Close visualization",body:"There are unsaved changes to your visualization which will be lost if you do not save them.",buttons:{Cancel:function(){Galaxy.modal.hide()},"Leave without Saving":function(){$(window).off("beforeunload");window.location=galaxy_config.root+"visualization"},Save:function(){$.when(h.save_viz()).then(function(){window.location=galaxy_config.root+"visualization"})}}})}else{window.location=galaxy_config.root+"visualization"}}});var f=e.Backbone.View.extend({initialize:function(){ui=new d(galaxy_config.root);ui.createButtonMenu();ui.buttonMenu.$el.attr("style","float: right");$("#center .unified-panel-header-inner").append(ui.buttonMenu.$el);$("#right .unified-panel-title").append("Bookmarks");$("#right .unified-panel-icons").append("<a id='add-bookmark-button' class='icon-button menu-button plus-button' href='javascript:void(0);' title='Add bookmark'></a>");$("#right-border").click(function(){view.resize_window()});force_right_panel("hide");if(galaxy_config.app.id){this.view_existing()}else{this.view_new()}},view_existing:function(){var g=galaxy_config.app.viz_config;view=ui.create_visualization({container:$("#center .unified-panel-body"),name:g.title,vis_id:g.vis_id,dbkey:g.dbkey},g.viewport,g.tracks,g.bookmarks,true);this.init_editor()},view_new:function(){var g=this;$.ajax({url:galaxy_config.root+"api/genomes?chrom_info=True",data:{},error:function(){alert("Couldn't create new browser.")},success:function(h){Galaxy.modal.show({title:"New Visualization",body:g.template_view_new(h),buttons:{Cancel:function(){window.location=galaxy_config.root+"visualization/list"},Create:function(){g.create_browser($("#new-title").val(),$("#new-dbkey").val());Galaxy.modal.hide()}}});if(galaxy_config.app.default_dbkey){$("#new-dbkey").val(galaxy_config.app.default_dbkey)}$("#new-title").focus();$("select[name='dbkey']").select2();$("#overlay").css("overflow","auto")}})},template_view_new:function(g){var j='<form id="new-browser-form" action="javascript:void(0);" method="post" onsubmit="return false;"><div class="form-row"><label for="new-title">Browser name:</label><div class="form-row-input"><input type="text" name="title" id="new-title" value="Unnamed"></input></div><div style="clear: both;"></div></div><div class="form-row"><label for="new-dbkey">Reference genome build (dbkey): </label><div class="form-row-input"><select name="dbkey" id="new-dbkey">';for(var h=0;h<g.length;h++){j+='<option value="'+g[h][1]+'">'+g[h][0]+"</option>"}j+='</select></div><div style="clear: both;"></div></div><div class="form-row">Is the build not listed here? <a href="'+galaxy_config.root+'user/dbkeys?use_panels=True">Add a Custom Build</a></div></form>';return j},create_browser:function(h,g){$(document).trigger("convert_to_values");view=ui.create_visualization({container:$("#center .unified-panel-body"),name:h,dbkey:g},galaxy_config.app.gene_region);this.init_editor();view.editor=true},init_editor:function(){$("#center .unified-panel-title").text(view.config.get_value("name")+" ("+view.dbkey+")");if(galaxy_config.app.add_dataset){$.ajax({url:galaxy_config.root+"api/datasets/"+galaxy_config.app.add_dataset,data:{hda_ldda:"hda",data_type:"track_config"},dataType:"json",success:function(g){view.add_drawable(a.object_from_template(g,view,view))}})}$("#add-bookmark-button").click(function(){var h=view.chrom+":"+view.low+"-"+view.high,g="Bookmark description";return ui.add_bookmark(h,g,true)});ui.init_keyboard_nav(view);$(window).on("beforeunload",function(){if(view.has_changes){return"There are unsaved changes to your visualization that will be lost if you leave this page."}})}});return{TracksterUI:d,GalaxyApp:f}}); \ No newline at end of file diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/viz/circster.js --- a/static/scripts/viz/circster.js +++ b/static/scripts/viz/circster.js @@ -2,8 +2,9 @@ require( [ 'utils/utils', + 'mvc/ui/icon-button', 'libs/farbtastic', -], function(mod_utils) +], function(mod_utils, mod_icon_btn) { // load css mod_utils.cssLoadFile("static/style/circster.css"); @@ -1075,7 +1076,7 @@ $('#center .unified-panel-header-inner').append(galaxy_config.app.viz_config.title + " " + galaxy_config.app.viz_config.dbkey); // setup menu - var menu = create_icon_buttons_menu([ + var menu = mod_icon_btn.create_icon_buttons_menu([ { icon_class: 'plus-button', title: 'Add tracks', on_click: function() { diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/viz/phyloviz.js --- a/static/scripts/viz/phyloviz.js +++ b/static/scripts/viz/phyloviz.js @@ -1,4 +1,9 @@ -define(['libs/d3', 'viz/visualization', 'mvc/data'], function(d3, visualization_mod, data_mod) { +define([ + 'libs/d3', + 'viz/visualization', + 'mvc/data', + 'mvc/ui/icon-button' +], function(d3, visualization_mod, data_mod, mod_icon_btn) { /** * Base class of any menus that takes in user interaction. Contains checking methods. @@ -720,7 +725,7 @@ initRightHeaderBtns : function(){ var self = this; - rightMenu = create_icon_buttons_menu([ + rightMenu = mod_icon_btn.create_icon_buttons_menu([ { icon_class: 'gear', title: 'PhyloViz Settings', on_click: function(){ $("#SettingsMenu").show(); self.settingsMenu.updateUI(); @@ -748,7 +753,7 @@ initNavBtns: function() { var self = this, - navMenu = create_icon_buttons_menu([ + navMenu = mod_icon_btn.create_icon_buttons_menu([ { icon_class: 'zoom-in', title: 'Zoom in', on_click: function() { self.phylovizView.zoomAndPan({ zoom : "+"}); } }, diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/viz/sweepster.js --- a/static/scripts/viz/sweepster.js +++ b/static/scripts/viz/sweepster.js @@ -3,8 +3,8 @@ * genomic visualization. */ -define(["libs/underscore", "libs/d3", "viz/trackster/util", "viz/visualization", "viz/trackster/tracks", "mvc/tools", "mvc/data", "utils/config"], - function(_, d3, util, visualization, tracks, tools, data, config) { +define(["libs/underscore", "libs/d3", "viz/trackster/util", "viz/visualization", "viz/trackster/tracks", "mvc/tools", "mvc/data", "utils/config", "mvc/ui/icon-button"], + function(_, d3, util, visualization, tracks, tools, data, config, mod_icon_btn) { /** * A collection of tool input settings. Object is useful for keeping a list of settings @@ -375,7 +375,7 @@ settings_div.toggle(); self.trigger('run_on_dataset', settings); }); - var icon_menu = create_icon_buttons_menu([ + var icon_menu = mod_icon_btn.create_icon_buttons_menu([ { title: 'Settings', icon_class: 'gear track-settings', @@ -486,7 +486,7 @@ // Add buttons for adding/removing parameter. var self = this, - menu = create_icon_buttons_menu([ + menu = mod_icon_btn.create_icon_buttons_menu([ { title: 'Add parameter to tree', icon_class: 'plus-button', @@ -723,7 +723,7 @@ // Help includes text and a close button. var help_div = $(this.helpText).addClass('help'), - close_button = create_icon_buttons_menu([ + close_button = mod_icon_btn.create_icon_buttons_menu([ { title: 'Close', icon_class: 'cross-circle', @@ -745,7 +745,7 @@ this.handle_node_clicks(); // Set up visualization menu. - var menu = create_icon_buttons_menu( + var menu = mod_icon_btn.create_icon_buttons_menu( [ // Save. /* @@ -939,4 +939,4 @@ SweepsterVisualizationView: SweepsterVisualizationView }; -}); \ No newline at end of file +}); diff -r 5b5dde05d21f02afa23cfe1c98396002d907de21 -r 31c50ee295791a8797ff8391986a469778091ee9 static/scripts/viz/trackster.js --- a/static/scripts/viz/trackster.js +++ b/static/scripts/viz/trackster.js @@ -12,6 +12,7 @@ [ // load js libraries 'utils/utils', + 'mvc/ui/icon-button', 'libs/jquery/jquery.event.drag', 'libs/jquery/jquery.event.hover', 'libs/jquery/jquery.mousewheel', @@ -21,7 +22,7 @@ 'libs/jquery/jquery.form', 'libs/jquery/jquery.rating', 'mvc/ui' -], function(mod_utils) +], function(mod_utils, mod_icon_btn) { // load css mod_utils.cssLoadFile("static/style/jquery.rating.css"); @@ -101,7 +102,7 @@ */ createButtonMenu: function() { var self = this, - menu = create_icon_buttons_menu([ + menu = mod_icon_btn.create_icon_buttons_menu([ { icon_class: 'plus-button', title: 'Add tracks', on_click: function() { visualization.select_datasets(galaxy_config.root + "visualization/list_current_history_datasets", galaxy_config.root + "api/datasets", { 'f-dbkey': view.dbkey }, function(new_tracks) { @@ -571,4 +572,4 @@ GalaxyApp : TracksterView }; -}); \ No newline at end of file +}); Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: carlfeberhard: Client build: modularize popup menu from ui.js
by commits-noreply＠bitbucket.org 09 Dec '14

09 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/5b5dde05d21f/ Changeset: 5b5dde05d21f User: carlfeberhard Date: 2014-12-09 18:06:41+00:00 Summary: Client build: modularize popup menu from ui.js Affected #: 15 files diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 client/galaxy/scripts/mvc/grid/grid-view.js --- a/client/galaxy/scripts/mvc/grid/grid-view.js +++ b/client/galaxy/scripts/mvc/grid/grid-view.js @@ -3,7 +3,11 @@ jQuery.ajaxSettings.traditional = true; // dependencies -define(['mvc/grid/grid-model', 'mvc/grid/grid-template', 'mvc/ui'], function(GridModel, Templates) { +define([ + 'mvc/grid/grid-model', + 'mvc/grid/grid-template', + "mvc/ui/popup-menu" +], function(GridModel, Templates, PopupMenu) { // grid view return Backbone.View.extend({ @@ -661,4 +665,4 @@ } }); -}); \ No newline at end of file +}); diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 client/galaxy/scripts/mvc/history/history-panel-edit.js --- a/client/galaxy/scripts/mvc/history/history-panel-edit.js +++ b/client/galaxy/scripts/mvc/history/history-panel-edit.js @@ -8,6 +8,7 @@ "mvc/tags", "mvc/annotations", "jq-plugins/ui/fa-icon-button", + "mvc/ui/popup-menu", "utils/localization" ], function( HPANEL, @@ -19,6 +20,7 @@ TAGS, ANNOTATIONS, faIconButton, + PopupMenu, _l ){ /* ============================================================================= diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 client/galaxy/scripts/mvc/history/options-menu.js --- a/client/galaxy/scripts/mvc/history/options-menu.js +++ b/client/galaxy/scripts/mvc/history/options-menu.js @@ -1,7 +1,8 @@ define([ + "mvc/ui/popup-menu", "mvc/base-mvc", "utils/localization" -], function( BASE_MVC, _l ){ +], function( PopupMenu, BASE_MVC, _l ){ // ============================================================================ var menu = [ { diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 client/galaxy/scripts/mvc/ui.js --- a/client/galaxy/scripts/mvc/ui.js +++ b/client/galaxy/scripts/mvc/ui.js @@ -169,320 +169,3 @@ // return menu return new IconButtonMenuView( {collection: buttons} ); }; - -// ============================================================================= -/** - * - */ -var Grid = Backbone.Collection.extend({ - -}); - -/** - * - */ -var GridView = Backbone.View.extend({ - -}); - -// ============================================================================= -/** - * view for a popup menu - */ -var PopupMenu = Backbone.View.extend({ -//TODO: maybe better as singleton off the Galaxy obj - /** Cache the desired button element and options, set up the button click handler - * NOTE: attaches this view as HTML/jQ data on the button for later use. - */ - initialize: function( $button, options ){ - // default settings - this.$button = $button; - if( !this.$button.size() ){ - this.$button = $( '<div/>' ); - } - this.options = options || []; - - // set up button click -> open menu behavior - var menu = this; - this.$button.click( function( event ){ - // if there's already a menu open, remove it - $( '.popmenu-wrapper' ).remove(); - menu._renderAndShow( event ); - return false; - }); - }, - - // render the menu, append to the page body at the click position, and set up the 'click-away' handlers, show - _renderAndShow: function( clickEvent ){ - this.render(); - this.$el.appendTo( 'body' ).css( this._getShownPosition( clickEvent )).show(); - this._setUpCloseBehavior(); - }, - - // render the menu - // this menu doesn't attach itself to the DOM ( see _renderAndShow ) - render: function(){ - // render the menu body absolute and hidden, fill with template - this.$el.addClass( 'popmenu-wrapper' ).hide() - .css({ position : 'absolute' }) - .html( this.template( this.$button.attr( 'id' ), this.options )); - - // set up behavior on each link/anchor elem - if( this.options.length ){ - var menu = this; - //precondition: there should be one option per li - this.$el.find( 'li' ).each( function( i, li ){ - var option = menu.options[i]; - - // if the option has 'func', call that function when the anchor is clicked - if( option.func ){ - $( this ).children( 'a.popupmenu-option' ).click( function( event ){ - option.func.call( menu, event, option ); - // bubble up so that an option click will call the close behavior - //return false; - }); - } - }); - } - return this; - }, - - template : function( id, options ){ - return [ - '<ul id="', id, '-menu" class="dropdown-menu">', this._templateOptions( options ), '</ul>' - ].join( '' ); - }, - - _templateOptions : function( options ){ - if( !options.length ){ - return '<li>(no options)</li>'; - } - return _.map( options, function( option ){ - if( option.divider ){ - return '<li class="divider"></li>'; - } else if( option.header ){ - return [ '<li class="head"><a href="javascript:void(0);">', option.html, '</a></li>' ].join( '' ); - } - var href = option.href || 'javascript:void(0);', - target = ( option.target )?( ' target="' + option.target + '"' ):( '' ), - check = ( option.checked )?( '<span class="fa fa-check"></span>' ):( '' ); - return [ - '<li><a class="popupmenu-option" href="', href, '"', target, '>', - check, option.html, - '</a></li>' - ].join( '' ); - }).join( '' ); - }, - - // get the absolute position/offset for the menu - _getShownPosition : function( clickEvent ){ - - // display menu horiz. centered on click... - var menuWidth = this.$el.width(); - var x = clickEvent.pageX - menuWidth / 2 ; - - // adjust to handle horiz. scroll and window dimensions ( draw entirely on visible screen area ) - x = Math.min( x, $( document ).scrollLeft() + $( window ).width() - menuWidth - 5 ); - x = Math.max( x, $( document ).scrollLeft() + 5 ); - return { - top: clickEvent.pageY, - left: x - }; - }, - - // bind an event handler to all available frames so that when anything is clicked - // the menu is removed from the DOM and the event handler unbinds itself - _setUpCloseBehavior: function(){ - var menu = this; -//TODO: alternately: focus hack, blocking overlay, jquery.blockui - - // function to close popup and unbind itself - function closePopup( event ){ - $( document ).off( 'click.close_popup' ); - if( window.parent !== window ){ - try { - $( window.parent.document ).off( "click.close_popup" ); - } catch( err ){} - } else { - try { - $( 'iframe#galaxy_main' ).contents().off( "click.close_popup" ); - } catch( err ){} - } - menu.remove(); - } - - $( 'html' ).one( "click.close_popup", closePopup ); - if( window.parent !== window ){ - try { - $( window.parent.document ).find( 'html' ).one( "click.close_popup", closePopup ); - } catch( err ){} - } else { - try { - $( 'iframe#galaxy_main' ).contents().one( "click.close_popup", closePopup ); - } catch( err ){} - } - }, - - // add a menu option/item at the given index - addItem: function( item, index ){ - // append to end if no index - index = ( index >= 0 ) ? index : this.options.length; - this.options.splice( index, 0, item ); - return this; - }, - - // remove a menu option/item at the given index - removeItem: function( index ){ - if( index >=0 ){ - this.options.splice( index, 1 ); - } - return this; - }, - - // search for a menu option by its html - findIndexByHtml: function( html ){ - for( var i = 0; i < this.options.length; i++ ){ - if( _.has( this.options[i], 'html' ) && ( this.options[i].html === html )){ - return i; - } - } - return null; - }, - - // search for a menu option by its html - findItemByHtml: function( html ){ - return this.options[( this.findIndexByHtml( html ))]; - }, - - // string representation - toString: function(){ - return 'PopupMenu'; - } -}); -/** shortcut to new for when you don't need to preserve the ref */ -PopupMenu.create = function _create( $button, options ){ - return new PopupMenu( $button, options ); -}; - -// ----------------------------------------------------------------------------- -// the following class functions are bridges from the original make_popupmenu and make_popup_menus -// to the newer backbone.js PopupMenu - -/** Create a PopupMenu from simple map initial_options activated by clicking button_element. - * Converts initial_options to object array used by PopupMenu. - * @param {jQuery|DOMElement} button_element element which, when clicked, activates menu - * @param {Object} initial_options map of key -> values, where - * key is option text, value is fn to call when option is clicked - * @returns {PopupMenu} the PopupMenu created - */ -PopupMenu.make_popupmenu = function( button_element, initial_options ){ - var convertedOptions = []; - _.each( initial_options, function( optionVal, optionKey ){ - var newOption = { html: optionKey }; - - // keys with null values indicate: header - if( optionVal === null ){ // !optionVal? (null only?) - newOption.header = true; - - // keys with function values indicate: a menu option - } else if( jQuery.type( optionVal ) === 'function' ){ - newOption.func = optionVal; - } - //TODO:?? any other special optionVals? - // there was no divider option originally - convertedOptions.push( newOption ); - }); - return new PopupMenu( $( button_element ), convertedOptions ); -}; - -/** Find all anchors in $parent (using selector) and covert anchors into a PopupMenu options map. - * @param {jQuery} $parent the element that contains the links to convert to options - * @param {String} selector jq selector string to find links - * @returns {Object[]} the options array to initialize a PopupMenu - */ -//TODO: lose parent and selector, pass in array of links, use map to return options -PopupMenu.convertLinksToOptions = function( $parent, selector ){ - $parent = $( $parent ); - selector = selector || 'a'; - var options = []; - $parent.find( selector ).each( function( elem, i ){ - var option = {}, $link = $( elem ); - - // convert link text to the option text (html) and the href into the option func - option.html = $link.text(); - if( $link.attr( 'href' ) ){ - var linkHref = $link.attr( 'href' ), - linkTarget = $link.attr( 'target' ), - confirmText = $link.attr( 'confirm' ); - - option.func = function(){ - // if there's a "confirm" attribute, throw up a confirmation dialog, and - // if the user cancels - do nothing - if( ( confirmText ) && ( !confirm( confirmText ) ) ){ return; } - - // if there's no confirm attribute, or the user accepted the confirm dialog: - switch( linkTarget ){ - // relocate the center panel - case '_parent': - window.parent.location = linkHref; - break; - - // relocate the entire window - case '_top': - window.top.location = linkHref; - break; - - // relocate this panel - default: - window.location = linkHref; - } - }; - } - options.push( option ); - }); - return options; -}; - -/** Create a single popupmenu from existing DOM button and anchor elements - * @param {jQuery} $buttonElement the element that when clicked will open the menu - * @param {jQuery} $menuElement the element that contains the anchors to convert into a menu - * @param {String} menuElementLinkSelector jq selector string used to find anchors to be made into menu options - * @returns {PopupMenu} the PopupMenu (Backbone View) that can render, control the menu - */ -PopupMenu.fromExistingDom = function( $buttonElement, $menuElement, menuElementLinkSelector ){ - $buttonElement = $( $buttonElement ); - $menuElement = $( $menuElement ); - var options = PopupMenu.convertLinksToOptions( $menuElement, menuElementLinkSelector ); - // we're done with the menu (having converted it to an options map) - $menuElement.remove(); - return new PopupMenu( $buttonElement, options ); -}; - -/** Create all popupmenus within a document or a more specific element - * @param {DOMElement} parent the DOM element in which to search for popupmenus to build (defaults to document) - * @param {String} menuSelector jq selector string to find popupmenu menu elements (defaults to "div[popupmenu]") - * @param {Function} buttonSelectorBuildFn the function to build the jq button selector. - * Will be passed $menuElement, parent. - * (Defaults to return '#' + $menuElement.attr( 'popupmenu' ); ) - * @returns {PopupMenu[]} array of popupmenus created - */ -PopupMenu.make_popup_menus = function( parent, menuSelector, buttonSelectorBuildFn ){ - parent = parent || document; - // orig. Glx popupmenu menus have a (non-std) attribute 'popupmenu' - // which contains the id of the button that activates the menu - menuSelector = menuSelector || 'div[popupmenu]'; - // default to (orig. Glx) matching button to menu by using the popupmenu attr of the menu as the id of the button - buttonSelectorBuildFn = buttonSelectorBuildFn || function( $menuElement, parent ){ - return '#' + $menuElement.attr( 'popupmenu' ); - }; - - // aggregate and return all PopupMenus - var popupMenusCreated = []; - $( parent ).find( menuSelector ).each( function(){ - var $menuElement = $( this ), - $buttonElement = $( parent ).find( buttonSelectorBuildFn( $menuElement, parent ) ); - popupMenusCreated.push( PopupMenu.fromDom( $buttonElement, $menuElement ) ); - $buttonElement.addClass( 'popup' ); - }); - return popupMenusCreated; -}; diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 client/galaxy/scripts/mvc/ui/popup-menu.js --- /dev/null +++ b/client/galaxy/scripts/mvc/ui/popup-menu.js @@ -0,0 +1,311 @@ +define([ + //jquery + //backbone +], function(){ +// ============================================================================= +/** + * view for a popup menu + */ +var PopupMenu = Backbone.View.extend({ +//TODO: maybe better as singleton off the Galaxy obj + /** Cache the desired button element and options, set up the button click handler + * NOTE: attaches this view as HTML/jQ data on the button for later use. + */ + initialize: function( $button, options ){ + // default settings + this.$button = $button; + if( !this.$button.size() ){ + this.$button = $( '<div/>' ); + } + this.options = options || []; + + // set up button click -> open menu behavior + var menu = this; + this.$button.click( function( event ){ + // if there's already a menu open, remove it + $( '.popmenu-wrapper' ).remove(); + menu._renderAndShow( event ); + return false; + }); + }, + + // render the menu, append to the page body at the click position, and set up the 'click-away' handlers, show + _renderAndShow: function( clickEvent ){ + this.render(); + this.$el.appendTo( 'body' ).css( this._getShownPosition( clickEvent )).show(); + this._setUpCloseBehavior(); + }, + + // render the menu + // this menu doesn't attach itself to the DOM ( see _renderAndShow ) + render: function(){ + // render the menu body absolute and hidden, fill with template + this.$el.addClass( 'popmenu-wrapper' ).hide() + .css({ position : 'absolute' }) + .html( this.template( this.$button.attr( 'id' ), this.options )); + + // set up behavior on each link/anchor elem + if( this.options.length ){ + var menu = this; + //precondition: there should be one option per li + this.$el.find( 'li' ).each( function( i, li ){ + var option = menu.options[i]; + + // if the option has 'func', call that function when the anchor is clicked + if( option.func ){ + $( this ).children( 'a.popupmenu-option' ).click( function( event ){ + option.func.call( menu, event, option ); + // bubble up so that an option click will call the close behavior + //return false; + }); + } + }); + } + return this; + }, + + template : function( id, options ){ + return [ + '<ul id="', id, '-menu" class="dropdown-menu">', this._templateOptions( options ), '</ul>' + ].join( '' ); + }, + + _templateOptions : function( options ){ + if( !options.length ){ + return '<li>(no options)</li>'; + } + return _.map( options, function( option ){ + if( option.divider ){ + return '<li class="divider"></li>'; + } else if( option.header ){ + return [ '<li class="head"><a href="javascript:void(0);">', option.html, '</a></li>' ].join( '' ); + } + var href = option.href || 'javascript:void(0);', + target = ( option.target )?( ' target="' + option.target + '"' ):( '' ), + check = ( option.checked )?( '<span class="fa fa-check"></span>' ):( '' ); + return [ + '<li><a class="popupmenu-option" href="', href, '"', target, '>', + check, option.html, + '</a></li>' + ].join( '' ); + }).join( '' ); + }, + + // get the absolute position/offset for the menu + _getShownPosition : function( clickEvent ){ + + // display menu horiz. centered on click... + var menuWidth = this.$el.width(); + var x = clickEvent.pageX - menuWidth / 2 ; + + // adjust to handle horiz. scroll and window dimensions ( draw entirely on visible screen area ) + x = Math.min( x, $( document ).scrollLeft() + $( window ).width() - menuWidth - 5 ); + x = Math.max( x, $( document ).scrollLeft() + 5 ); + return { + top: clickEvent.pageY, + left: x + }; + }, + + // bind an event handler to all available frames so that when anything is clicked + // the menu is removed from the DOM and the event handler unbinds itself + _setUpCloseBehavior: function(){ + var menu = this; +//TODO: alternately: focus hack, blocking overlay, jquery.blockui + + // function to close popup and unbind itself + function closePopup( event ){ + $( document ).off( 'click.close_popup' ); + if( window.parent !== window ){ + try { + $( window.parent.document ).off( "click.close_popup" ); + } catch( err ){} + } else { + try { + $( 'iframe#galaxy_main' ).contents().off( "click.close_popup" ); + } catch( err ){} + } + menu.remove(); + } + + $( 'html' ).one( "click.close_popup", closePopup ); + if( window.parent !== window ){ + try { + $( window.parent.document ).find( 'html' ).one( "click.close_popup", closePopup ); + } catch( err ){} + } else { + try { + $( 'iframe#galaxy_main' ).contents().one( "click.close_popup", closePopup ); + } catch( err ){} + } + }, + + // add a menu option/item at the given index + addItem: function( item, index ){ + // append to end if no index + index = ( index >= 0 ) ? index : this.options.length; + this.options.splice( index, 0, item ); + return this; + }, + + // remove a menu option/item at the given index + removeItem: function( index ){ + if( index >=0 ){ + this.options.splice( index, 1 ); + } + return this; + }, + + // search for a menu option by its html + findIndexByHtml: function( html ){ + for( var i = 0; i < this.options.length; i++ ){ + if( _.has( this.options[i], 'html' ) && ( this.options[i].html === html )){ + return i; + } + } + return null; + }, + + // search for a menu option by its html + findItemByHtml: function( html ){ + return this.options[( this.findIndexByHtml( html ))]; + }, + + // string representation + toString: function(){ + return 'PopupMenu'; + } +}); +/** shortcut to new for when you don't need to preserve the ref */ +PopupMenu.create = function _create( $button, options ){ + return new PopupMenu( $button, options ); +}; + +// ----------------------------------------------------------------------------- +// the following class functions are bridges from the original make_popupmenu and make_popup_menus +// to the newer backbone.js PopupMenu + +/** Create a PopupMenu from simple map initial_options activated by clicking button_element. + * Converts initial_options to object array used by PopupMenu. + * @param {jQuery|DOMElement} button_element element which, when clicked, activates menu + * @param {Object} initial_options map of key -> values, where + * key is option text, value is fn to call when option is clicked + * @returns {PopupMenu} the PopupMenu created + */ +PopupMenu.make_popupmenu = function( button_element, initial_options ){ + var convertedOptions = []; + _.each( initial_options, function( optionVal, optionKey ){ + var newOption = { html: optionKey }; + + // keys with null values indicate: header + if( optionVal === null ){ // !optionVal? (null only?) + newOption.header = true; + + // keys with function values indicate: a menu option + } else if( jQuery.type( optionVal ) === 'function' ){ + newOption.func = optionVal; + } + //TODO:?? any other special optionVals? + // there was no divider option originally + convertedOptions.push( newOption ); + }); + return new PopupMenu( $( button_element ), convertedOptions ); +}; + +/** Find all anchors in $parent (using selector) and covert anchors into a PopupMenu options map. + * @param {jQuery} $parent the element that contains the links to convert to options + * @param {String} selector jq selector string to find links + * @returns {Object[]} the options array to initialize a PopupMenu + */ +//TODO: lose parent and selector, pass in array of links, use map to return options +PopupMenu.convertLinksToOptions = function( $parent, selector ){ + $parent = $( $parent ); + selector = selector || 'a'; + var options = []; + $parent.find( selector ).each( function( elem, i ){ + var option = {}, $link = $( elem ); + + // convert link text to the option text (html) and the href into the option func + option.html = $link.text(); + if( $link.attr( 'href' ) ){ + var linkHref = $link.attr( 'href' ), + linkTarget = $link.attr( 'target' ), + confirmText = $link.attr( 'confirm' ); + + option.func = function(){ + // if there's a "confirm" attribute, throw up a confirmation dialog, and + // if the user cancels - do nothing + if( ( confirmText ) && ( !confirm( confirmText ) ) ){ return; } + + // if there's no confirm attribute, or the user accepted the confirm dialog: + switch( linkTarget ){ + // relocate the center panel + case '_parent': + window.parent.location = linkHref; + break; + + // relocate the entire window + case '_top': + window.top.location = linkHref; + break; + + // relocate this panel + default: + window.location = linkHref; + } + }; + } + options.push( option ); + }); + return options; +}; + +/** Create a single popupmenu from existing DOM button and anchor elements + * @param {jQuery} $buttonElement the element that when clicked will open the menu + * @param {jQuery} $menuElement the element that contains the anchors to convert into a menu + * @param {String} menuElementLinkSelector jq selector string used to find anchors to be made into menu options + * @returns {PopupMenu} the PopupMenu (Backbone View) that can render, control the menu + */ +PopupMenu.fromExistingDom = function( $buttonElement, $menuElement, menuElementLinkSelector ){ + $buttonElement = $( $buttonElement ); + $menuElement = $( $menuElement ); + var options = PopupMenu.convertLinksToOptions( $menuElement, menuElementLinkSelector ); + // we're done with the menu (having converted it to an options map) + $menuElement.remove(); + return new PopupMenu( $buttonElement, options ); +}; + +/** Create all popupmenus within a document or a more specific element + * @param {DOMElement} parent the DOM element in which to search for popupmenus to build (defaults to document) + * @param {String} menuSelector jq selector string to find popupmenu menu elements (defaults to "div[popupmenu]") + * @param {Function} buttonSelectorBuildFn the function to build the jq button selector. + * Will be passed $menuElement, parent. + * (Defaults to return '#' + $menuElement.attr( 'popupmenu' ); ) + * @returns {PopupMenu[]} array of popupmenus created + */ +PopupMenu.make_popup_menus = function( parent, menuSelector, buttonSelectorBuildFn ){ + parent = parent || document; + // orig. Glx popupmenu menus have a (non-std) attribute 'popupmenu' + // which contains the id of the button that activates the menu + menuSelector = menuSelector || 'div[popupmenu]'; + // default to (orig. Glx) matching button to menu by using the popupmenu attr of the menu as the id of the button + buttonSelectorBuildFn = buttonSelectorBuildFn || function( $menuElement, parent ){ + return '#' + $menuElement.attr( 'popupmenu' ); + }; + + // aggregate and return all PopupMenus + var popupMenusCreated = []; + $( parent ).find( menuSelector ).each( function(){ + var $menuElement = $( this ), + $buttonElement = $( parent ).find( buttonSelectorBuildFn( $menuElement, parent ) ); + popupMenusCreated.push( PopupMenu.fromDom( $buttonElement, $menuElement ) ); + $buttonElement.addClass( 'popup' ); + }); + return popupMenusCreated; +}; + + +// ============================================================================= + return PopupMenu; +}); + diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 static/scripts/mvc/grid/grid-view.js --- a/static/scripts/mvc/grid/grid-view.js +++ b/static/scripts/mvc/grid/grid-view.js @@ -3,7 +3,11 @@ jQuery.ajaxSettings.traditional = true; // dependencies -define(['mvc/grid/grid-model', 'mvc/grid/grid-template', 'mvc/ui'], function(GridModel, Templates) { +define([ + 'mvc/grid/grid-model', + 'mvc/grid/grid-template', + "mvc/ui/popup-menu" +], function(GridModel, Templates, PopupMenu) { // grid view return Backbone.View.extend({ @@ -661,4 +665,4 @@ } }); -}); \ No newline at end of file +}); diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 static/scripts/mvc/history/history-panel-edit.js --- a/static/scripts/mvc/history/history-panel-edit.js +++ b/static/scripts/mvc/history/history-panel-edit.js @@ -8,6 +8,7 @@ "mvc/tags", "mvc/annotations", "jq-plugins/ui/fa-icon-button", + "mvc/ui/popup-menu", "utils/localization" ], function( HPANEL, @@ -19,6 +20,7 @@ TAGS, ANNOTATIONS, faIconButton, + PopupMenu, _l ){ /* ============================================================================= diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 static/scripts/mvc/history/options-menu.js --- a/static/scripts/mvc/history/options-menu.js +++ b/static/scripts/mvc/history/options-menu.js @@ -1,7 +1,8 @@ define([ + "mvc/ui/popup-menu", "mvc/base-mvc", "utils/localization" -], function( BASE_MVC, _l ){ +], function( PopupMenu, BASE_MVC, _l ){ // ============================================================================ var menu = [ { diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 static/scripts/mvc/ui.js --- a/static/scripts/mvc/ui.js +++ b/static/scripts/mvc/ui.js @@ -169,320 +169,3 @@ // return menu return new IconButtonMenuView( {collection: buttons} ); }; - -// ============================================================================= -/** - * - */ -var Grid = Backbone.Collection.extend({ - -}); - -/** - * - */ -var GridView = Backbone.View.extend({ - -}); - -// ============================================================================= -/** - * view for a popup menu - */ -var PopupMenu = Backbone.View.extend({ -//TODO: maybe better as singleton off the Galaxy obj - /** Cache the desired button element and options, set up the button click handler - * NOTE: attaches this view as HTML/jQ data on the button for later use. - */ - initialize: function( $button, options ){ - // default settings - this.$button = $button; - if( !this.$button.size() ){ - this.$button = $( '<div/>' ); - } - this.options = options || []; - - // set up button click -> open menu behavior - var menu = this; - this.$button.click( function( event ){ - // if there's already a menu open, remove it - $( '.popmenu-wrapper' ).remove(); - menu._renderAndShow( event ); - return false; - }); - }, - - // render the menu, append to the page body at the click position, and set up the 'click-away' handlers, show - _renderAndShow: function( clickEvent ){ - this.render(); - this.$el.appendTo( 'body' ).css( this._getShownPosition( clickEvent )).show(); - this._setUpCloseBehavior(); - }, - - // render the menu - // this menu doesn't attach itself to the DOM ( see _renderAndShow ) - render: function(){ - // render the menu body absolute and hidden, fill with template - this.$el.addClass( 'popmenu-wrapper' ).hide() - .css({ position : 'absolute' }) - .html( this.template( this.$button.attr( 'id' ), this.options )); - - // set up behavior on each link/anchor elem - if( this.options.length ){ - var menu = this; - //precondition: there should be one option per li - this.$el.find( 'li' ).each( function( i, li ){ - var option = menu.options[i]; - - // if the option has 'func', call that function when the anchor is clicked - if( option.func ){ - $( this ).children( 'a.popupmenu-option' ).click( function( event ){ - option.func.call( menu, event, option ); - // bubble up so that an option click will call the close behavior - //return false; - }); - } - }); - } - return this; - }, - - template : function( id, options ){ - return [ - '<ul id="', id, '-menu" class="dropdown-menu">', this._templateOptions( options ), '</ul>' - ].join( '' ); - }, - - _templateOptions : function( options ){ - if( !options.length ){ - return '<li>(no options)</li>'; - } - return _.map( options, function( option ){ - if( option.divider ){ - return '<li class="divider"></li>'; - } else if( option.header ){ - return [ '<li class="head"><a href="javascript:void(0);">', option.html, '</a></li>' ].join( '' ); - } - var href = option.href || 'javascript:void(0);', - target = ( option.target )?( ' target="' + option.target + '"' ):( '' ), - check = ( option.checked )?( '<span class="fa fa-check"></span>' ):( '' ); - return [ - '<li><a class="popupmenu-option" href="', href, '"', target, '>', - check, option.html, - '</a></li>' - ].join( '' ); - }).join( '' ); - }, - - // get the absolute position/offset for the menu - _getShownPosition : function( clickEvent ){ - - // display menu horiz. centered on click... - var menuWidth = this.$el.width(); - var x = clickEvent.pageX - menuWidth / 2 ; - - // adjust to handle horiz. scroll and window dimensions ( draw entirely on visible screen area ) - x = Math.min( x, $( document ).scrollLeft() + $( window ).width() - menuWidth - 5 ); - x = Math.max( x, $( document ).scrollLeft() + 5 ); - return { - top: clickEvent.pageY, - left: x - }; - }, - - // bind an event handler to all available frames so that when anything is clicked - // the menu is removed from the DOM and the event handler unbinds itself - _setUpCloseBehavior: function(){ - var menu = this; -//TODO: alternately: focus hack, blocking overlay, jquery.blockui - - // function to close popup and unbind itself - function closePopup( event ){ - $( document ).off( 'click.close_popup' ); - if( window.parent !== window ){ - try { - $( window.parent.document ).off( "click.close_popup" ); - } catch( err ){} - } else { - try { - $( 'iframe#galaxy_main' ).contents().off( "click.close_popup" ); - } catch( err ){} - } - menu.remove(); - } - - $( 'html' ).one( "click.close_popup", closePopup ); - if( window.parent !== window ){ - try { - $( window.parent.document ).find( 'html' ).one( "click.close_popup", closePopup ); - } catch( err ){} - } else { - try { - $( 'iframe#galaxy_main' ).contents().one( "click.close_popup", closePopup ); - } catch( err ){} - } - }, - - // add a menu option/item at the given index - addItem: function( item, index ){ - // append to end if no index - index = ( index >= 0 ) ? index : this.options.length; - this.options.splice( index, 0, item ); - return this; - }, - - // remove a menu option/item at the given index - removeItem: function( index ){ - if( index >=0 ){ - this.options.splice( index, 1 ); - } - return this; - }, - - // search for a menu option by its html - findIndexByHtml: function( html ){ - for( var i = 0; i < this.options.length; i++ ){ - if( _.has( this.options[i], 'html' ) && ( this.options[i].html === html )){ - return i; - } - } - return null; - }, - - // search for a menu option by its html - findItemByHtml: function( html ){ - return this.options[( this.findIndexByHtml( html ))]; - }, - - // string representation - toString: function(){ - return 'PopupMenu'; - } -}); -/** shortcut to new for when you don't need to preserve the ref */ -PopupMenu.create = function _create( $button, options ){ - return new PopupMenu( $button, options ); -}; - -// ----------------------------------------------------------------------------- -// the following class functions are bridges from the original make_popupmenu and make_popup_menus -// to the newer backbone.js PopupMenu - -/** Create a PopupMenu from simple map initial_options activated by clicking button_element. - * Converts initial_options to object array used by PopupMenu. - * @param {jQuery|DOMElement} button_element element which, when clicked, activates menu - * @param {Object} initial_options map of key -> values, where - * key is option text, value is fn to call when option is clicked - * @returns {PopupMenu} the PopupMenu created - */ -PopupMenu.make_popupmenu = function( button_element, initial_options ){ - var convertedOptions = []; - _.each( initial_options, function( optionVal, optionKey ){ - var newOption = { html: optionKey }; - - // keys with null values indicate: header - if( optionVal === null ){ // !optionVal? (null only?) - newOption.header = true; - - // keys with function values indicate: a menu option - } else if( jQuery.type( optionVal ) === 'function' ){ - newOption.func = optionVal; - } - //TODO:?? any other special optionVals? - // there was no divider option originally - convertedOptions.push( newOption ); - }); - return new PopupMenu( $( button_element ), convertedOptions ); -}; - -/** Find all anchors in $parent (using selector) and covert anchors into a PopupMenu options map. - * @param {jQuery} $parent the element that contains the links to convert to options - * @param {String} selector jq selector string to find links - * @returns {Object[]} the options array to initialize a PopupMenu - */ -//TODO: lose parent and selector, pass in array of links, use map to return options -PopupMenu.convertLinksToOptions = function( $parent, selector ){ - $parent = $( $parent ); - selector = selector || 'a'; - var options = []; - $parent.find( selector ).each( function( elem, i ){ - var option = {}, $link = $( elem ); - - // convert link text to the option text (html) and the href into the option func - option.html = $link.text(); - if( $link.attr( 'href' ) ){ - var linkHref = $link.attr( 'href' ), - linkTarget = $link.attr( 'target' ), - confirmText = $link.attr( 'confirm' ); - - option.func = function(){ - // if there's a "confirm" attribute, throw up a confirmation dialog, and - // if the user cancels - do nothing - if( ( confirmText ) && ( !confirm( confirmText ) ) ){ return; } - - // if there's no confirm attribute, or the user accepted the confirm dialog: - switch( linkTarget ){ - // relocate the center panel - case '_parent': - window.parent.location = linkHref; - break; - - // relocate the entire window - case '_top': - window.top.location = linkHref; - break; - - // relocate this panel - default: - window.location = linkHref; - } - }; - } - options.push( option ); - }); - return options; -}; - -/** Create a single popupmenu from existing DOM button and anchor elements - * @param {jQuery} $buttonElement the element that when clicked will open the menu - * @param {jQuery} $menuElement the element that contains the anchors to convert into a menu - * @param {String} menuElementLinkSelector jq selector string used to find anchors to be made into menu options - * @returns {PopupMenu} the PopupMenu (Backbone View) that can render, control the menu - */ -PopupMenu.fromExistingDom = function( $buttonElement, $menuElement, menuElementLinkSelector ){ - $buttonElement = $( $buttonElement ); - $menuElement = $( $menuElement ); - var options = PopupMenu.convertLinksToOptions( $menuElement, menuElementLinkSelector ); - // we're done with the menu (having converted it to an options map) - $menuElement.remove(); - return new PopupMenu( $buttonElement, options ); -}; - -/** Create all popupmenus within a document or a more specific element - * @param {DOMElement} parent the DOM element in which to search for popupmenus to build (defaults to document) - * @param {String} menuSelector jq selector string to find popupmenu menu elements (defaults to "div[popupmenu]") - * @param {Function} buttonSelectorBuildFn the function to build the jq button selector. - * Will be passed $menuElement, parent. - * (Defaults to return '#' + $menuElement.attr( 'popupmenu' ); ) - * @returns {PopupMenu[]} array of popupmenus created - */ -PopupMenu.make_popup_menus = function( parent, menuSelector, buttonSelectorBuildFn ){ - parent = parent || document; - // orig. Glx popupmenu menus have a (non-std) attribute 'popupmenu' - // which contains the id of the button that activates the menu - menuSelector = menuSelector || 'div[popupmenu]'; - // default to (orig. Glx) matching button to menu by using the popupmenu attr of the menu as the id of the button - buttonSelectorBuildFn = buttonSelectorBuildFn || function( $menuElement, parent ){ - return '#' + $menuElement.attr( 'popupmenu' ); - }; - - // aggregate and return all PopupMenus - var popupMenusCreated = []; - $( parent ).find( menuSelector ).each( function(){ - var $menuElement = $( this ), - $buttonElement = $( parent ).find( buttonSelectorBuildFn( $menuElement, parent ) ); - popupMenusCreated.push( PopupMenu.fromDom( $buttonElement, $menuElement ) ); - $buttonElement.addClass( 'popup' ); - }); - return popupMenusCreated; -}; diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 static/scripts/mvc/ui/popup-menu.js --- /dev/null +++ b/static/scripts/mvc/ui/popup-menu.js @@ -0,0 +1,311 @@ +define([ + //jquery + //backbone +], function(){ +// ============================================================================= +/** + * view for a popup menu + */ +var PopupMenu = Backbone.View.extend({ +//TODO: maybe better as singleton off the Galaxy obj + /** Cache the desired button element and options, set up the button click handler + * NOTE: attaches this view as HTML/jQ data on the button for later use. + */ + initialize: function( $button, options ){ + // default settings + this.$button = $button; + if( !this.$button.size() ){ + this.$button = $( '<div/>' ); + } + this.options = options || []; + + // set up button click -> open menu behavior + var menu = this; + this.$button.click( function( event ){ + // if there's already a menu open, remove it + $( '.popmenu-wrapper' ).remove(); + menu._renderAndShow( event ); + return false; + }); + }, + + // render the menu, append to the page body at the click position, and set up the 'click-away' handlers, show + _renderAndShow: function( clickEvent ){ + this.render(); + this.$el.appendTo( 'body' ).css( this._getShownPosition( clickEvent )).show(); + this._setUpCloseBehavior(); + }, + + // render the menu + // this menu doesn't attach itself to the DOM ( see _renderAndShow ) + render: function(){ + // render the menu body absolute and hidden, fill with template + this.$el.addClass( 'popmenu-wrapper' ).hide() + .css({ position : 'absolute' }) + .html( this.template( this.$button.attr( 'id' ), this.options )); + + // set up behavior on each link/anchor elem + if( this.options.length ){ + var menu = this; + //precondition: there should be one option per li + this.$el.find( 'li' ).each( function( i, li ){ + var option = menu.options[i]; + + // if the option has 'func', call that function when the anchor is clicked + if( option.func ){ + $( this ).children( 'a.popupmenu-option' ).click( function( event ){ + option.func.call( menu, event, option ); + // bubble up so that an option click will call the close behavior + //return false; + }); + } + }); + } + return this; + }, + + template : function( id, options ){ + return [ + '<ul id="', id, '-menu" class="dropdown-menu">', this._templateOptions( options ), '</ul>' + ].join( '' ); + }, + + _templateOptions : function( options ){ + if( !options.length ){ + return '<li>(no options)</li>'; + } + return _.map( options, function( option ){ + if( option.divider ){ + return '<li class="divider"></li>'; + } else if( option.header ){ + return [ '<li class="head"><a href="javascript:void(0);">', option.html, '</a></li>' ].join( '' ); + } + var href = option.href || 'javascript:void(0);', + target = ( option.target )?( ' target="' + option.target + '"' ):( '' ), + check = ( option.checked )?( '<span class="fa fa-check"></span>' ):( '' ); + return [ + '<li><a class="popupmenu-option" href="', href, '"', target, '>', + check, option.html, + '</a></li>' + ].join( '' ); + }).join( '' ); + }, + + // get the absolute position/offset for the menu + _getShownPosition : function( clickEvent ){ + + // display menu horiz. centered on click... + var menuWidth = this.$el.width(); + var x = clickEvent.pageX - menuWidth / 2 ; + + // adjust to handle horiz. scroll and window dimensions ( draw entirely on visible screen area ) + x = Math.min( x, $( document ).scrollLeft() + $( window ).width() - menuWidth - 5 ); + x = Math.max( x, $( document ).scrollLeft() + 5 ); + return { + top: clickEvent.pageY, + left: x + }; + }, + + // bind an event handler to all available frames so that when anything is clicked + // the menu is removed from the DOM and the event handler unbinds itself + _setUpCloseBehavior: function(){ + var menu = this; +//TODO: alternately: focus hack, blocking overlay, jquery.blockui + + // function to close popup and unbind itself + function closePopup( event ){ + $( document ).off( 'click.close_popup' ); + if( window.parent !== window ){ + try { + $( window.parent.document ).off( "click.close_popup" ); + } catch( err ){} + } else { + try { + $( 'iframe#galaxy_main' ).contents().off( "click.close_popup" ); + } catch( err ){} + } + menu.remove(); + } + + $( 'html' ).one( "click.close_popup", closePopup ); + if( window.parent !== window ){ + try { + $( window.parent.document ).find( 'html' ).one( "click.close_popup", closePopup ); + } catch( err ){} + } else { + try { + $( 'iframe#galaxy_main' ).contents().one( "click.close_popup", closePopup ); + } catch( err ){} + } + }, + + // add a menu option/item at the given index + addItem: function( item, index ){ + // append to end if no index + index = ( index >= 0 ) ? index : this.options.length; + this.options.splice( index, 0, item ); + return this; + }, + + // remove a menu option/item at the given index + removeItem: function( index ){ + if( index >=0 ){ + this.options.splice( index, 1 ); + } + return this; + }, + + // search for a menu option by its html + findIndexByHtml: function( html ){ + for( var i = 0; i < this.options.length; i++ ){ + if( _.has( this.options[i], 'html' ) && ( this.options[i].html === html )){ + return i; + } + } + return null; + }, + + // search for a menu option by its html + findItemByHtml: function( html ){ + return this.options[( this.findIndexByHtml( html ))]; + }, + + // string representation + toString: function(){ + return 'PopupMenu'; + } +}); +/** shortcut to new for when you don't need to preserve the ref */ +PopupMenu.create = function _create( $button, options ){ + return new PopupMenu( $button, options ); +}; + +// ----------------------------------------------------------------------------- +// the following class functions are bridges from the original make_popupmenu and make_popup_menus +// to the newer backbone.js PopupMenu + +/** Create a PopupMenu from simple map initial_options activated by clicking button_element. + * Converts initial_options to object array used by PopupMenu. + * @param {jQuery|DOMElement} button_element element which, when clicked, activates menu + * @param {Object} initial_options map of key -> values, where + * key is option text, value is fn to call when option is clicked + * @returns {PopupMenu} the PopupMenu created + */ +PopupMenu.make_popupmenu = function( button_element, initial_options ){ + var convertedOptions = []; + _.each( initial_options, function( optionVal, optionKey ){ + var newOption = { html: optionKey }; + + // keys with null values indicate: header + if( optionVal === null ){ // !optionVal? (null only?) + newOption.header = true; + + // keys with function values indicate: a menu option + } else if( jQuery.type( optionVal ) === 'function' ){ + newOption.func = optionVal; + } + //TODO:?? any other special optionVals? + // there was no divider option originally + convertedOptions.push( newOption ); + }); + return new PopupMenu( $( button_element ), convertedOptions ); +}; + +/** Find all anchors in $parent (using selector) and covert anchors into a PopupMenu options map. + * @param {jQuery} $parent the element that contains the links to convert to options + * @param {String} selector jq selector string to find links + * @returns {Object[]} the options array to initialize a PopupMenu + */ +//TODO: lose parent and selector, pass in array of links, use map to return options +PopupMenu.convertLinksToOptions = function( $parent, selector ){ + $parent = $( $parent ); + selector = selector || 'a'; + var options = []; + $parent.find( selector ).each( function( elem, i ){ + var option = {}, $link = $( elem ); + + // convert link text to the option text (html) and the href into the option func + option.html = $link.text(); + if( $link.attr( 'href' ) ){ + var linkHref = $link.attr( 'href' ), + linkTarget = $link.attr( 'target' ), + confirmText = $link.attr( 'confirm' ); + + option.func = function(){ + // if there's a "confirm" attribute, throw up a confirmation dialog, and + // if the user cancels - do nothing + if( ( confirmText ) && ( !confirm( confirmText ) ) ){ return; } + + // if there's no confirm attribute, or the user accepted the confirm dialog: + switch( linkTarget ){ + // relocate the center panel + case '_parent': + window.parent.location = linkHref; + break; + + // relocate the entire window + case '_top': + window.top.location = linkHref; + break; + + // relocate this panel + default: + window.location = linkHref; + } + }; + } + options.push( option ); + }); + return options; +}; + +/** Create a single popupmenu from existing DOM button and anchor elements + * @param {jQuery} $buttonElement the element that when clicked will open the menu + * @param {jQuery} $menuElement the element that contains the anchors to convert into a menu + * @param {String} menuElementLinkSelector jq selector string used to find anchors to be made into menu options + * @returns {PopupMenu} the PopupMenu (Backbone View) that can render, control the menu + */ +PopupMenu.fromExistingDom = function( $buttonElement, $menuElement, menuElementLinkSelector ){ + $buttonElement = $( $buttonElement ); + $menuElement = $( $menuElement ); + var options = PopupMenu.convertLinksToOptions( $menuElement, menuElementLinkSelector ); + // we're done with the menu (having converted it to an options map) + $menuElement.remove(); + return new PopupMenu( $buttonElement, options ); +}; + +/** Create all popupmenus within a document or a more specific element + * @param {DOMElement} parent the DOM element in which to search for popupmenus to build (defaults to document) + * @param {String} menuSelector jq selector string to find popupmenu menu elements (defaults to "div[popupmenu]") + * @param {Function} buttonSelectorBuildFn the function to build the jq button selector. + * Will be passed $menuElement, parent. + * (Defaults to return '#' + $menuElement.attr( 'popupmenu' ); ) + * @returns {PopupMenu[]} array of popupmenus created + */ +PopupMenu.make_popup_menus = function( parent, menuSelector, buttonSelectorBuildFn ){ + parent = parent || document; + // orig. Glx popupmenu menus have a (non-std) attribute 'popupmenu' + // which contains the id of the button that activates the menu + menuSelector = menuSelector || 'div[popupmenu]'; + // default to (orig. Glx) matching button to menu by using the popupmenu attr of the menu as the id of the button + buttonSelectorBuildFn = buttonSelectorBuildFn || function( $menuElement, parent ){ + return '#' + $menuElement.attr( 'popupmenu' ); + }; + + // aggregate and return all PopupMenus + var popupMenusCreated = []; + $( parent ).find( menuSelector ).each( function(){ + var $menuElement = $( this ), + $buttonElement = $( parent ).find( buttonSelectorBuildFn( $menuElement, parent ) ); + popupMenusCreated.push( PopupMenu.fromDom( $buttonElement, $menuElement ) ); + $buttonElement.addClass( 'popup' ); + }); + return popupMenusCreated; +}; + + +// ============================================================================= + return PopupMenu; +}); + diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 static/scripts/packed/mvc/grid/grid-view.js --- a/static/scripts/packed/mvc/grid/grid-view.js +++ b/static/scripts/packed/mvc/grid/grid-view.js @@ -1,1 +1,1 @@ -jQuery.ajaxSettings.traditional=true;define(["mvc/grid/grid-model","mvc/grid/grid-template","mvc/ui"],function(b,a){return Backbone.View.extend({grid:null,initialize:function(c){this.setElement("#grid-container");if(c.use_panels){$("#center").css({padding:"10px",overflow:"auto"})}this.init_grid(c)},handle_refresh:function(c){if(c){if($.inArray("history",c)>-1){if(top.Galaxy&&top.Galaxy.currHistoryPanel){top.Galaxy.currHistoryPanel.loadCurrentHistory()}}}},init_grid:function(f){this.grid=new b(f);var e=this.grid.attributes;this.handle_refresh(e.refresh_frames);var d=this.grid.get("url_base");d=d.replace(/^.*\/\/[^\/]+/,"");this.grid.set("url_base",d);this.$el.html(a.grid(e));this.$el.find("#grid-table-header").html(a.header(e));this.$el.find("#grid-table-body").html(a.body(e));this.$el.find("#grid-table-footer").html(a.footer(e));if(e.message){this.$el.find("#grid-message").html(a.message(e));var c=this;if(e.use_hide_message){setTimeout(function(){c.$el.find("#grid-message").html("")},5000)}}this.init_grid_elements();this.init_grid_controls();init_refresh_on_change()},init_grid_controls:function(){var c=this;this.$el.find(".operation-button").each(function(){$(this).off();$(this).click(function(){c.submit_operation(this,operation.confirm);return false})});this.$el.find("input[type=text]").each(function(){$(this).off();$(this).click(function(){$(this).select()}).keyup(function(){$(this).css("font-style","normal")})});this.$el.find(".sort-link").each(function(){$(this).off();$(this).click(function(){c.set_sort_condition($(this).attr("sort_key"));return false})});this.$el.find(".text-filter-form").each(function(){$(this).off();$(this).submit(function(){var g=$(this).attr("column_key");var f=$("#input-"+g+"-filter");var h=f.val();f.val("");c.add_filter_condition(g,h);return false})});this.$el.find(".text-filter-val > a").each(function(){$(this).off();$(this).click(function(){$(this).parent().remove();c.remove_filter_condition($(this).attr("filter_key"),$(this).attr("filter_val"));return false})});this.$el.find(".categorical-filter > a").each(function(){$(this).off();$(this).click(function(){c.set_categorical_filter($(this).attr("filter_key"),$(this).attr("filter_val"));return false})});var e=this.$el.find("#input-tags-filter");if(e.length){e.autocomplete(this.grid.history_tag_autocomplete_url,{selectFirst:false,autoFill:false,highlight:false,mustMatch:false})}var d=this.$el.find("#input-name-filter");if(d.length){d.autocomplete(this.grid.history_name_autocomplete_url,{selectFirst:false,autoFill:false,highlight:false,mustMatch:false})}this.$el.find(".advanced-search-toggle").each(function(){$(this).off();$(this).click(function(){c.$el.find("#standard-search").slideToggle("fast");c.$el.find("#advanced-search").slideToggle("fast");return false})});this.$el.find("#check_all").off();this.$el.find("#check_all").on("click",function(){c.check_all_items()})},init_grid_elements:function(){this.$el.find(".grid").each(function(){var j=$(this).find("input.grid-row-select-checkbox");var i=$(this).find("span.grid-selected-count");var r=function(){i.text($(j).filter(":checked").length)};$(j).each(function(){$(this).change(r)});r()});if(this.$el.find(".community_rating_star").length!==0){this.$el.find(".community_rating_star").rating({})}var q=this.grid.attributes;var p=this;this.$el.find(".page-link > a").each(function(){$(this).click(function(){p.set_page($(this).attr("page_num"));return false})});this.$el.find(".use-inbound").each(function(){$(this).click(function(i){p.execute({href:$(this).attr("href"),inbound:true});return false})});this.$el.find(".use-outbound").each(function(){$(this).click(function(i){p.execute({href:$(this).attr("href")});return false})});var f=q.items.length;if(f==0){return}for(var k in q.items){var o=q.items[k];var l=this.$el.find("#grid-"+k+"-popup");l.off();var d=new PopupMenu(l);for(var h in q.operations){var e=q.operations[h];var m=e.label;var c=o.operation_config[m];var g=o.encode_id;if(c.allowed&&e.allow_popup){var n={html:e.label,href:c.url_args,target:c.target,confirmation_text:e.confirm,inbound:e.inbound};n.func=function(r){r.preventDefault();var j=$(r.target).html();var i=this.findItemByHtml(j);p.execute(i)};d.addItem(n)}}}},add_filter_condition:function(e,g){if(g===""){return false}this.grid.add_filter(e,g,true);var f=$(a.filter_element(e,g));var d=this;f.click(function(){$(this).remove();d.remove_filter_condition(e,g)});var c=this.$el.find("#"+e+"-filtering-criteria");c.append(f);this.go_page_one();this.execute()},remove_filter_condition:function(c,d){this.grid.remove_filter(c,d);this.go_page_one();this.execute()},set_sort_condition:function(g){var f=this.grid.get("sort_key");var e=g;if(f.indexOf(g)!==-1){if(f.substring(0,1)!=="-"){e="-"+g}}this.$el.find(".sort-arrow").remove();var d=(e.substring(0,1)=="-")?"↑":"↓";var c=$("<span>"+d+"</span>").addClass("sort-arrow");this.$el.find("#"+g+"-header").append(c);this.grid.set("sort_key",e);this.go_page_one();this.execute()},set_categorical_filter:function(e,g){var d=this.grid.get("categorical_filters")[e],f=this.grid.get("filters")[e];var c=this;this.$el.find("."+e+"-filter").each(function(){var k=$.trim($(this).text());var i=d[k];var j=i[e];if(j==g){$(this).empty();$(this).addClass("current-filter");$(this).append(k)}else{if(j==f){$(this).empty();var h=$('<a href="#">'+k+"</a>");h.click(function(){c.set_categorical_filter(e,j)});$(this).removeClass("current-filter");$(this).append(h)}}});this.grid.add_filter(e,g);this.go_page_one();this.execute()},set_page:function(c){var d=this;this.$el.find(".page-link").each(function(){var i=$(this).attr("id"),g=parseInt(i.split("-")[2],10),e=d.grid.get("cur_page"),h;if(g===c){h=$(this).children().text();$(this).empty();$(this).addClass("inactive-link");$(this).text(h)}else{if(g===e){h=$(this).text();$(this).empty();$(this).removeClass("inactive-link");var f=$('<a href="#">'+h+"</a>");f.click(function(){d.set_page(g)});$(this).append(f)}}});if(c==="all"){this.grid.set("cur_page",c)}else{this.grid.set("cur_page",parseInt(c,10))}this.execute()},submit_operation:function(d,g){var e=$(d).val();var f=this.$el.find('input[name="id"]:checked').length;if(!f>0){return false}var c=[];this.$el.find("input[name=id]:checked").each(function(){c.push($(this).val())});this.execute({operation:e,id:c,confirmation_text:g});return true},check_all_items:function(){var c=document.getElementById("check_all"),d=document.getElementsByTagName("input"),f=0,e;if(c.checked===true){for(e=0;e<d.length;e++){if(d[e].name.indexOf("id")!==-1){d[e].checked=true;f++}}}else{for(e=0;e<d.length;e++){if(d[e].name.indexOf("id")!==-1){d[e].checked=false}}}this.init_grid_elements()},go_page_one:function(){var c=this.grid.get("cur_page");if(c!==null&&c!==undefined&&c!=="all"){this.grid.set("cur_page",1)}},execute:function(l){var f=null;var e=null;var g=null;var c=null;var k=null;if(l){e=l.href;g=l.operation;f=l.id;c=l.confirmation_text;k=l.inbound;if(e!==undefined&&e.indexOf("operation=")!=-1){var j=e.split("?");if(j.length>1){var i=j[1];var d=i.split("&");for(var h=0;h<d.length;h++){if(d[h].indexOf("operation")!=-1){g=d[h].split("=")[1];g=g.replace(/\+/g," ")}else{if(d[h].indexOf("id")!=-1){f=d[h].split("=")[1]}}}}}}if(g&&f){if(c&&c!=""&&c!="None"&&c!="null"){if(!confirm(c)){return false}}g=g.toLowerCase();this.grid.set({operation:g,item_ids:f});if(this.grid.can_async_op(g)){this.update_grid()}else{this.go_to(k,e)}return false}if(e){this.go_to(k,e);return false}if(this.grid.get("async")){this.update_grid()}else{this.go_to(k,e)}return false},go_to:function(f,d){var e=this.grid.get("async");this.grid.set("async",false);advanced_search=this.$el.find("#advanced-search").is(":visible");this.grid.set("advanced_search",advanced_search);if(!d){d=this.grid.get("url_base")+"?"+$.param(this.grid.get_url_data())}this.grid.set({operation:undefined,item_ids:undefined,async:e});if(f){var c=$(".grid-header").closest(".inbound");if(c.length!==0){c.load(d);return}}window.location=d},update_grid:function(){var d=(this.grid.get("operation")?"POST":"GET");this.$el.find(".loading-elt-overlay").show();var c=this;$.ajax({type:d,url:c.grid.get("url_base"),data:c.grid.get_url_data(),error:function(e){alert("Grid refresh failed")},success:function(e){var g=c.grid.get("embedded");var h=c.grid.get("insert");var f=$.parseJSON(e);f.embedded=g;f.insert=h;c.init_grid(f);c.$el.find(".loading-elt-overlay").hide()},complete:function(){c.grid.set({operation:undefined,item_ids:undefined})}})}})}); \ No newline at end of file +jQuery.ajaxSettings.traditional=true;define(["mvc/grid/grid-model","mvc/grid/grid-template","mvc/ui/popup-menu"],function(c,b,a){return Backbone.View.extend({grid:null,initialize:function(d){this.setElement("#grid-container");if(d.use_panels){$("#center").css({padding:"10px",overflow:"auto"})}this.init_grid(d)},handle_refresh:function(d){if(d){if($.inArray("history",d)>-1){if(top.Galaxy&&top.Galaxy.currHistoryPanel){top.Galaxy.currHistoryPanel.loadCurrentHistory()}}}},init_grid:function(g){this.grid=new c(g);var f=this.grid.attributes;this.handle_refresh(f.refresh_frames);var e=this.grid.get("url_base");e=e.replace(/^.*\/\/[^\/]+/,"");this.grid.set("url_base",e);this.$el.html(b.grid(f));this.$el.find("#grid-table-header").html(b.header(f));this.$el.find("#grid-table-body").html(b.body(f));this.$el.find("#grid-table-footer").html(b.footer(f));if(f.message){this.$el.find("#grid-message").html(b.message(f));var d=this;if(f.use_hide_message){setTimeout(function(){d.$el.find("#grid-message").html("")},5000)}}this.init_grid_elements();this.init_grid_controls();init_refresh_on_change()},init_grid_controls:function(){var d=this;this.$el.find(".operation-button").each(function(){$(this).off();$(this).click(function(){d.submit_operation(this,operation.confirm);return false})});this.$el.find("input[type=text]").each(function(){$(this).off();$(this).click(function(){$(this).select()}).keyup(function(){$(this).css("font-style","normal")})});this.$el.find(".sort-link").each(function(){$(this).off();$(this).click(function(){d.set_sort_condition($(this).attr("sort_key"));return false})});this.$el.find(".text-filter-form").each(function(){$(this).off();$(this).submit(function(){var h=$(this).attr("column_key");var g=$("#input-"+h+"-filter");var i=g.val();g.val("");d.add_filter_condition(h,i);return false})});this.$el.find(".text-filter-val > a").each(function(){$(this).off();$(this).click(function(){$(this).parent().remove();d.remove_filter_condition($(this).attr("filter_key"),$(this).attr("filter_val"));return false})});this.$el.find(".categorical-filter > a").each(function(){$(this).off();$(this).click(function(){d.set_categorical_filter($(this).attr("filter_key"),$(this).attr("filter_val"));return false})});var f=this.$el.find("#input-tags-filter");if(f.length){f.autocomplete(this.grid.history_tag_autocomplete_url,{selectFirst:false,autoFill:false,highlight:false,mustMatch:false})}var e=this.$el.find("#input-name-filter");if(e.length){e.autocomplete(this.grid.history_name_autocomplete_url,{selectFirst:false,autoFill:false,highlight:false,mustMatch:false})}this.$el.find(".advanced-search-toggle").each(function(){$(this).off();$(this).click(function(){d.$el.find("#standard-search").slideToggle("fast");d.$el.find("#advanced-search").slideToggle("fast");return false})});this.$el.find("#check_all").off();this.$el.find("#check_all").on("click",function(){d.check_all_items()})},init_grid_elements:function(){this.$el.find(".grid").each(function(){var j=$(this).find("input.grid-row-select-checkbox");var i=$(this).find("span.grid-selected-count");var s=function(){i.text($(j).filter(":checked").length)};$(j).each(function(){$(this).change(s)});s()});if(this.$el.find(".community_rating_star").length!==0){this.$el.find(".community_rating_star").rating({})}var r=this.grid.attributes;var q=this;this.$el.find(".page-link > a").each(function(){$(this).click(function(){q.set_page($(this).attr("page_num"));return false})});this.$el.find(".use-inbound").each(function(){$(this).click(function(i){q.execute({href:$(this).attr("href"),inbound:true});return false})});this.$el.find(".use-outbound").each(function(){$(this).click(function(i){q.execute({href:$(this).attr("href")});return false})});var g=r.items.length;if(g==0){return}for(var l in r.items){var p=r.items[l];var m=this.$el.find("#grid-"+l+"-popup");m.off();var e=new a(m);for(var k in r.operations){var f=r.operations[k];var n=f.label;var d=p.operation_config[n];var h=p.encode_id;if(d.allowed&&f.allow_popup){var o={html:f.label,href:d.url_args,target:d.target,confirmation_text:f.confirm,inbound:f.inbound};o.func=function(s){s.preventDefault();var j=$(s.target).html();var i=this.findItemByHtml(j);q.execute(i)};e.addItem(o)}}}},add_filter_condition:function(f,h){if(h===""){return false}this.grid.add_filter(f,h,true);var g=$(b.filter_element(f,h));var e=this;g.click(function(){$(this).remove();e.remove_filter_condition(f,h)});var d=this.$el.find("#"+f+"-filtering-criteria");d.append(g);this.go_page_one();this.execute()},remove_filter_condition:function(d,e){this.grid.remove_filter(d,e);this.go_page_one();this.execute()},set_sort_condition:function(h){var g=this.grid.get("sort_key");var f=h;if(g.indexOf(h)!==-1){if(g.substring(0,1)!=="-"){f="-"+h}}this.$el.find(".sort-arrow").remove();var e=(f.substring(0,1)=="-")?"↑":"↓";var d=$("<span>"+e+"</span>").addClass("sort-arrow");this.$el.find("#"+h+"-header").append(d);this.grid.set("sort_key",f);this.go_page_one();this.execute()},set_categorical_filter:function(f,h){var e=this.grid.get("categorical_filters")[f],g=this.grid.get("filters")[f];var d=this;this.$el.find("."+f+"-filter").each(function(){var l=$.trim($(this).text());var j=e[l];var k=j[f];if(k==h){$(this).empty();$(this).addClass("current-filter");$(this).append(l)}else{if(k==g){$(this).empty();var i=$('<a href="#">'+l+"</a>");i.click(function(){d.set_categorical_filter(f,k)});$(this).removeClass("current-filter");$(this).append(i)}}});this.grid.add_filter(f,h);this.go_page_one();this.execute()},set_page:function(d){var e=this;this.$el.find(".page-link").each(function(){var j=$(this).attr("id"),h=parseInt(j.split("-")[2],10),f=e.grid.get("cur_page"),i;if(h===d){i=$(this).children().text();$(this).empty();$(this).addClass("inactive-link");$(this).text(i)}else{if(h===f){i=$(this).text();$(this).empty();$(this).removeClass("inactive-link");var g=$('<a href="#">'+i+"</a>");g.click(function(){e.set_page(h)});$(this).append(g)}}});if(d==="all"){this.grid.set("cur_page",d)}else{this.grid.set("cur_page",parseInt(d,10))}this.execute()},submit_operation:function(e,h){var f=$(e).val();var g=this.$el.find('input[name="id"]:checked').length;if(!g>0){return false}var d=[];this.$el.find("input[name=id]:checked").each(function(){d.push($(this).val())});this.execute({operation:f,id:d,confirmation_text:h});return true},check_all_items:function(){var d=document.getElementById("check_all"),e=document.getElementsByTagName("input"),g=0,f;if(d.checked===true){for(f=0;f<e.length;f++){if(e[f].name.indexOf("id")!==-1){e[f].checked=true;g++}}}else{for(f=0;f<e.length;f++){if(e[f].name.indexOf("id")!==-1){e[f].checked=false}}}this.init_grid_elements()},go_page_one:function(){var d=this.grid.get("cur_page");if(d!==null&&d!==undefined&&d!=="all"){this.grid.set("cur_page",1)}},execute:function(m){var g=null;var f=null;var h=null;var d=null;var l=null;if(m){f=m.href;h=m.operation;g=m.id;d=m.confirmation_text;l=m.inbound;if(f!==undefined&&f.indexOf("operation=")!=-1){var k=f.split("?");if(k.length>1){var j=k[1];var e=j.split("&");for(var i=0;i<e.length;i++){if(e[i].indexOf("operation")!=-1){h=e[i].split("=")[1];h=h.replace(/\+/g," ")}else{if(e[i].indexOf("id")!=-1){g=e[i].split("=")[1]}}}}}}if(h&&g){if(d&&d!=""&&d!="None"&&d!="null"){if(!confirm(d)){return false}}h=h.toLowerCase();this.grid.set({operation:h,item_ids:g});if(this.grid.can_async_op(h)){this.update_grid()}else{this.go_to(l,f)}return false}if(f){this.go_to(l,f);return false}if(this.grid.get("async")){this.update_grid()}else{this.go_to(l,f)}return false},go_to:function(g,e){var f=this.grid.get("async");this.grid.set("async",false);advanced_search=this.$el.find("#advanced-search").is(":visible");this.grid.set("advanced_search",advanced_search);if(!e){e=this.grid.get("url_base")+"?"+$.param(this.grid.get_url_data())}this.grid.set({operation:undefined,item_ids:undefined,async:f});if(g){var d=$(".grid-header").closest(".inbound");if(d.length!==0){d.load(e);return}}window.location=e},update_grid:function(){var e=(this.grid.get("operation")?"POST":"GET");this.$el.find(".loading-elt-overlay").show();var d=this;$.ajax({type:e,url:d.grid.get("url_base"),data:d.grid.get_url_data(),error:function(f){alert("Grid refresh failed")},success:function(f){var h=d.grid.get("embedded");var i=d.grid.get("insert");var g=$.parseJSON(f);g.embedded=h;g.insert=i;d.init_grid(g);d.$el.find(".loading-elt-overlay").hide()},complete:function(){d.grid.set({operation:undefined,item_ids:undefined})}})}})}); \ No newline at end of file diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 static/scripts/packed/mvc/history/history-panel-edit.js --- a/static/scripts/packed/mvc/history/history-panel-edit.js +++ b/static/scripts/packed/mvc/history/history-panel-edit.js @@ -1,1 +1,1 @@ -define(["mvc/history/history-panel","mvc/history/history-contents","mvc/dataset/states","mvc/history/hda-model","mvc/history/hda-li-edit","mvc/history/hdca-li-edit","mvc/tags","mvc/annotations","jq-plugins/ui/fa-icon-button","utils/localization"],function(g,i,l,e,d,h,k,b,a,c){var j=g.HistoryPanel;var f=j.extend({HDAViewClass:d.HDAListItemEdit,HDCAViewClass:h.HDCAListItemEdit,initialize:function(m){m=m||{};j.prototype.initialize.call(this,m);this.tagsEditor=null;this.annotationEditor=null;this.purgeAllowed=m.purgeAllowed||false;this.annotationEditorShown=m.annotationEditorShown||false;this.tagsEditorShown=m.tagsEditorShown||false;this.multiselectActions=m.multiselectActions||this._getActions()},_setUpListeners:function(){j.prototype._setUpListeners.call(this);this.on("drop",function(m,n){this.dataDropped(n);this.dropTargetOff()})},_setUpCollectionListeners:function(){j.prototype._setUpCollectionListeners.call(this);this.collection.on("change:deleted",this._handleHdaDeletionChange,this);this.collection.on("change:visible",this._handleHdaVisibleChange,this);this.collection.on("change:purged",function(m){this.model.fetch()},this);return this},_setUpModelListeners:function(){j.prototype._setUpModelListeners.call(this);this.model.on("change:nice_size",this.updateHistoryDiskSize,this);return this},_buildNewRender:function(){var m=j.prototype._buildNewRender.call(this);if(!this.model){return m}if(Galaxy&&Galaxy.currUser&&Galaxy.currUser.id&&Galaxy.currUser.id===this.model.get("user_id")){this._renderTags(m);this._renderAnnotation(m)}return m},renderItems:function(n){var m=j.prototype.renderItems.call(this,n);this._renderCounts(n);return m},_renderCounts:function(o){function n(r,s){return['<a class="',r,'" href="javascript:void(0);">',s,"</a>"].join("")}o=o||this.$el;var m=this.collection.where({deleted:true}),q=this.collection.where({visible:false}),p=[];if(this.views.length){p.push([this.views.length,c("shown")].join(" "))}if(m.length){p.push((!this.showDeleted)?([m.length,n("toggle-deleted-link",c("deleted"))].join(" ")):(n("toggle-deleted-link",c("hide deleted"))))}if(q.length){p.push((!this.showHidden)?([q.length,n("toggle-hidden-link",c("hidden"))].join(" ")):(n("toggle-hidden-link",c("hide hidden"))))}return o.find("> .controls .subtitle").html(p.join(", "))},_renderTags:function(m){var n=this;this.tagsEditor=new k.TagsEditor({model:this.model,el:m.find(".controls .tags-display"),onshowFirstTime:function(){this.render()},onshow:function(){n.toggleHDATagEditors(true,n.fxSpeed)},onhide:function(){n.toggleHDATagEditors(false,n.fxSpeed)},$activator:a({title:c("Edit history tags"),classes:"history-tag-btn",faIcon:"fa-tags"}).appendTo(m.find(".controls .actions"))})},_renderAnnotation:function(m){var n=this;this.annotationEditor=new b.AnnotationEditor({model:this.model,el:m.find(".controls .annotation-display"),onshowFirstTime:function(){this.render()},onshow:function(){n.toggleHDAAnnotationEditors(true,n.fxSpeed)},onhide:function(){n.toggleHDAAnnotationEditors(false,n.fxSpeed)},$activator:a({title:c("Edit history annotation"),classes:"history-annotate-btn",faIcon:"fa-comment"}).appendTo(m.find(".controls .actions"))})},_setUpBehaviors:function(m){m=m||this.$el;j.prototype._setUpBehaviors.call(this,m);if(!this.model){return}if(this.multiselectActions.length){this.actionsPopup=new PopupMenu(m.find(".list-action-popup-btn"),this.multiselectActions)}if((!Galaxy.currUser||Galaxy.currUser.isAnonymous())||(Galaxy.currUser.id!==this.model.get("user_id"))){return}var n=this,o=".controls .name";m.find(o).attr("title",c("Click to rename history")).tooltip({placement:"bottom"}).make_text_editable({on_finish:function(p){var q=n.model.get("name");if(p&&p!==q){n.$el.find(o).text(p);n.model.save({name:p}).fail(function(){n.$el.find(o).text(n.model.previous("name"))})}else{n.$el.find(o).text(q)}}})},_getActions:function(){var m=this,n=[{html:c("Hide datasets"),func:function(){var o=e.HistoryDatasetAssociation.prototype.hide;m.getSelectedModels().ajaxQueue(o)}},{html:c("Unhide datasets"),func:function(){var o=e.HistoryDatasetAssociation.prototype.unhide;m.getSelectedModels().ajaxQueue(o)}},{html:c("Delete datasets"),func:function(){var o=e.HistoryDatasetAssociation.prototype["delete"];m.getSelectedModels().ajaxQueue(o)}},{html:c("Undelete datasets"),func:function(){var o=e.HistoryDatasetAssociation.prototype.undelete;m.getSelectedModels().ajaxQueue(o)}}];if(m.purgeAllowed){n.push({html:c("Permanently delete datasets"),func:function(){if(confirm(c("This will permanently remove the data in your datasets. Are you sure?"))){var o=e.HistoryDatasetAssociation.prototype.purge;m.getSelectedModels().ajaxQueue(o)}}})}n.push({html:c("Build Dataset List"),func:function(){m.getSelectedModels().promoteToHistoryDatasetCollection(m.model,"list")}});n.push({html:c("Build Dataset Pair"),func:function(){m.getSelectedModels().promoteToHistoryDatasetCollection(m.model,"paired")}});n.push({html:c("Build List of Dataset Pairs"),func:_.bind(m._showPairedCollectionModal,m)});return n},_showPairedCollectionModal:function(){var m=this,n=m.getSelectedModels().toJSON().filter(function(o){return o.history_content_type==="dataset"&&o.state===l.OK});if(n.length){require(["mvc/collection/paired-collection-creator"],function(o){window.creator=o.pairedCollectionCreatorModal(n,{historyId:m.model.id})})}else{}},_attachItems:function(m){this.$list(m).append(this.views.reverse().map(function(n){return n.$el}));return this},_attachView:function(n){var m=this;m.views.unshift(n);m.$list().prepend(n.render(0).$el.hide());n.$el.slideDown(m.fxSpeed)},_getItemViewOptions:function(n){var m=j.prototype._getItemViewOptions.call(this,n);_.extend(m,{purgeAllowed:this.purgeAllowed,tagsEditorShown:(this.tagsEditor&&!this.tagsEditor.hidden),annotationEditorShown:(this.annotationEditor&&!this.annotationEditor.hidden)});return m},_handleHdaDeletionChange:function(m){if(m.get("deleted")&&!this.showDeleted){this.removeItemView(m)}this._renderCounts()},_handleHdaVisibleChange:function(m){if(m.hidden()&&!this.storage.showHidden){this.removeItemView(m)}this._renderCounts()},toggleHDATagEditors:function(m){var n=Array.prototype.slice.call(arguments,1);_.each(this.views,function(o){if(o.tagsEditor){o.tagsEditor.toggle.apply(o.tagsEditor,n)}})},toggleHDAAnnotationEditors:function(m){var n=Array.prototype.slice.call(arguments,1);_.each(this.views,function(o){if(o.annotationEditor){o.annotationEditor.toggle.apply(o.annotationEditor,n)}})},events:_.extend(_.clone(j.prototype.events),{"click .show-selectors-btn":"toggleSelectors","click .toggle-deleted-link":function(m){this.toggleShowDeleted()},"click .toggle-hidden-link":function(m){this.toggleShowHidden()}}),updateHistoryDiskSize:function(){this.$el.find(".history-size").text(this.model.get("nice_size"))},dropTargetOn:function(){if(this.dropTarget){return this}this.dropTarget=true;var n={dragenter:_.bind(this.dragenter,this),dragover:_.bind(this.dragover,this),dragleave:_.bind(this.dragleave,this),drop:_.bind(this.drop,this)};var o=this._renderDropTarget();this.$list().before([this._renderDropTargetHelp(),o]);for(var m in n){if(n.hasOwnProperty(m)){o.on(m,n[m])}}return this},_renderDropTarget:function(){return $("<div/>").addClass("history-drop-target").css({height:"64px",margin:"0px 10px 10px 10px",border:"1px dashed black","border-radius":"3px"})},_renderDropTargetHelp:function(){return $("<div/>").addClass("history-drop-target-help").css({margin:"10px 10px 4px 10px",color:"grey","font-size":"80%","font-style":"italic"}).text(c("Drag datasets here to copy them to the current history"))},dropTargetOff:function(){if(!this.dropTarget){return this}this.dropTarget=false;this.$(".history-drop-target").remove();this.$(".history-drop-target-help").remove();return this},dropTargetToggle:function(){if(this.dropTarget){this.dropTargetOff()}else{this.dropTargetOn()}return this},dragenter:function(m){m.preventDefault();m.stopPropagation();this.$(".history-drop-target").css("border","2px solid black")},dragover:function(m){m.preventDefault();m.stopPropagation()},dragleave:function(m){m.preventDefault();m.stopPropagation();this.$(".history-drop-target").css("border","1px dashed black")},drop:function(o){o.preventDefault();o.dataTransfer.dropEffect="move";var m=this,p=o.dataTransfer.getData("text");try{p=JSON.parse(p)}catch(n){this.warn("error parsing JSON from drop:",p)}this.trigger("droptarget:drop",o,p,m);return false},dataDropped:function(n){var m=this;if(_.isObject(n)&&n.model_class==="HistoryDatasetAssociation"&&n.id){return m.model.contents.copy(n.id)}return jQuery.when()},toString:function(){return"HistoryPanelEdit("+((this.model)?(this.model.get("name")):(""))+")"}});return{HistoryPanelEdit:f}}); \ No newline at end of file +define(["mvc/history/history-panel","mvc/history/history-contents","mvc/dataset/states","mvc/history/hda-model","mvc/history/hda-li-edit","mvc/history/hdca-li-edit","mvc/tags","mvc/annotations","jq-plugins/ui/fa-icon-button","mvc/ui/popup-menu","utils/localization"],function(h,j,m,f,e,i,l,c,b,a,d){var k=h.HistoryPanel;var g=k.extend({HDAViewClass:e.HDAListItemEdit,HDCAViewClass:i.HDCAListItemEdit,initialize:function(n){n=n||{};k.prototype.initialize.call(this,n);this.tagsEditor=null;this.annotationEditor=null;this.purgeAllowed=n.purgeAllowed||false;this.annotationEditorShown=n.annotationEditorShown||false;this.tagsEditorShown=n.tagsEditorShown||false;this.multiselectActions=n.multiselectActions||this._getActions()},_setUpListeners:function(){k.prototype._setUpListeners.call(this);this.on("drop",function(n,o){this.dataDropped(o);this.dropTargetOff()})},_setUpCollectionListeners:function(){k.prototype._setUpCollectionListeners.call(this);this.collection.on("change:deleted",this._handleHdaDeletionChange,this);this.collection.on("change:visible",this._handleHdaVisibleChange,this);this.collection.on("change:purged",function(n){this.model.fetch()},this);return this},_setUpModelListeners:function(){k.prototype._setUpModelListeners.call(this);this.model.on("change:nice_size",this.updateHistoryDiskSize,this);return this},_buildNewRender:function(){var n=k.prototype._buildNewRender.call(this);if(!this.model){return n}if(Galaxy&&Galaxy.currUser&&Galaxy.currUser.id&&Galaxy.currUser.id===this.model.get("user_id")){this._renderTags(n);this._renderAnnotation(n)}return n},renderItems:function(o){var n=k.prototype.renderItems.call(this,o);this._renderCounts(o);return n},_renderCounts:function(p){function o(s,t){return['<a class="',s,'" href="javascript:void(0);">',t,"</a>"].join("")}p=p||this.$el;var n=this.collection.where({deleted:true}),r=this.collection.where({visible:false}),q=[];if(this.views.length){q.push([this.views.length,d("shown")].join(" "))}if(n.length){q.push((!this.showDeleted)?([n.length,o("toggle-deleted-link",d("deleted"))].join(" ")):(o("toggle-deleted-link",d("hide deleted"))))}if(r.length){q.push((!this.showHidden)?([r.length,o("toggle-hidden-link",d("hidden"))].join(" ")):(o("toggle-hidden-link",d("hide hidden"))))}return p.find("> .controls .subtitle").html(q.join(", "))},_renderTags:function(n){var o=this;this.tagsEditor=new l.TagsEditor({model:this.model,el:n.find(".controls .tags-display"),onshowFirstTime:function(){this.render()},onshow:function(){o.toggleHDATagEditors(true,o.fxSpeed)},onhide:function(){o.toggleHDATagEditors(false,o.fxSpeed)},$activator:b({title:d("Edit history tags"),classes:"history-tag-btn",faIcon:"fa-tags"}).appendTo(n.find(".controls .actions"))})},_renderAnnotation:function(n){var o=this;this.annotationEditor=new c.AnnotationEditor({model:this.model,el:n.find(".controls .annotation-display"),onshowFirstTime:function(){this.render()},onshow:function(){o.toggleHDAAnnotationEditors(true,o.fxSpeed)},onhide:function(){o.toggleHDAAnnotationEditors(false,o.fxSpeed)},$activator:b({title:d("Edit history annotation"),classes:"history-annotate-btn",faIcon:"fa-comment"}).appendTo(n.find(".controls .actions"))})},_setUpBehaviors:function(n){n=n||this.$el;k.prototype._setUpBehaviors.call(this,n);if(!this.model){return}if(this.multiselectActions.length){this.actionsPopup=new a(n.find(".list-action-popup-btn"),this.multiselectActions)}if((!Galaxy.currUser||Galaxy.currUser.isAnonymous())||(Galaxy.currUser.id!==this.model.get("user_id"))){return}var o=this,p=".controls .name";n.find(p).attr("title",d("Click to rename history")).tooltip({placement:"bottom"}).make_text_editable({on_finish:function(q){var r=o.model.get("name");if(q&&q!==r){o.$el.find(p).text(q);o.model.save({name:q}).fail(function(){o.$el.find(p).text(o.model.previous("name"))})}else{o.$el.find(p).text(r)}}})},_getActions:function(){var n=this,o=[{html:d("Hide datasets"),func:function(){var p=f.HistoryDatasetAssociation.prototype.hide;n.getSelectedModels().ajaxQueue(p)}},{html:d("Unhide datasets"),func:function(){var p=f.HistoryDatasetAssociation.prototype.unhide;n.getSelectedModels().ajaxQueue(p)}},{html:d("Delete datasets"),func:function(){var p=f.HistoryDatasetAssociation.prototype["delete"];n.getSelectedModels().ajaxQueue(p)}},{html:d("Undelete datasets"),func:function(){var p=f.HistoryDatasetAssociation.prototype.undelete;n.getSelectedModels().ajaxQueue(p)}}];if(n.purgeAllowed){o.push({html:d("Permanently delete datasets"),func:function(){if(confirm(d("This will permanently remove the data in your datasets. Are you sure?"))){var p=f.HistoryDatasetAssociation.prototype.purge;n.getSelectedModels().ajaxQueue(p)}}})}o.push({html:d("Build Dataset List"),func:function(){n.getSelectedModels().promoteToHistoryDatasetCollection(n.model,"list")}});o.push({html:d("Build Dataset Pair"),func:function(){n.getSelectedModels().promoteToHistoryDatasetCollection(n.model,"paired")}});o.push({html:d("Build List of Dataset Pairs"),func:_.bind(n._showPairedCollectionModal,n)});return o},_showPairedCollectionModal:function(){var n=this,o=n.getSelectedModels().toJSON().filter(function(p){return p.history_content_type==="dataset"&&p.state===m.OK});if(o.length){require(["mvc/collection/paired-collection-creator"],function(p){window.creator=p.pairedCollectionCreatorModal(o,{historyId:n.model.id})})}else{}},_attachItems:function(n){this.$list(n).append(this.views.reverse().map(function(o){return o.$el}));return this},_attachView:function(o){var n=this;n.views.unshift(o);n.$list().prepend(o.render(0).$el.hide());o.$el.slideDown(n.fxSpeed)},_getItemViewOptions:function(o){var n=k.prototype._getItemViewOptions.call(this,o);_.extend(n,{purgeAllowed:this.purgeAllowed,tagsEditorShown:(this.tagsEditor&&!this.tagsEditor.hidden),annotationEditorShown:(this.annotationEditor&&!this.annotationEditor.hidden)});return n},_handleHdaDeletionChange:function(n){if(n.get("deleted")&&!this.showDeleted){this.removeItemView(n)}this._renderCounts()},_handleHdaVisibleChange:function(n){if(n.hidden()&&!this.storage.showHidden){this.removeItemView(n)}this._renderCounts()},toggleHDATagEditors:function(n){var o=Array.prototype.slice.call(arguments,1);_.each(this.views,function(p){if(p.tagsEditor){p.tagsEditor.toggle.apply(p.tagsEditor,o)}})},toggleHDAAnnotationEditors:function(n){var o=Array.prototype.slice.call(arguments,1);_.each(this.views,function(p){if(p.annotationEditor){p.annotationEditor.toggle.apply(p.annotationEditor,o)}})},events:_.extend(_.clone(k.prototype.events),{"click .show-selectors-btn":"toggleSelectors","click .toggle-deleted-link":function(n){this.toggleShowDeleted()},"click .toggle-hidden-link":function(n){this.toggleShowHidden()}}),updateHistoryDiskSize:function(){this.$el.find(".history-size").text(this.model.get("nice_size"))},dropTargetOn:function(){if(this.dropTarget){return this}this.dropTarget=true;var o={dragenter:_.bind(this.dragenter,this),dragover:_.bind(this.dragover,this),dragleave:_.bind(this.dragleave,this),drop:_.bind(this.drop,this)};var p=this._renderDropTarget();this.$list().before([this._renderDropTargetHelp(),p]);for(var n in o){if(o.hasOwnProperty(n)){p.on(n,o[n])}}return this},_renderDropTarget:function(){return $("<div/>").addClass("history-drop-target").css({height:"64px",margin:"0px 10px 10px 10px",border:"1px dashed black","border-radius":"3px"})},_renderDropTargetHelp:function(){return $("<div/>").addClass("history-drop-target-help").css({margin:"10px 10px 4px 10px",color:"grey","font-size":"80%","font-style":"italic"}).text(d("Drag datasets here to copy them to the current history"))},dropTargetOff:function(){if(!this.dropTarget){return this}this.dropTarget=false;this.$(".history-drop-target").remove();this.$(".history-drop-target-help").remove();return this},dropTargetToggle:function(){if(this.dropTarget){this.dropTargetOff()}else{this.dropTargetOn()}return this},dragenter:function(n){n.preventDefault();n.stopPropagation();this.$(".history-drop-target").css("border","2px solid black")},dragover:function(n){n.preventDefault();n.stopPropagation()},dragleave:function(n){n.preventDefault();n.stopPropagation();this.$(".history-drop-target").css("border","1px dashed black")},drop:function(p){p.preventDefault();p.dataTransfer.dropEffect="move";var n=this,q=p.dataTransfer.getData("text");try{q=JSON.parse(q)}catch(o){this.warn("error parsing JSON from drop:",q)}this.trigger("droptarget:drop",p,q,n);return false},dataDropped:function(o){var n=this;if(_.isObject(o)&&o.model_class==="HistoryDatasetAssociation"&&o.id){return n.model.contents.copy(o.id)}return jQuery.when()},toString:function(){return"HistoryPanelEdit("+((this.model)?(this.model.get("name")):(""))+")"}});return{HistoryPanelEdit:g}}); \ No newline at end of file diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 static/scripts/packed/mvc/history/options-menu.js --- a/static/scripts/packed/mvc/history/options-menu.js +++ b/static/scripts/packed/mvc/history/options-menu.js @@ -1,1 +1,1 @@ -define(["mvc/base-mvc","utils/localization"],function(a,d){var e=[{html:d("History Lists"),header:true},{html:d("Saved Histories"),href:"history/list"},{html:d("Histories Shared with Me"),href:"history/list_shared"},{html:d("Current History"),header:true,anon:true},{html:d("Create New"),func:function(){if(Galaxy&&Galaxy.currHistoryPanel){Galaxy.currHistoryPanel.createNewHistory()}}},{html:d("Copy History"),href:"history/copy"},{html:d("Copy Datasets"),href:"dataset/copy_datasets"},{html:d("Share or Publish"),href:"history/sharing"},{html:d("Extract Workflow"),href:"workflow/build_from_current_history"},{html:d("Dataset Security"),href:"root/history_set_default_permissions"},{html:d("Resume Paused Jobs"),href:"history/resume_paused_jobs?current=True",anon:true},{html:d("Collapse Expanded Datasets"),func:function(){if(Galaxy&&Galaxy.currHistoryPanel){Galaxy.currHistoryPanel.collapseAll()}}},{html:d("Unhide Hidden Datasets"),confirm:d("Really unhide all hidden datasets?"),href:"history/unhide_datasets?current=True",anon:true},{html:d("Delete Hidden Datasets"),confirm:d("Really delete all hidden datasets?"),href:"history/delete_hidden_datasets",anon:true},{html:d("Purge Deleted Datasets"),confirm:d("Really delete all deleted datasets permanently? This cannot be undone."),href:"history/purge_deleted_datasets",purge:true,anon:true},{html:d("Show Structure"),href:"history/display_structured",anon:true},{html:d("Export Citations"),href:"history/citations",anon:true},{html:d("Export to File"),href:"history/export_archive?preview=True",anon:true},{html:d("Delete"),confirm:d("Really delete the current history?"),href:"history/delete_current"},{html:d("Delete Permanently"),confirm:d("Really delete the current history permanently? This cannot be undone."),href:"history/delete_current?purge=True",purge:true,anon:true},{html:d("Other Actions"),header:true},{html:d("Import from File"),href:"history/import_archive"}];function c(h,g,f){return _.clone(e).filter(function(i){if(h&&!i.anon){return false}if(!g&&i.purge){return false}if(i.href){i.href=f+i.href;i.target="galaxy_main"}if(i.confirm){i.func=function(){if(confirm(i.confirm)){galaxy_main.location=i.href}}}return true})}var b=function(i,g){g=g||{};var j=g.anonymous===undefined?true:g.anonymous,h=g.purgeAllowed||false,f=g.root||((Galaxy&&Galaxy.options)?Galaxy.options.root:"/"),k=c(j,h,f);return new PopupMenu(i,k)};return b}); \ No newline at end of file +define(["mvc/ui/popup-menu","mvc/base-mvc","utils/localization"],function(b,a,e){var f=[{html:e("History Lists"),header:true},{html:e("Saved Histories"),href:"history/list"},{html:e("Histories Shared with Me"),href:"history/list_shared"},{html:e("Current History"),header:true,anon:true},{html:e("Create New"),func:function(){if(Galaxy&&Galaxy.currHistoryPanel){Galaxy.currHistoryPanel.createNewHistory()}}},{html:e("Copy History"),href:"history/copy"},{html:e("Copy Datasets"),href:"dataset/copy_datasets"},{html:e("Share or Publish"),href:"history/sharing"},{html:e("Extract Workflow"),href:"workflow/build_from_current_history"},{html:e("Dataset Security"),href:"root/history_set_default_permissions"},{html:e("Resume Paused Jobs"),href:"history/resume_paused_jobs?current=True",anon:true},{html:e("Collapse Expanded Datasets"),func:function(){if(Galaxy&&Galaxy.currHistoryPanel){Galaxy.currHistoryPanel.collapseAll()}}},{html:e("Unhide Hidden Datasets"),confirm:e("Really unhide all hidden datasets?"),href:"history/unhide_datasets?current=True",anon:true},{html:e("Delete Hidden Datasets"),confirm:e("Really delete all hidden datasets?"),href:"history/delete_hidden_datasets",anon:true},{html:e("Purge Deleted Datasets"),confirm:e("Really delete all deleted datasets permanently? This cannot be undone."),href:"history/purge_deleted_datasets",purge:true,anon:true},{html:e("Show Structure"),href:"history/display_structured",anon:true},{html:e("Export Citations"),href:"history/citations",anon:true},{html:e("Export to File"),href:"history/export_archive?preview=True",anon:true},{html:e("Delete"),confirm:e("Really delete the current history?"),href:"history/delete_current"},{html:e("Delete Permanently"),confirm:e("Really delete the current history permanently? This cannot be undone."),href:"history/delete_current?purge=True",purge:true,anon:true},{html:e("Other Actions"),header:true},{html:e("Import from File"),href:"history/import_archive"}];function d(i,h,g){return _.clone(f).filter(function(j){if(i&&!j.anon){return false}if(!h&&j.purge){return false}if(j.href){j.href=g+j.href;j.target="galaxy_main"}if(j.confirm){j.func=function(){if(confirm(j.confirm)){galaxy_main.location=j.href}}}return true})}var c=function(j,h){h=h||{};var k=h.anonymous===undefined?true:h.anonymous,i=h.purgeAllowed||false,g=h.root||((Galaxy&&Galaxy.options)?Galaxy.options.root:"/"),l=d(k,i,g);return new b(j,l)};return c}); \ No newline at end of file diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 static/scripts/packed/mvc/ui.js --- a/static/scripts/packed/mvc/ui.js +++ b/static/scripts/packed/mvc/ui.js @@ -1,1 +1,1 @@ -var IconButton=Backbone.Model.extend({defaults:{title:"",icon_class:"",on_click:null,menu_options:null,is_menu_button:true,id:null,href:null,target:null,enabled:true,visible:true,tooltip_config:{}}});var IconButtonView=Backbone.View.extend({initialize:function(){this.model.attributes.tooltip_config={placement:"bottom"};this.model.bind("change",this.render,this)},render:function(){this.$el.tooltip("hide");var a=this.template(this.model.toJSON());a.tooltip(this.model.get("tooltip_config"));this.$el.replaceWith(a);this.setElement(a);return this},events:{click:"click"},click:function(a){if(_.isFunction(this.model.get("on_click"))){this.model.get("on_click")(a);return false}return true},template:function(b){var a='title="'+b.title+'" class="icon-button';if(b.is_menu_button){a+=" menu-button"}a+=" "+b.icon_class;if(!b.enabled){a+="_disabled"}a+='"';if(b.id){a+=' id="'+b.id+'"'}a+=' href="'+b.href+'"';if(b.target){a+=' target="'+b.target+'"'}if(!b.visible){a+=' style="display: none;"'}if(b.enabled){a="<a "+a+"/>"}else{a="<span "+a+"/>"}return $(a)}});var IconButtonCollection=Backbone.Collection.extend({model:IconButton});var IconButtonMenuView=Backbone.View.extend({tagName:"div",initialize:function(){this.render()},render:function(){var a=this;this.collection.each(function(d){var b=$("<a/>").attr("href","javascript:void(0)").attr("title",d.attributes.title).addClass("icon-button menu-button").addClass(d.attributes.icon_class).appendTo(a.$el).click(d.attributes.on_click);if(d.attributes.tooltip_config){b.tooltip(d.attributes.tooltip_config)}var c=d.get("options");if(c){make_popupmenu(b,c)}});return this}});var create_icon_buttons_menu=function(b,a){if(!a){a={}}var c=new IconButtonCollection(_.map(b,function(d){return new IconButton(_.extend(d,a))}));return new IconButtonMenuView({collection:c})};var Grid=Backbone.Collection.extend({});var GridView=Backbone.View.extend({});var PopupMenu=Backbone.View.extend({initialize:function(b,a){this.$button=b;if(!this.$button.size()){this.$button=$("<div/>")}this.options=a||[];var c=this;this.$button.click(function(d){$(".popmenu-wrapper").remove();c._renderAndShow(d);return false})},_renderAndShow:function(a){this.render();this.$el.appendTo("body").css(this._getShownPosition(a)).show();this._setUpCloseBehavior()},render:function(){this.$el.addClass("popmenu-wrapper").hide().css({position:"absolute"}).html(this.template(this.$button.attr("id"),this.options));if(this.options.length){var a=this;this.$el.find("li").each(function(c,b){var d=a.options[c];if(d.func){$(this).children("a.popupmenu-option").click(function(e){d.func.call(a,e,d)})}})}return this},template:function(b,a){return['<ul id="',b,'-menu" class="dropdown-menu">',this._templateOptions(a),"</ul>"].join("")},_templateOptions:function(a){if(!a.length){return"<li>(no options)</li>"}return _.map(a,function(d){if(d.divider){return'<li class="divider"></li>'}else{if(d.header){return['<li class="head"><a href="javascript:void(0);">',d.html,"</a></li>"].join("")}}var c=d.href||"javascript:void(0);",e=(d.target)?(' target="'+d.target+'"'):(""),b=(d.checked)?('<span class="fa fa-check"></span>'):("");return['<li><a class="popupmenu-option" href="',c,'"',e,">",b,d.html,"</a></li>"].join("")}).join("")},_getShownPosition:function(b){var c=this.$el.width();var a=b.pageX-c/2;a=Math.min(a,$(document).scrollLeft()+$(window).width()-c-5);a=Math.max(a,$(document).scrollLeft()+5);return{top:b.pageY,left:a}},_setUpCloseBehavior:function(){var c=this;function a(e){$(document).off("click.close_popup");if(window.parent!==window){try{$(window.parent.document).off("click.close_popup")}catch(d){}}else{try{$("iframe#galaxy_main").contents().off("click.close_popup")}catch(d){}}c.remove()}$("html").one("click.close_popup",a);if(window.parent!==window){try{$(window.parent.document).find("html").one("click.close_popup",a)}catch(b){}}else{try{$("iframe#galaxy_main").contents().one("click.close_popup",a)}catch(b){}}},addItem:function(b,a){a=(a>=0)?a:this.options.length;this.options.splice(a,0,b);return this},removeItem:function(a){if(a>=0){this.options.splice(a,1)}return this},findIndexByHtml:function(b){for(var a=0;a<this.options.length;a++){if(_.has(this.options[a],"html")&&(this.options[a].html===b)){return a}}return null},findItemByHtml:function(a){return this.options[(this.findIndexByHtml(a))]},toString:function(){return"PopupMenu"}});PopupMenu.create=function _create(b,a){return new PopupMenu(b,a)};PopupMenu.make_popupmenu=function(b,c){var a=[];_.each(c,function(f,d){var e={html:d};if(f===null){e.header=true}else{if(jQuery.type(f)==="function"){e.func=f}}a.push(e)});return new PopupMenu($(b),a)};PopupMenu.convertLinksToOptions=function(c,a){c=$(c);a=a||"a";var b=[];c.find(a).each(function(g,e){var f={},d=$(g);f.html=d.text();if(d.attr("href")){var j=d.attr("href"),k=d.attr("target"),h=d.attr("confirm");f.func=function(){if((h)&&(!confirm(h))){return}switch(k){case"_parent":window.parent.location=j;break;case"_top":window.top.location=j;break;default:window.location=j}}}b.push(f)});return b};PopupMenu.fromExistingDom=function(d,c,a){d=$(d);c=$(c);var b=PopupMenu.convertLinksToOptions(c,a);c.remove();return new PopupMenu(d,b)};PopupMenu.make_popup_menus=function(c,b,d){c=c||document;b=b||"div[popupmenu]";d=d||function(e,f){return"#"+e.attr("popupmenu")};var a=[];$(c).find(b).each(function(){var e=$(this),f=$(c).find(d(e,c));a.push(PopupMenu.fromDom(f,e));f.addClass("popup")});return a}; \ No newline at end of file +var IconButton=Backbone.Model.extend({defaults:{title:"",icon_class:"",on_click:null,menu_options:null,is_menu_button:true,id:null,href:null,target:null,enabled:true,visible:true,tooltip_config:{}}});var IconButtonView=Backbone.View.extend({initialize:function(){this.model.attributes.tooltip_config={placement:"bottom"};this.model.bind("change",this.render,this)},render:function(){this.$el.tooltip("hide");var a=this.template(this.model.toJSON());a.tooltip(this.model.get("tooltip_config"));this.$el.replaceWith(a);this.setElement(a);return this},events:{click:"click"},click:function(a){if(_.isFunction(this.model.get("on_click"))){this.model.get("on_click")(a);return false}return true},template:function(b){var a='title="'+b.title+'" class="icon-button';if(b.is_menu_button){a+=" menu-button"}a+=" "+b.icon_class;if(!b.enabled){a+="_disabled"}a+='"';if(b.id){a+=' id="'+b.id+'"'}a+=' href="'+b.href+'"';if(b.target){a+=' target="'+b.target+'"'}if(!b.visible){a+=' style="display: none;"'}if(b.enabled){a="<a "+a+"/>"}else{a="<span "+a+"/>"}return $(a)}});var IconButtonCollection=Backbone.Collection.extend({model:IconButton});var IconButtonMenuView=Backbone.View.extend({tagName:"div",initialize:function(){this.render()},render:function(){var a=this;this.collection.each(function(d){var b=$("<a/>").attr("href","javascript:void(0)").attr("title",d.attributes.title).addClass("icon-button menu-button").addClass(d.attributes.icon_class).appendTo(a.$el).click(d.attributes.on_click);if(d.attributes.tooltip_config){b.tooltip(d.attributes.tooltip_config)}var c=d.get("options");if(c){make_popupmenu(b,c)}});return this}});var create_icon_buttons_menu=function(b,a){if(!a){a={}}var c=new IconButtonCollection(_.map(b,function(d){return new IconButton(_.extend(d,a))}));return new IconButtonMenuView({collection:c})}; \ No newline at end of file diff -r 6c9848ad6d02691c7c68cd8faada68753126b472 -r 5b5dde05d21f02afa23cfe1c98396002d907de21 static/scripts/packed/mvc/ui/popup-menu.js --- /dev/null +++ b/static/scripts/packed/mvc/ui/popup-menu.js @@ -0,0 +1,1 @@ +define([],function(){var a=Backbone.View.extend({initialize:function(d,c){this.$button=d;if(!this.$button.size()){this.$button=$("<div/>")}this.options=c||[];var e=this;this.$button.click(function(f){$(".popmenu-wrapper").remove();e._renderAndShow(f);return false})},_renderAndShow:function(c){this.render();this.$el.appendTo("body").css(this._getShownPosition(c)).show();this._setUpCloseBehavior()},render:function(){this.$el.addClass("popmenu-wrapper").hide().css({position:"absolute"}).html(this.template(this.$button.attr("id"),this.options));if(this.options.length){var c=this;this.$el.find("li").each(function(e,d){var f=c.options[e];if(f.func){$(this).children("a.popupmenu-option").click(function(g){f.func.call(c,g,f)})}})}return this},template:function(d,c){return['<ul id="',d,'-menu" class="dropdown-menu">',this._templateOptions(c),"</ul>"].join("")},_templateOptions:function(c){if(!c.length){return"<li>(no options)</li>"}return _.map(c,function(f){if(f.divider){return'<li class="divider"></li>'}else{if(f.header){return['<li class="head"><a href="javascript:void(0);">',f.html,"</a></li>"].join("")}}var e=f.href||"javascript:void(0);",g=(f.target)?(' target="'+f.target+'"'):(""),d=(f.checked)?('<span class="fa fa-check"></span>'):("");return['<li><a class="popupmenu-option" href="',e,'"',g,">",d,f.html,"</a></li>"].join("")}).join("")},_getShownPosition:function(d){var e=this.$el.width();var c=d.pageX-e/2;c=Math.min(c,$(document).scrollLeft()+$(window).width()-e-5);c=Math.max(c,$(document).scrollLeft()+5);return{top:d.pageY,left:c}},_setUpCloseBehavior:function(){var e=this;function c(g){$(document).off("click.close_popup");if(window.parent!==window){try{$(window.parent.document).off("click.close_popup")}catch(f){}}else{try{$("iframe#galaxy_main").contents().off("click.close_popup")}catch(f){}}e.remove()}$("html").one("click.close_popup",c);if(window.parent!==window){try{$(window.parent.document).find("html").one("click.close_popup",c)}catch(d){}}else{try{$("iframe#galaxy_main").contents().one("click.close_popup",c)}catch(d){}}},addItem:function(d,c){c=(c>=0)?c:this.options.length;this.options.splice(c,0,d);return this},removeItem:function(c){if(c>=0){this.options.splice(c,1)}return this},findIndexByHtml:function(d){for(var c=0;c<this.options.length;c++){if(_.has(this.options[c],"html")&&(this.options[c].html===d)){return c}}return null},findItemByHtml:function(c){return this.options[(this.findIndexByHtml(c))]},toString:function(){return"PopupMenu"}});a.create=function b(d,c){return new a(d,c)};a.make_popupmenu=function(d,e){var c=[];_.each(e,function(h,f){var g={html:f};if(h===null){g.header=true}else{if(jQuery.type(h)==="function"){g.func=h}}c.push(g)});return new a($(d),c)};a.convertLinksToOptions=function(e,c){e=$(e);c=c||"a";var d=[];e.find(c).each(function(j,g){var h={},f=$(j);h.html=f.text();if(f.attr("href")){var l=f.attr("href"),m=f.attr("target"),k=f.attr("confirm");h.func=function(){if((k)&&(!confirm(k))){return}switch(m){case"_parent":window.parent.location=l;break;case"_top":window.top.location=l;break;default:window.location=l}}}d.push(h)});return d};a.fromExistingDom=function(f,e,c){f=$(f);e=$(e);var d=a.convertLinksToOptions(e,c);e.remove();return new a(f,d)};a.make_popup_menus=function(e,d,f){e=e||document;d=d||"div[popupmenu]";f=f||function(g,h){return"#"+g.attr("popupmenu")};var c=[];$(e).find(d).each(function(){var g=$(this),h=$(e).find(f(g,e));c.push(a.fromDom(h,g));h.addClass("popup")});return c};return a}); \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: carlfeberhard: Client build: modularize fa-icon button from ui.js
by commits-noreply＠bitbucket.org 09 Dec '14

09 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/6c9848ad6d02/ Changeset: 6c9848ad6d02 User: carlfeberhard Date: 2014-12-09 17:55:24+00:00 Summary: Client build: modularize fa-icon button from ui.js Affected #: 21 files diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 client/galaxy/scripts/jq-plugins/ui/fa-icon-button.js --- /dev/null +++ b/client/galaxy/scripts/jq-plugins/ui/fa-icon-button.js @@ -0,0 +1,48 @@ +(function (root, factory) { + if (typeof define === 'function' && define.amd) { + define([], factory); + } else { + root.faIconButton = factory(); + } + +}(this, function () { +//============================================================================ + /** Returns a jQuery object containing a clickable font-awesome button. + * options: + * tooltipConfig : option map for bootstrap tool tip + * classes : array of class names (will always be classed as icon-btn) + * disabled : T/F - add the 'disabled' class? + * title : tooltip/title string + * target : optional href target + * href : optional href + * faIcon : which font awesome icon to use + * onclick : function to call when the button is clicked + */ + var faIconButton = function( options ){ + options = options || {}; + options.tooltipConfig = options.tooltipConfig || { placement: 'bottom' }; + + options.classes = [ 'icon-btn' ].concat( options.classes || [] ); + if( options.disabled ){ + options.classes.push( 'disabled' ); + } + + var html = [ + '<a class="', options.classes.join( ' ' ), '"', + (( options.title )?( ' title="' + options.title + '"' ):( '' )), + (( !options.disabled && options.target )? ( ' target="' + options.target + '"' ):( '' )), + ' href="', (( !options.disabled && options.href )?( options.href ):( 'javascript:void(0);' )), '">', + // could go with something less specific here - like 'html' + '<span class="fa ', options.faIcon, '"></span>', + '</a>' + ].join( '' ); + var $button = $( html ).tooltip( options.tooltipConfig ); + if( _.isFunction( options.onclick ) ){ + $button.click( options.onclick ); + } + return $button; + }; + +//============================================================================ + return faIconButton; +})); diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 client/galaxy/scripts/mvc/dataset/dataset-li-edit.js --- a/client/galaxy/scripts/mvc/dataset/dataset-li-edit.js +++ b/client/galaxy/scripts/mvc/dataset/dataset-li-edit.js @@ -3,9 +3,10 @@ "mvc/dataset/dataset-li", "mvc/tags", "mvc/annotations", + "jq-plugins/ui/fa-icon-button", "mvc/base-mvc", "utils/localization" -], function( STATES, DATASET_LI, TAGS, ANNOTATIONS, BASE_MVC, _l ){ +], function( STATES, DATASET_LI, TAGS, ANNOTATIONS, faIconButton, BASE_MVC, _l ){ //============================================================================== var _super = DATASET_LI.DatasetListItemView; /** @class Editing view for DatasetAssociation. diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 client/galaxy/scripts/mvc/dataset/dataset-li.js --- a/client/galaxy/scripts/mvc/dataset/dataset-li.js +++ b/client/galaxy/scripts/mvc/dataset/dataset-li.js @@ -1,9 +1,10 @@ define([ "mvc/list/list-item", "mvc/dataset/states", + "jq-plugins/ui/fa-icon-button", "mvc/base-mvc", "utils/localization" -], function( LIST_ITEM, STATES, BASE_MVC, _l ){ +], function( LIST_ITEM, STATES, faIconButton, BASE_MVC, _l ){ /* global Backbone */ /*============================================================================== TODO: diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 client/galaxy/scripts/mvc/history/hdca-li-edit.js --- a/client/galaxy/scripts/mvc/history/hdca-li-edit.js +++ b/client/galaxy/scripts/mvc/history/hdca-li-edit.js @@ -1,8 +1,9 @@ define([ "mvc/dataset/states", "mvc/history/hdca-li", + "jq-plugins/ui/fa-icon-button", "utils/localization" -], function( STATES, HDCA_LI, _l ){ +], function( STATES, HDCA_LI, faIconButton, _l ){ //============================================================================== var _super = HDCA_LI.HDCAListItemView; /** @class Editing view for HistoryDatasetCollectionAssociation. diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 client/galaxy/scripts/mvc/history/history-panel-edit.js --- a/client/galaxy/scripts/mvc/history/history-panel-edit.js +++ b/client/galaxy/scripts/mvc/history/history-panel-edit.js @@ -7,6 +7,7 @@ "mvc/history/hdca-li-edit", "mvc/tags", "mvc/annotations", + "jq-plugins/ui/fa-icon-button", "utils/localization" ], function( HPANEL, @@ -17,6 +18,7 @@ HDCA_LI_EDIT, TAGS, ANNOTATIONS, + faIconButton, _l ){ /* ============================================================================= diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 client/galaxy/scripts/mvc/history/history-panel.js --- a/client/galaxy/scripts/mvc/history/history-panel.js +++ b/client/galaxy/scripts/mvc/history/history-panel.js @@ -6,6 +6,7 @@ "mvc/history/hdca-li", "mvc/collection/collection-panel", "mvc/user/user-model", + "jq-plugins/ui/fa-icon-button", "mvc/base-mvc", "utils/localization", "jq-plugins/ui/search-input" @@ -17,6 +18,7 @@ HDCA_LI, COLLECTION_PANEL, USER, + faIconButton, BASE_MVC, _l ){ diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 client/galaxy/scripts/mvc/ui.js --- a/client/galaxy/scripts/mvc/ui.js +++ b/client/galaxy/scripts/mvc/ui.js @@ -486,31 +486,3 @@ }); return popupMenusCreated; }; - - -//============================================================================== -var faIconButton = function( options ){ -//TODO: move out of global - options = options || {}; - options.tooltipConfig = options.tooltipConfig || { placement: 'bottom' }; - - options.classes = [ 'icon-btn' ].concat( options.classes || [] ); - if( options.disabled ){ - options.classes.push( 'disabled' ); - } - - var html = [ - '<a class="', options.classes.join( ' ' ), '"', - (( options.title )?( ' title="' + options.title + '"' ):( '' )), - (( !options.disabled && options.target )? ( ' target="' + options.target + '"' ):( '' )), - ' href="', (( !options.disabled && options.href )?( options.href ):( 'javascript:void(0);' )), '">', - // could go with something less specific here - like 'html' - '<span class="fa ', options.faIcon, '"></span>', - '</a>' - ].join( '' ); - var $button = $( html ).tooltip( options.tooltipConfig ); - if( _.isFunction( options.onclick ) ){ - $button.click( options.onclick ); - } - return $button; -}; diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/jq-plugins/ui/fa-icon-button.js --- /dev/null +++ b/static/scripts/jq-plugins/ui/fa-icon-button.js @@ -0,0 +1,48 @@ +(function (root, factory) { + if (typeof define === 'function' && define.amd) { + define([], factory); + } else { + root.faIconButton = factory(); + } + +}(this, function () { +//============================================================================ + /** Returns a jQuery object containing a clickable font-awesome button. + * options: + * tooltipConfig : option map for bootstrap tool tip + * classes : array of class names (will always be classed as icon-btn) + * disabled : T/F - add the 'disabled' class? + * title : tooltip/title string + * target : optional href target + * href : optional href + * faIcon : which font awesome icon to use + * onclick : function to call when the button is clicked + */ + var faIconButton = function( options ){ + options = options || {}; + options.tooltipConfig = options.tooltipConfig || { placement: 'bottom' }; + + options.classes = [ 'icon-btn' ].concat( options.classes || [] ); + if( options.disabled ){ + options.classes.push( 'disabled' ); + } + + var html = [ + '<a class="', options.classes.join( ' ' ), '"', + (( options.title )?( ' title="' + options.title + '"' ):( '' )), + (( !options.disabled && options.target )? ( ' target="' + options.target + '"' ):( '' )), + ' href="', (( !options.disabled && options.href )?( options.href ):( 'javascript:void(0);' )), '">', + // could go with something less specific here - like 'html' + '<span class="fa ', options.faIcon, '"></span>', + '</a>' + ].join( '' ); + var $button = $( html ).tooltip( options.tooltipConfig ); + if( _.isFunction( options.onclick ) ){ + $button.click( options.onclick ); + } + return $button; + }; + +//============================================================================ + return faIconButton; +})); diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/mvc/dataset/dataset-li-edit.js --- a/static/scripts/mvc/dataset/dataset-li-edit.js +++ b/static/scripts/mvc/dataset/dataset-li-edit.js @@ -3,9 +3,10 @@ "mvc/dataset/dataset-li", "mvc/tags", "mvc/annotations", + "jq-plugins/ui/fa-icon-button", "mvc/base-mvc", "utils/localization" -], function( STATES, DATASET_LI, TAGS, ANNOTATIONS, BASE_MVC, _l ){ +], function( STATES, DATASET_LI, TAGS, ANNOTATIONS, faIconButton, BASE_MVC, _l ){ //============================================================================== var _super = DATASET_LI.DatasetListItemView; /** @class Editing view for DatasetAssociation. diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/mvc/dataset/dataset-li.js --- a/static/scripts/mvc/dataset/dataset-li.js +++ b/static/scripts/mvc/dataset/dataset-li.js @@ -1,9 +1,10 @@ define([ "mvc/list/list-item", "mvc/dataset/states", + "jq-plugins/ui/fa-icon-button", "mvc/base-mvc", "utils/localization" -], function( LIST_ITEM, STATES, BASE_MVC, _l ){ +], function( LIST_ITEM, STATES, faIconButton, BASE_MVC, _l ){ /* global Backbone */ /*============================================================================== TODO: diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/mvc/history/hdca-li-edit.js --- a/static/scripts/mvc/history/hdca-li-edit.js +++ b/static/scripts/mvc/history/hdca-li-edit.js @@ -1,8 +1,9 @@ define([ "mvc/dataset/states", "mvc/history/hdca-li", + "jq-plugins/ui/fa-icon-button", "utils/localization" -], function( STATES, HDCA_LI, _l ){ +], function( STATES, HDCA_LI, faIconButton, _l ){ //============================================================================== var _super = HDCA_LI.HDCAListItemView; /** @class Editing view for HistoryDatasetCollectionAssociation. diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/mvc/history/history-panel-edit.js --- a/static/scripts/mvc/history/history-panel-edit.js +++ b/static/scripts/mvc/history/history-panel-edit.js @@ -7,6 +7,7 @@ "mvc/history/hdca-li-edit", "mvc/tags", "mvc/annotations", + "jq-plugins/ui/fa-icon-button", "utils/localization" ], function( HPANEL, @@ -17,6 +18,7 @@ HDCA_LI_EDIT, TAGS, ANNOTATIONS, + faIconButton, _l ){ /* ============================================================================= diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/mvc/history/history-panel.js --- a/static/scripts/mvc/history/history-panel.js +++ b/static/scripts/mvc/history/history-panel.js @@ -6,6 +6,7 @@ "mvc/history/hdca-li", "mvc/collection/collection-panel", "mvc/user/user-model", + "jq-plugins/ui/fa-icon-button", "mvc/base-mvc", "utils/localization", "jq-plugins/ui/search-input" @@ -17,6 +18,7 @@ HDCA_LI, COLLECTION_PANEL, USER, + faIconButton, BASE_MVC, _l ){ diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/mvc/ui.js --- a/static/scripts/mvc/ui.js +++ b/static/scripts/mvc/ui.js @@ -486,31 +486,3 @@ }); return popupMenusCreated; }; - - -//============================================================================== -var faIconButton = function( options ){ -//TODO: move out of global - options = options || {}; - options.tooltipConfig = options.tooltipConfig || { placement: 'bottom' }; - - options.classes = [ 'icon-btn' ].concat( options.classes || [] ); - if( options.disabled ){ - options.classes.push( 'disabled' ); - } - - var html = [ - '<a class="', options.classes.join( ' ' ), '"', - (( options.title )?( ' title="' + options.title + '"' ):( '' )), - (( !options.disabled && options.target )? ( ' target="' + options.target + '"' ):( '' )), - ' href="', (( !options.disabled && options.href )?( options.href ):( 'javascript:void(0);' )), '">', - // could go with something less specific here - like 'html' - '<span class="fa ', options.faIcon, '"></span>', - '</a>' - ].join( '' ); - var $button = $( html ).tooltip( options.tooltipConfig ); - if( _.isFunction( options.onclick ) ){ - $button.click( options.onclick ); - } - return $button; -}; diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/packed/jq-plugins/ui/fa-icon-button.js --- /dev/null +++ b/static/scripts/packed/jq-plugins/ui/fa-icon-button.js @@ -0,0 +1,1 @@ +(function(a,b){if(typeof define==="function"&&define.amd){define([],b)}else{a.faIconButton=b()}}(this,function(){var a=function(b){b=b||{};b.tooltipConfig=b.tooltipConfig||{placement:"bottom"};b.classes=["icon-btn"].concat(b.classes||[]);if(b.disabled){b.classes.push("disabled")}var c=['<a class="',b.classes.join(" "),'"',((b.title)?(' title="'+b.title+'"'):("")),((!b.disabled&&b.target)?(' target="'+b.target+'"'):("")),' href="',((!b.disabled&&b.href)?(b.href):("javascript:void(0);")),'">','<span class="fa ',b.faIcon,'"></span>',"</a>"].join("");var d=$(c).tooltip(b.tooltipConfig);if(_.isFunction(b.onclick)){d.click(b.onclick)}return d};return a})); \ No newline at end of file diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/packed/mvc/dataset/dataset-li-edit.js --- a/static/scripts/packed/mvc/dataset/dataset-li-edit.js +++ b/static/scripts/packed/mvc/dataset/dataset-li-edit.js @@ -1,1 +1,1 @@ -define(["mvc/dataset/states","mvc/dataset/dataset-li","mvc/tags","mvc/annotations","mvc/base-mvc","utils/localization"],function(b,h,g,e,c,d){var f=h.DatasetListItemView;var a=f.extend({initialize:function(i){f.prototype.initialize.call(this,i);this.hasUser=i.hasUser;this.purgeAllowed=i.purgeAllowed||false;this.tagsEditorShown=i.tagsEditorShown||false;this.annotationEditorShown=i.annotationEditorShown||false},_renderPrimaryActions:function(){var i=f.prototype._renderPrimaryActions.call(this);if(this.model.get("state")===b.NOT_VIEWABLE){return i}return f.prototype._renderPrimaryActions.call(this).concat([this._renderEditButton(),this._renderDeleteButton()])},_renderEditButton:function(){if((this.model.get("state")===b.DISCARDED)||(!this.model.get("accessible"))){return null}var k=this.model.get("purged"),i=this.model.get("deleted"),j={title:d("Edit attributes"),href:this.model.urls.edit,target:this.linkTarget,faIcon:"fa-pencil",classes:"edit-btn"};if(i||k){j.disabled=true;if(k){j.title=d("Cannot edit attributes of datasets removed from disk")}else{if(i){j.title=d("Undelete dataset to edit attributes")}}}else{if(_.contains([b.UPLOAD,b.NEW],this.model.get("state"))){j.disabled=true;j.title=d("This dataset is not yet editable")}}return faIconButton(j)},_renderDeleteButton:function(){if((!this.model.get("accessible"))){return null}var i=this,j=this.model.isDeletedOrPurged();return faIconButton({title:!j?d("Delete"):d("Dataset is already deleted"),disabled:j,faIcon:"fa-times",classes:"delete-btn",onclick:function(){i.$el.find(".icon-btn.delete-btn").trigger("mouseout");i.model["delete"]()}})},_renderDetails:function(){var i=f.prototype._renderDetails.call(this),j=this.model.get("state");if(!this.model.isDeletedOrPurged()&&_.contains([b.OK,b.FAILED_METADATA],j)){this._renderTags(i);this._renderAnnotation(i);this._makeDbkeyEditLink(i)}this._setUpBehaviors(i);return i},_renderSecondaryActions:function(){var i=f.prototype._renderSecondaryActions.call(this);switch(this.model.get("state")){case b.UPLOAD:case b.NEW:case b.NOT_VIEWABLE:return i;case b.ERROR:i.unshift(this._renderErrButton());return i.concat([this._renderRerunButton()]);case b.OK:case b.FAILED_METADATA:return i.concat([this._renderRerunButton(),this._renderVisualizationsButton()])}return i.concat([this._renderRerunButton()])},_renderErrButton:function(){return faIconButton({title:d("View or report this error"),href:this.model.urls.report_error,classes:"report-error-btn",target:this.linkTarget,faIcon:"fa-bug"})},_renderRerunButton:function(){return faIconButton({title:d("Run this job again"),href:this.model.urls.rerun,classes:"rerun-btn",target:this.linkTarget,faIcon:"fa-refresh"})},_renderVisualizationsButton:function(){var i=this.model.get("visualizations");if((this.model.isDeletedOrPurged())||(!this.hasUser)||(!this.model.hasData())||(_.isEmpty(i))){return null}if(!_.isObject(i[0])){this.warn("Visualizations have been switched off");return null}var j=$(this.templates.visualizations(i,this));j.find('[target="galaxy_main"]').attr("target",this.linkTarget);this._addScratchBookFn(j.find(".visualization-link").addBack(".visualization-link"));return j},_addScratchBookFn:function(j){var i=this;j.click(function(k){if(Galaxy.frame&&Galaxy.frame.active){Galaxy.frame.add({title:"Visualization",type:"url",content:$(this).attr("href")});k.preventDefault();k.stopPropagation()}})},_renderTags:function(i){if(!this.hasUser){return}var j=this;this.tagsEditor=new g.TagsEditor({model:this.model,el:i.find(".tags-display"),onshowFirstTime:function(){this.render()},onshow:function(){j.tagsEditorShown=true},onhide:function(){j.tagsEditorShown=false},$activator:faIconButton({title:d("Edit dataset tags"),classes:"tag-btn",faIcon:"fa-tags"}).appendTo(i.find(".actions .right"))});if(this.tagsEditorShown){this.tagsEditor.toggle(true)}},_renderAnnotation:function(i){if(!this.hasUser){return}var j=this;this.annotationEditor=new e.AnnotationEditor({model:this.model,el:i.find(".annotation-display"),onshowFirstTime:function(){this.render()},onshow:function(){j.annotationEditorShown=true},onhide:function(){j.annotationEditorShown=false},$activator:faIconButton({title:d("Edit dataset annotation"),classes:"annotate-btn",faIcon:"fa-comment"}).appendTo(i.find(".actions .right"))});if(this.annotationEditorShown){this.annotationEditor.toggle(true)}},_makeDbkeyEditLink:function(i){if(this.model.get("metadata_dbkey")==="?"&&!this.model.isDeletedOrPurged()){var j=$('<a class="value">?</a>').attr("href",this.model.urls.edit).attr("target",this.linkTarget);i.find(".dbkey .value").replaceWith(j)}},events:_.extend(_.clone(f.prototype.events),{"click .undelete-link":"_clickUndeleteLink","click .purge-link":"_clickPurgeLink","click .edit-btn":function(i){this.trigger("edit",this,i)},"click .delete-btn":function(i){this.trigger("delete",this,i)},"click .rerun-btn":function(i){this.trigger("rerun",this,i)},"click .report-err-btn":function(i){this.trigger("report-err",this,i)},"click .visualization-btn":function(i){this.trigger("visualize",this,i)},"click .dbkey a":function(i){this.trigger("edit",this,i)}}),_clickUndeleteLink:function(i){this.model.undelete();return false},_clickPurgeLink:function(i){this.model.purge();return false},toString:function(){var i=(this.model)?(this.model+""):("(no model)");return"HDAEditView("+i+")"}});a.prototype.templates=(function(){var j=_.extend({},f.prototype.templates.warnings,{failed_metadata:c.wrapTemplate(['<% if( dataset.state === "failed_metadata" ){ %>','<div class="failed_metadata-warning warningmessagesmall">',d("An error occurred setting the metadata for this dataset"),'<br /><a href="<%= dataset.urls.edit %>" target="<%= view.linkTarget %>">',d("Set it manually or retry auto-detection"),"</a>","</div>","<% } %>"],"dataset"),deleted:c.wrapTemplate(["<% if( dataset.deleted && !dataset.purged ){ %>",'<div class="deleted-msg warningmessagesmall">',d("This dataset has been deleted"),'<br /><a class="undelete-link" href="javascript:void(0);">',d("Undelete it"),"</a>","<% if( view.purgeAllowed ){ %>",'<br /><a class="purge-link" href="javascript:void(0);">',d("Permanently remove it from disk"),"</a>","<% } %>","</div>","<% } %>"],"dataset")});var i=c.wrapTemplate(["<% if( visualizations.length === 1 ){ %>",'<a class="visualization-btn visualization-link icon-btn" href="<%= visualizations[0].href %>"',' target="<%= visualizations[0].target %>" title="',d("Visualize in"),' <%= visualizations[0].html %>">','<span class="fa fa-bar-chart-o"></span>',"</a>","<% } else { %>",'<div class="visualizations-dropdown dropdown">','<a class="visualization-btn icon-btn" data-toggle="dropdown" title="',d("Visualize"),'">','<span class="fa fa-bar-chart-o"></span>',"</a>",'<ul class="dropdown-menu" role="menu">',"<% _.each( visualizations, function( visualization ){ %>",'<li><a class="visualization-link" href="<%= visualization.href %>"',' target="<%= visualization.target %>">',"<%= visualization.html %>","</a></li>","<% }); %>","</ul>","</div>","<% } %>"],"visualizations");return _.extend({},f.prototype.templates,{warnings:j,visualizations:i})}());return{DatasetListItemEdit:a}}); \ No newline at end of file +define(["mvc/dataset/states","mvc/dataset/dataset-li","mvc/tags","mvc/annotations","jq-plugins/ui/fa-icon-button","mvc/base-mvc","utils/localization"],function(g,d,e,b,a,i,c){var f=d.DatasetListItemView;var h=f.extend({initialize:function(j){f.prototype.initialize.call(this,j);this.hasUser=j.hasUser;this.purgeAllowed=j.purgeAllowed||false;this.tagsEditorShown=j.tagsEditorShown||false;this.annotationEditorShown=j.annotationEditorShown||false},_renderPrimaryActions:function(){var j=f.prototype._renderPrimaryActions.call(this);if(this.model.get("state")===g.NOT_VIEWABLE){return j}return f.prototype._renderPrimaryActions.call(this).concat([this._renderEditButton(),this._renderDeleteButton()])},_renderEditButton:function(){if((this.model.get("state")===g.DISCARDED)||(!this.model.get("accessible"))){return null}var l=this.model.get("purged"),j=this.model.get("deleted"),k={title:c("Edit attributes"),href:this.model.urls.edit,target:this.linkTarget,faIcon:"fa-pencil",classes:"edit-btn"};if(j||l){k.disabled=true;if(l){k.title=c("Cannot edit attributes of datasets removed from disk")}else{if(j){k.title=c("Undelete dataset to edit attributes")}}}else{if(_.contains([g.UPLOAD,g.NEW],this.model.get("state"))){k.disabled=true;k.title=c("This dataset is not yet editable")}}return a(k)},_renderDeleteButton:function(){if((!this.model.get("accessible"))){return null}var j=this,k=this.model.isDeletedOrPurged();return a({title:!k?c("Delete"):c("Dataset is already deleted"),disabled:k,faIcon:"fa-times",classes:"delete-btn",onclick:function(){j.$el.find(".icon-btn.delete-btn").trigger("mouseout");j.model["delete"]()}})},_renderDetails:function(){var j=f.prototype._renderDetails.call(this),k=this.model.get("state");if(!this.model.isDeletedOrPurged()&&_.contains([g.OK,g.FAILED_METADATA],k)){this._renderTags(j);this._renderAnnotation(j);this._makeDbkeyEditLink(j)}this._setUpBehaviors(j);return j},_renderSecondaryActions:function(){var j=f.prototype._renderSecondaryActions.call(this);switch(this.model.get("state")){case g.UPLOAD:case g.NEW:case g.NOT_VIEWABLE:return j;case g.ERROR:j.unshift(this._renderErrButton());return j.concat([this._renderRerunButton()]);case g.OK:case g.FAILED_METADATA:return j.concat([this._renderRerunButton(),this._renderVisualizationsButton()])}return j.concat([this._renderRerunButton()])},_renderErrButton:function(){return a({title:c("View or report this error"),href:this.model.urls.report_error,classes:"report-error-btn",target:this.linkTarget,faIcon:"fa-bug"})},_renderRerunButton:function(){return a({title:c("Run this job again"),href:this.model.urls.rerun,classes:"rerun-btn",target:this.linkTarget,faIcon:"fa-refresh"})},_renderVisualizationsButton:function(){var j=this.model.get("visualizations");if((this.model.isDeletedOrPurged())||(!this.hasUser)||(!this.model.hasData())||(_.isEmpty(j))){return null}if(!_.isObject(j[0])){this.warn("Visualizations have been switched off");return null}var k=$(this.templates.visualizations(j,this));k.find('[target="galaxy_main"]').attr("target",this.linkTarget);this._addScratchBookFn(k.find(".visualization-link").addBack(".visualization-link"));return k},_addScratchBookFn:function(k){var j=this;k.click(function(l){if(Galaxy.frame&&Galaxy.frame.active){Galaxy.frame.add({title:"Visualization",type:"url",content:$(this).attr("href")});l.preventDefault();l.stopPropagation()}})},_renderTags:function(j){if(!this.hasUser){return}var k=this;this.tagsEditor=new e.TagsEditor({model:this.model,el:j.find(".tags-display"),onshowFirstTime:function(){this.render()},onshow:function(){k.tagsEditorShown=true},onhide:function(){k.tagsEditorShown=false},$activator:a({title:c("Edit dataset tags"),classes:"tag-btn",faIcon:"fa-tags"}).appendTo(j.find(".actions .right"))});if(this.tagsEditorShown){this.tagsEditor.toggle(true)}},_renderAnnotation:function(j){if(!this.hasUser){return}var k=this;this.annotationEditor=new b.AnnotationEditor({model:this.model,el:j.find(".annotation-display"),onshowFirstTime:function(){this.render()},onshow:function(){k.annotationEditorShown=true},onhide:function(){k.annotationEditorShown=false},$activator:a({title:c("Edit dataset annotation"),classes:"annotate-btn",faIcon:"fa-comment"}).appendTo(j.find(".actions .right"))});if(this.annotationEditorShown){this.annotationEditor.toggle(true)}},_makeDbkeyEditLink:function(j){if(this.model.get("metadata_dbkey")==="?"&&!this.model.isDeletedOrPurged()){var k=$('<a class="value">?</a>').attr("href",this.model.urls.edit).attr("target",this.linkTarget);j.find(".dbkey .value").replaceWith(k)}},events:_.extend(_.clone(f.prototype.events),{"click .undelete-link":"_clickUndeleteLink","click .purge-link":"_clickPurgeLink","click .edit-btn":function(j){this.trigger("edit",this,j)},"click .delete-btn":function(j){this.trigger("delete",this,j)},"click .rerun-btn":function(j){this.trigger("rerun",this,j)},"click .report-err-btn":function(j){this.trigger("report-err",this,j)},"click .visualization-btn":function(j){this.trigger("visualize",this,j)},"click .dbkey a":function(j){this.trigger("edit",this,j)}}),_clickUndeleteLink:function(j){this.model.undelete();return false},_clickPurgeLink:function(j){this.model.purge();return false},toString:function(){var j=(this.model)?(this.model+""):("(no model)");return"HDAEditView("+j+")"}});h.prototype.templates=(function(){var k=_.extend({},f.prototype.templates.warnings,{failed_metadata:i.wrapTemplate(['<% if( dataset.state === "failed_metadata" ){ %>','<div class="failed_metadata-warning warningmessagesmall">',c("An error occurred setting the metadata for this dataset"),'<br /><a href="<%= dataset.urls.edit %>" target="<%= view.linkTarget %>">',c("Set it manually or retry auto-detection"),"</a>","</div>","<% } %>"],"dataset"),deleted:i.wrapTemplate(["<% if( dataset.deleted && !dataset.purged ){ %>",'<div class="deleted-msg warningmessagesmall">',c("This dataset has been deleted"),'<br /><a class="undelete-link" href="javascript:void(0);">',c("Undelete it"),"</a>","<% if( view.purgeAllowed ){ %>",'<br /><a class="purge-link" href="javascript:void(0);">',c("Permanently remove it from disk"),"</a>","<% } %>","</div>","<% } %>"],"dataset")});var j=i.wrapTemplate(["<% if( visualizations.length === 1 ){ %>",'<a class="visualization-btn visualization-link icon-btn" href="<%= visualizations[0].href %>"',' target="<%= visualizations[0].target %>" title="',c("Visualize in"),' <%= visualizations[0].html %>">','<span class="fa fa-bar-chart-o"></span>',"</a>","<% } else { %>",'<div class="visualizations-dropdown dropdown">','<a class="visualization-btn icon-btn" data-toggle="dropdown" title="',c("Visualize"),'">','<span class="fa fa-bar-chart-o"></span>',"</a>",'<ul class="dropdown-menu" role="menu">',"<% _.each( visualizations, function( visualization ){ %>",'<li><a class="visualization-link" href="<%= visualization.href %>"',' target="<%= visualization.target %>">',"<%= visualization.html %>","</a></li>","<% }); %>","</ul>","</div>","<% } %>"],"visualizations");return _.extend({},f.prototype.templates,{warnings:k,visualizations:j})}());return{DatasetListItemEdit:h}}); \ No newline at end of file diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/packed/mvc/dataset/dataset-li.js --- a/static/scripts/packed/mvc/dataset/dataset-li.js +++ b/static/scripts/packed/mvc/dataset/dataset-li.js @@ -1,1 +1,1 @@ -define(["mvc/list/list-item","mvc/dataset/states","mvc/base-mvc","utils/localization"],function(d,a,b,c){var f=d.ListItemView;var e=f.extend({className:f.prototype.className+" dataset",id:function(){return["dataset",this.model.get("id")].join("-")},initialize:function(g){if(g.logger){this.logger=this.model.logger=g.logger}this.log(this+".initialize:",g);f.prototype.initialize.call(this,g);this.linkTarget=g.linkTarget||"_blank";this._setUpListeners()},_setUpListeners:function(){f.prototype._setUpListeners.call(this);this.model.on("change",function(h,g){if(this.model.changedAttributes().state&&this.model.inReadyState()&&this.expanded&&!this.model.hasDetails()){this.model.fetch()}else{this.render()}},this)},_fetchModelDetails:function(){var g=this;if(g.model.inReadyState()&&!g.model.hasDetails()){return g.model.fetch({silent:true})}return jQuery.when()},remove:function(h,i){var g=this;h=h||this.fxSpeed;this.$el.fadeOut(h,function(){Backbone.View.prototype.remove.call(g);if(i){i.call(g)}})},render:function(g){return f.prototype.render.call(this,g)},_swapNewRender:function(g){f.prototype._swapNewRender.call(this,g);if(this.model.has("state")){this.$el.addClass("state-"+this.model.get("state"))}return this.$el},_renderPrimaryActions:function(){return[this._renderDisplayButton()]},_renderDisplayButton:function(){var i=this.model.get("state");if((i===a.NOT_VIEWABLE)||(i===a.DISCARDED)||(!this.model.get("accessible"))){return null}var h={target:this.linkTarget,classes:"display-btn"};if(this.model.get("purged")){h.disabled=true;h.title=c("Cannot display datasets removed from disk")}else{if(i===a.UPLOAD){h.disabled=true;h.title=c("This dataset must finish uploading before it can be viewed")}else{if(i===a.NEW){h.disabled=true;h.title=c("This dataset is not yet viewable")}else{h.title=c("View data");h.href=this.model.urls.display;var g=this;h.onclick=function(j){if(Galaxy.frame&&Galaxy.frame.active){Galaxy.frame.add_dataset(g.model.get("id"));j.preventDefault()}}}}}h.faIcon="fa-eye";return faIconButton(h)},_renderDetails:function(){if(this.model.get("state")===a.NOT_VIEWABLE){return $(this.templates.noAccess(this.model.toJSON(),this))}var g=f.prototype._renderDetails.call(this);g.find(".actions .left").empty().append(this._renderSecondaryActions());g.find(".summary").html(this._renderSummary()).prepend(this._renderDetailMessages());g.find(".display-applications").html(this._renderDisplayApplications());this._setUpBehaviors(g);return g},_renderSummary:function(){var g=this.model.toJSON(),h=this.templates.summaries[g.state];h=h||this.templates.summaries.unknown;return h(g,this)},_renderDetailMessages:function(){var g=this,i=$('<div class="detail-messages"></div>'),h=g.model.toJSON();_.each(g.templates.detailMessages,function(j){i.append($(j(h,g)))});return i},_renderDisplayApplications:function(){if(this.model.isDeletedOrPurged()){return""}return[this.templates.displayApplications(this.model.get("display_apps"),this),this.templates.displayApplications(this.model.get("display_types"),this)].join("")},_renderSecondaryActions:function(){this.debug("_renderSecondaryActions");switch(this.model.get("state")){case a.NOT_VIEWABLE:return[];case a.OK:case a.FAILED_METADATA:case a.ERROR:return[this._renderDownloadButton(),this._renderShowParamsButton()]}return[this._renderShowParamsButton()]},_renderShowParamsButton:function(){return faIconButton({title:c("View details"),classes:"params-btn",href:this.model.urls.show_params,target:this.linkTarget,faIcon:"fa-info-circle"})},_renderDownloadButton:function(){if(this.model.get("purged")||!this.model.hasData()){return null}if(!_.isEmpty(this.model.get("meta_files"))){return this._renderMetaFileDownloadButton()}return $(['<a class="download-btn icon-btn" href="',this.model.urls.download,'" title="'+c("Download")+'">','<span class="fa fa-floppy-o"></span>',"</a>"].join(""))},_renderMetaFileDownloadButton:function(){var g=this.model.urls;return $(['<div class="metafile-dropdown dropdown">','<a class="download-btn icon-btn" href="javascript:void(0)" data-toggle="dropdown"',' title="'+c("Download")+'">','<span class="fa fa-floppy-o"></span>',"</a>",'<ul class="dropdown-menu" role="menu" aria-labelledby="dLabel">','<li><a href="'+g.download+'">',c("Download dataset"),"</a></li>",_.map(this.model.get("meta_files"),function(h){return['<li><a href="',g.meta_download+h.file_type,'">',c("Download")," ",h.file_type,"</a></li>"].join("")}).join("\n"),"</ul>","</div>"].join("\n"))},events:_.extend(_.clone(f.prototype.events),{"click .display-btn":function(g){this.trigger("display",this,g)},"click .params-btn":function(g){this.trigger("params",this,g)},"click .download-btn":function(g){this.trigger("download",this,g)}}),toString:function(){var g=(this.model)?(this.model+""):("(no model)");return"DatasetListItemView("+g+")"}});e.prototype.templates=(function(){var i=_.extend({},f.prototype.templates.warnings,{failed_metadata:b.wrapTemplate(['<% if( model.state === "failed_metadata" ){ %>','<div class="warningmessagesmall">',c("An error occurred setting the metadata for this dataset"),"</div>","<% } %>"]),error:b.wrapTemplate(["<% if( model.error ){ %>",'<div class="errormessagesmall">',c("There was an error getting the data for this dataset"),": <%- model.error %>","</div>","<% } %>"]),purged:b.wrapTemplate(["<% if( model.purged ){ %>",'<div class="purged-msg warningmessagesmall">',c("This dataset has been deleted and removed from disk"),"</div>","<% } %>"]),deleted:b.wrapTemplate(["<% if( model.deleted && !model.purged ){ %>",'<div class="deleted-msg warningmessagesmall">',c("This dataset has been deleted"),"</div>","<% } %>"])});var j=b.wrapTemplate(['<div class="details">','<div class="summary"></div>','<div class="actions clear">','<div class="left"></div>','<div class="right"></div>',"</div>","<% if( !dataset.deleted && !dataset.purged ){ %>",'<div class="tags-display"></div>','<div class="annotation-display"></div>','<div class="display-applications"></div>',"<% if( dataset.peek ){ %>",'<pre class="dataset-peek"><%= dataset.peek %></pre>',"<% } %>","<% } %>","</div>"],"dataset");var h=b.wrapTemplate(['<div class="details">','<div class="summary">',c("You do not have permission to view this dataset"),"</div>","</div>"],"dataset");var k={};k[a.OK]=k[a.FAILED_METADATA]=b.wrapTemplate(["<% if( dataset.misc_blurb ){ %>",'<div class="blurb">','<span class="value"><%- dataset.misc_blurb %></span>',"</div>","<% } %>","<% if( dataset.file_ext ){ %>",'<div class="datatype">','<label class="prompt">',c("format"),"</label>",'<span class="value"><%- dataset.file_ext %></span>',"</div>","<% } %>","<% if( dataset.metadata_dbkey ){ %>",'<div class="dbkey">','<label class="prompt">',c("database"),"</label>",'<span class="value">',"<%- dataset.metadata_dbkey %>","</span>","</div>","<% } %>","<% if( dataset.misc_info ){ %>",'<div class="info">','<span class="value"><%- dataset.misc_info %></span>',"</div>","<% } %>"],"dataset");k[a.NEW]=b.wrapTemplate(["<div>",c("This is a new dataset and not all of its data are available yet"),"</div>"],"dataset");k[a.NOT_VIEWABLE]=b.wrapTemplate(["<div>",c("You do not have permission to view this dataset"),"</div>"],"dataset");k[a.DISCARDED]=b.wrapTemplate(["<div>",c("The job creating this dataset was cancelled before completion"),"</div>"],"dataset");k[a.QUEUED]=b.wrapTemplate(["<div>",c("This job is waiting to run"),"</div>"],"dataset");k[a.RUNNING]=b.wrapTemplate(["<div>",c("This job is currently running"),"</div>"],"dataset");k[a.UPLOAD]=b.wrapTemplate(["<div>",c("This dataset is currently uploading"),"</div>"],"dataset");k[a.SETTING_METADATA]=b.wrapTemplate(["<div>",c("Metadata is being auto-detected"),"</div>"],"dataset");k[a.PAUSED]=b.wrapTemplate(["<div>",c('This job is paused. Use the "Resume Paused Jobs" in the history menu to resume'),"</div>"],"dataset");k[a.ERROR]=b.wrapTemplate(["<% if( !dataset.purged ){ %>","<div><%- dataset.misc_blurb %></div>","<% } %>",'<span class="help-text">',c("An error occurred with this dataset"),":</span>",'<div class="job-error-text"><%- dataset.misc_info %></div>'],"dataset");k[a.EMPTY]=b.wrapTemplate(["<div>",c("No data"),": <i><%- dataset.misc_blurb %></i></div>"],"dataset");k.unknown=b.wrapTemplate(['<div>Error: unknown dataset state: "<%- dataset.state %>"</div>'],"dataset");var l={resubmitted:b.wrapTemplate(["<% if( model.resubmitted ){ %>",'<div class="resubmitted-msg infomessagesmall">',c("The job creating this dataset has been resubmitted"),"</div>","<% } %>"])};var g=b.wrapTemplate(["<% _.each( apps, function( app ){ %>",'<div class="display-application">','<span class="display-application-location"><%- app.label %></span> ','<span class="display-application-links">',"<% _.each( app.links, function( link ){ %>",'<a target="<%= link.target %>" href="<%= link.href %>">',"<% print( _l( link.text ) ); %>","</a> ","<% }); %>","</span>","</div>","<% }); %>"],"apps");return _.extend({},f.prototype.templates,{warnings:i,details:j,noAccess:h,summaries:k,detailMessages:l,displayApplications:g})}());return{DatasetListItemView:e}}); \ No newline at end of file +define(["mvc/list/list-item","mvc/dataset/states","jq-plugins/ui/fa-icon-button","mvc/base-mvc","utils/localization"],function(d,a,e,b,c){var g=d.ListItemView;var f=g.extend({className:g.prototype.className+" dataset",id:function(){return["dataset",this.model.get("id")].join("-")},initialize:function(h){if(h.logger){this.logger=this.model.logger=h.logger}this.log(this+".initialize:",h);g.prototype.initialize.call(this,h);this.linkTarget=h.linkTarget||"_blank";this._setUpListeners()},_setUpListeners:function(){g.prototype._setUpListeners.call(this);this.model.on("change",function(i,h){if(this.model.changedAttributes().state&&this.model.inReadyState()&&this.expanded&&!this.model.hasDetails()){this.model.fetch()}else{this.render()}},this)},_fetchModelDetails:function(){var h=this;if(h.model.inReadyState()&&!h.model.hasDetails()){return h.model.fetch({silent:true})}return jQuery.when()},remove:function(i,j){var h=this;i=i||this.fxSpeed;this.$el.fadeOut(i,function(){Backbone.View.prototype.remove.call(h);if(j){j.call(h)}})},render:function(h){return g.prototype.render.call(this,h)},_swapNewRender:function(h){g.prototype._swapNewRender.call(this,h);if(this.model.has("state")){this.$el.addClass("state-"+this.model.get("state"))}return this.$el},_renderPrimaryActions:function(){return[this._renderDisplayButton()]},_renderDisplayButton:function(){var j=this.model.get("state");if((j===a.NOT_VIEWABLE)||(j===a.DISCARDED)||(!this.model.get("accessible"))){return null}var i={target:this.linkTarget,classes:"display-btn"};if(this.model.get("purged")){i.disabled=true;i.title=c("Cannot display datasets removed from disk")}else{if(j===a.UPLOAD){i.disabled=true;i.title=c("This dataset must finish uploading before it can be viewed")}else{if(j===a.NEW){i.disabled=true;i.title=c("This dataset is not yet viewable")}else{i.title=c("View data");i.href=this.model.urls.display;var h=this;i.onclick=function(k){if(Galaxy.frame&&Galaxy.frame.active){Galaxy.frame.add_dataset(h.model.get("id"));k.preventDefault()}}}}}i.faIcon="fa-eye";return e(i)},_renderDetails:function(){if(this.model.get("state")===a.NOT_VIEWABLE){return $(this.templates.noAccess(this.model.toJSON(),this))}var h=g.prototype._renderDetails.call(this);h.find(".actions .left").empty().append(this._renderSecondaryActions());h.find(".summary").html(this._renderSummary()).prepend(this._renderDetailMessages());h.find(".display-applications").html(this._renderDisplayApplications());this._setUpBehaviors(h);return h},_renderSummary:function(){var h=this.model.toJSON(),i=this.templates.summaries[h.state];i=i||this.templates.summaries.unknown;return i(h,this)},_renderDetailMessages:function(){var h=this,j=$('<div class="detail-messages"></div>'),i=h.model.toJSON();_.each(h.templates.detailMessages,function(k){j.append($(k(i,h)))});return j},_renderDisplayApplications:function(){if(this.model.isDeletedOrPurged()){return""}return[this.templates.displayApplications(this.model.get("display_apps"),this),this.templates.displayApplications(this.model.get("display_types"),this)].join("")},_renderSecondaryActions:function(){this.debug("_renderSecondaryActions");switch(this.model.get("state")){case a.NOT_VIEWABLE:return[];case a.OK:case a.FAILED_METADATA:case a.ERROR:return[this._renderDownloadButton(),this._renderShowParamsButton()]}return[this._renderShowParamsButton()]},_renderShowParamsButton:function(){return e({title:c("View details"),classes:"params-btn",href:this.model.urls.show_params,target:this.linkTarget,faIcon:"fa-info-circle"})},_renderDownloadButton:function(){if(this.model.get("purged")||!this.model.hasData()){return null}if(!_.isEmpty(this.model.get("meta_files"))){return this._renderMetaFileDownloadButton()}return $(['<a class="download-btn icon-btn" href="',this.model.urls.download,'" title="'+c("Download")+'">','<span class="fa fa-floppy-o"></span>',"</a>"].join(""))},_renderMetaFileDownloadButton:function(){var h=this.model.urls;return $(['<div class="metafile-dropdown dropdown">','<a class="download-btn icon-btn" href="javascript:void(0)" data-toggle="dropdown"',' title="'+c("Download")+'">','<span class="fa fa-floppy-o"></span>',"</a>",'<ul class="dropdown-menu" role="menu" aria-labelledby="dLabel">','<li><a href="'+h.download+'">',c("Download dataset"),"</a></li>",_.map(this.model.get("meta_files"),function(i){return['<li><a href="',h.meta_download+i.file_type,'">',c("Download")," ",i.file_type,"</a></li>"].join("")}).join("\n"),"</ul>","</div>"].join("\n"))},events:_.extend(_.clone(g.prototype.events),{"click .display-btn":function(h){this.trigger("display",this,h)},"click .params-btn":function(h){this.trigger("params",this,h)},"click .download-btn":function(h){this.trigger("download",this,h)}}),toString:function(){var h=(this.model)?(this.model+""):("(no model)");return"DatasetListItemView("+h+")"}});f.prototype.templates=(function(){var j=_.extend({},g.prototype.templates.warnings,{failed_metadata:b.wrapTemplate(['<% if( model.state === "failed_metadata" ){ %>','<div class="warningmessagesmall">',c("An error occurred setting the metadata for this dataset"),"</div>","<% } %>"]),error:b.wrapTemplate(["<% if( model.error ){ %>",'<div class="errormessagesmall">',c("There was an error getting the data for this dataset"),": <%- model.error %>","</div>","<% } %>"]),purged:b.wrapTemplate(["<% if( model.purged ){ %>",'<div class="purged-msg warningmessagesmall">',c("This dataset has been deleted and removed from disk"),"</div>","<% } %>"]),deleted:b.wrapTemplate(["<% if( model.deleted && !model.purged ){ %>",'<div class="deleted-msg warningmessagesmall">',c("This dataset has been deleted"),"</div>","<% } %>"])});var k=b.wrapTemplate(['<div class="details">','<div class="summary"></div>','<div class="actions clear">','<div class="left"></div>','<div class="right"></div>',"</div>","<% if( !dataset.deleted && !dataset.purged ){ %>",'<div class="tags-display"></div>','<div class="annotation-display"></div>','<div class="display-applications"></div>',"<% if( dataset.peek ){ %>",'<pre class="dataset-peek"><%= dataset.peek %></pre>',"<% } %>","<% } %>","</div>"],"dataset");var i=b.wrapTemplate(['<div class="details">','<div class="summary">',c("You do not have permission to view this dataset"),"</div>","</div>"],"dataset");var l={};l[a.OK]=l[a.FAILED_METADATA]=b.wrapTemplate(["<% if( dataset.misc_blurb ){ %>",'<div class="blurb">','<span class="value"><%- dataset.misc_blurb %></span>',"</div>","<% } %>","<% if( dataset.file_ext ){ %>",'<div class="datatype">','<label class="prompt">',c("format"),"</label>",'<span class="value"><%- dataset.file_ext %></span>',"</div>","<% } %>","<% if( dataset.metadata_dbkey ){ %>",'<div class="dbkey">','<label class="prompt">',c("database"),"</label>",'<span class="value">',"<%- dataset.metadata_dbkey %>","</span>","</div>","<% } %>","<% if( dataset.misc_info ){ %>",'<div class="info">','<span class="value"><%- dataset.misc_info %></span>',"</div>","<% } %>"],"dataset");l[a.NEW]=b.wrapTemplate(["<div>",c("This is a new dataset and not all of its data are available yet"),"</div>"],"dataset");l[a.NOT_VIEWABLE]=b.wrapTemplate(["<div>",c("You do not have permission to view this dataset"),"</div>"],"dataset");l[a.DISCARDED]=b.wrapTemplate(["<div>",c("The job creating this dataset was cancelled before completion"),"</div>"],"dataset");l[a.QUEUED]=b.wrapTemplate(["<div>",c("This job is waiting to run"),"</div>"],"dataset");l[a.RUNNING]=b.wrapTemplate(["<div>",c("This job is currently running"),"</div>"],"dataset");l[a.UPLOAD]=b.wrapTemplate(["<div>",c("This dataset is currently uploading"),"</div>"],"dataset");l[a.SETTING_METADATA]=b.wrapTemplate(["<div>",c("Metadata is being auto-detected"),"</div>"],"dataset");l[a.PAUSED]=b.wrapTemplate(["<div>",c('This job is paused. Use the "Resume Paused Jobs" in the history menu to resume'),"</div>"],"dataset");l[a.ERROR]=b.wrapTemplate(["<% if( !dataset.purged ){ %>","<div><%- dataset.misc_blurb %></div>","<% } %>",'<span class="help-text">',c("An error occurred with this dataset"),":</span>",'<div class="job-error-text"><%- dataset.misc_info %></div>'],"dataset");l[a.EMPTY]=b.wrapTemplate(["<div>",c("No data"),": <i><%- dataset.misc_blurb %></i></div>"],"dataset");l.unknown=b.wrapTemplate(['<div>Error: unknown dataset state: "<%- dataset.state %>"</div>'],"dataset");var m={resubmitted:b.wrapTemplate(["<% if( model.resubmitted ){ %>",'<div class="resubmitted-msg infomessagesmall">',c("The job creating this dataset has been resubmitted"),"</div>","<% } %>"])};var h=b.wrapTemplate(["<% _.each( apps, function( app ){ %>",'<div class="display-application">','<span class="display-application-location"><%- app.label %></span> ','<span class="display-application-links">',"<% _.each( app.links, function( link ){ %>",'<a target="<%= link.target %>" href="<%= link.href %>">',"<% print( _l( link.text ) ); %>","</a> ","<% }); %>","</span>","</div>","<% }); %>"],"apps");return _.extend({},g.prototype.templates,{warnings:j,details:k,noAccess:i,summaries:l,detailMessages:m,displayApplications:h})}());return{DatasetListItemView:f}}); \ No newline at end of file diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/packed/mvc/history/hdca-li-edit.js --- a/static/scripts/packed/mvc/history/hdca-li-edit.js +++ b/static/scripts/packed/mvc/history/hdca-li-edit.js @@ -1,1 +1,1 @@ -define(["mvc/dataset/states","mvc/history/hdca-li","utils/localization"],function(a,e,b){var c=e.HDCAListItemView;var d=c.extend({_renderPrimaryActions:function(){this.log(this+"._renderPrimaryActions");return c.prototype._renderPrimaryActions.call(this).concat([this._renderDeleteButton()])},_renderDeleteButton:function(){var g=this,f=this.model.get("deleted");return faIconButton({title:f?b("Dataset collection is already deleted"):b("Delete"),classes:"delete-btn",faIcon:"fa-times",disabled:f,onclick:function(){g.$el.find(".icon-btn.delete-btn").trigger("mouseout");g.model["delete"]()}})},toString:function(){var f=(this.model)?(this.model+""):("(no model)");return"HDCAListItemEdit("+f+")"}});return{HDCAListItemEdit:d}}); \ No newline at end of file +define(["mvc/dataset/states","mvc/history/hdca-li","jq-plugins/ui/fa-icon-button","utils/localization"],function(a,f,c,b){var d=f.HDCAListItemView;var e=d.extend({_renderPrimaryActions:function(){this.log(this+"._renderPrimaryActions");return d.prototype._renderPrimaryActions.call(this).concat([this._renderDeleteButton()])},_renderDeleteButton:function(){var h=this,g=this.model.get("deleted");return c({title:g?b("Dataset collection is already deleted"):b("Delete"),classes:"delete-btn",faIcon:"fa-times",disabled:g,onclick:function(){h.$el.find(".icon-btn.delete-btn").trigger("mouseout");h.model["delete"]()}})},toString:function(){var g=(this.model)?(this.model+""):("(no model)");return"HDCAListItemEdit("+g+")"}});return{HDCAListItemEdit:e}}); \ No newline at end of file diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/packed/mvc/history/history-panel-edit.js --- a/static/scripts/packed/mvc/history/history-panel-edit.js +++ b/static/scripts/packed/mvc/history/history-panel-edit.js @@ -1,1 +1,1 @@ -define(["mvc/history/history-panel","mvc/history/history-contents","mvc/dataset/states","mvc/history/hda-model","mvc/history/hda-li-edit","mvc/history/hdca-li-edit","mvc/tags","mvc/annotations","utils/localization"],function(f,h,k,d,c,g,j,a,b){var i=f.HistoryPanel;var e=i.extend({HDAViewClass:c.HDAListItemEdit,HDCAViewClass:g.HDCAListItemEdit,initialize:function(l){l=l||{};i.prototype.initialize.call(this,l);this.tagsEditor=null;this.annotationEditor=null;this.purgeAllowed=l.purgeAllowed||false;this.annotationEditorShown=l.annotationEditorShown||false;this.tagsEditorShown=l.tagsEditorShown||false;this.multiselectActions=l.multiselectActions||this._getActions()},_setUpListeners:function(){i.prototype._setUpListeners.call(this);this.on("drop",function(l,m){this.dataDropped(m);this.dropTargetOff()})},_setUpCollectionListeners:function(){i.prototype._setUpCollectionListeners.call(this);this.collection.on("change:deleted",this._handleHdaDeletionChange,this);this.collection.on("change:visible",this._handleHdaVisibleChange,this);this.collection.on("change:purged",function(l){this.model.fetch()},this);return this},_setUpModelListeners:function(){i.prototype._setUpModelListeners.call(this);this.model.on("change:nice_size",this.updateHistoryDiskSize,this);return this},_buildNewRender:function(){var l=i.prototype._buildNewRender.call(this);if(!this.model){return l}if(Galaxy&&Galaxy.currUser&&Galaxy.currUser.id&&Galaxy.currUser.id===this.model.get("user_id")){this._renderTags(l);this._renderAnnotation(l)}return l},renderItems:function(m){var l=i.prototype.renderItems.call(this,m);this._renderCounts(m);return l},_renderCounts:function(n){function m(q,r){return['<a class="',q,'" href="javascript:void(0);">',r,"</a>"].join("")}n=n||this.$el;var l=this.collection.where({deleted:true}),p=this.collection.where({visible:false}),o=[];if(this.views.length){o.push([this.views.length,b("shown")].join(" "))}if(l.length){o.push((!this.showDeleted)?([l.length,m("toggle-deleted-link",b("deleted"))].join(" ")):(m("toggle-deleted-link",b("hide deleted"))))}if(p.length){o.push((!this.showHidden)?([p.length,m("toggle-hidden-link",b("hidden"))].join(" ")):(m("toggle-hidden-link",b("hide hidden"))))}return n.find("> .controls .subtitle").html(o.join(", "))},_renderTags:function(l){var m=this;this.tagsEditor=new j.TagsEditor({model:this.model,el:l.find(".controls .tags-display"),onshowFirstTime:function(){this.render()},onshow:function(){m.toggleHDATagEditors(true,m.fxSpeed)},onhide:function(){m.toggleHDATagEditors(false,m.fxSpeed)},$activator:faIconButton({title:b("Edit history tags"),classes:"history-tag-btn",faIcon:"fa-tags"}).appendTo(l.find(".controls .actions"))})},_renderAnnotation:function(l){var m=this;this.annotationEditor=new a.AnnotationEditor({model:this.model,el:l.find(".controls .annotation-display"),onshowFirstTime:function(){this.render()},onshow:function(){m.toggleHDAAnnotationEditors(true,m.fxSpeed)},onhide:function(){m.toggleHDAAnnotationEditors(false,m.fxSpeed)},$activator:faIconButton({title:b("Edit history annotation"),classes:"history-annotate-btn",faIcon:"fa-comment"}).appendTo(l.find(".controls .actions"))})},_setUpBehaviors:function(l){l=l||this.$el;i.prototype._setUpBehaviors.call(this,l);if(!this.model){return}if(this.multiselectActions.length){this.actionsPopup=new PopupMenu(l.find(".list-action-popup-btn"),this.multiselectActions)}if((!Galaxy.currUser||Galaxy.currUser.isAnonymous())||(Galaxy.currUser.id!==this.model.get("user_id"))){return}var m=this,n=".controls .name";l.find(n).attr("title",b("Click to rename history")).tooltip({placement:"bottom"}).make_text_editable({on_finish:function(o){var p=m.model.get("name");if(o&&o!==p){m.$el.find(n).text(o);m.model.save({name:o}).fail(function(){m.$el.find(n).text(m.model.previous("name"))})}else{m.$el.find(n).text(p)}}})},_getActions:function(){var l=this,m=[{html:b("Hide datasets"),func:function(){var n=d.HistoryDatasetAssociation.prototype.hide;l.getSelectedModels().ajaxQueue(n)}},{html:b("Unhide datasets"),func:function(){var n=d.HistoryDatasetAssociation.prototype.unhide;l.getSelectedModels().ajaxQueue(n)}},{html:b("Delete datasets"),func:function(){var n=d.HistoryDatasetAssociation.prototype["delete"];l.getSelectedModels().ajaxQueue(n)}},{html:b("Undelete datasets"),func:function(){var n=d.HistoryDatasetAssociation.prototype.undelete;l.getSelectedModels().ajaxQueue(n)}}];if(l.purgeAllowed){m.push({html:b("Permanently delete datasets"),func:function(){if(confirm(b("This will permanently remove the data in your datasets. Are you sure?"))){var n=d.HistoryDatasetAssociation.prototype.purge;l.getSelectedModels().ajaxQueue(n)}}})}m.push({html:b("Build Dataset List"),func:function(){l.getSelectedModels().promoteToHistoryDatasetCollection(l.model,"list")}});m.push({html:b("Build Dataset Pair"),func:function(){l.getSelectedModels().promoteToHistoryDatasetCollection(l.model,"paired")}});m.push({html:b("Build List of Dataset Pairs"),func:_.bind(l._showPairedCollectionModal,l)});return m},_showPairedCollectionModal:function(){var l=this,m=l.getSelectedModels().toJSON().filter(function(n){return n.history_content_type==="dataset"&&n.state===k.OK});if(m.length){require(["mvc/collection/paired-collection-creator"],function(n){window.creator=n.pairedCollectionCreatorModal(m,{historyId:l.model.id})})}else{}},_attachItems:function(l){this.$list(l).append(this.views.reverse().map(function(m){return m.$el}));return this},_attachView:function(m){var l=this;l.views.unshift(m);l.$list().prepend(m.render(0).$el.hide());m.$el.slideDown(l.fxSpeed)},_getItemViewOptions:function(m){var l=i.prototype._getItemViewOptions.call(this,m);_.extend(l,{purgeAllowed:this.purgeAllowed,tagsEditorShown:(this.tagsEditor&&!this.tagsEditor.hidden),annotationEditorShown:(this.annotationEditor&&!this.annotationEditor.hidden)});return l},_handleHdaDeletionChange:function(l){if(l.get("deleted")&&!this.showDeleted){this.removeItemView(l)}this._renderCounts()},_handleHdaVisibleChange:function(l){if(l.hidden()&&!this.storage.showHidden){this.removeItemView(l)}this._renderCounts()},toggleHDATagEditors:function(l){var m=Array.prototype.slice.call(arguments,1);_.each(this.views,function(n){if(n.tagsEditor){n.tagsEditor.toggle.apply(n.tagsEditor,m)}})},toggleHDAAnnotationEditors:function(l){var m=Array.prototype.slice.call(arguments,1);_.each(this.views,function(n){if(n.annotationEditor){n.annotationEditor.toggle.apply(n.annotationEditor,m)}})},events:_.extend(_.clone(i.prototype.events),{"click .show-selectors-btn":"toggleSelectors","click .toggle-deleted-link":function(l){this.toggleShowDeleted()},"click .toggle-hidden-link":function(l){this.toggleShowHidden()}}),updateHistoryDiskSize:function(){this.$el.find(".history-size").text(this.model.get("nice_size"))},dropTargetOn:function(){if(this.dropTarget){return this}this.dropTarget=true;var m={dragenter:_.bind(this.dragenter,this),dragover:_.bind(this.dragover,this),dragleave:_.bind(this.dragleave,this),drop:_.bind(this.drop,this)};var n=this._renderDropTarget();this.$list().before([this._renderDropTargetHelp(),n]);for(var l in m){if(m.hasOwnProperty(l)){n.on(l,m[l])}}return this},_renderDropTarget:function(){return $("<div/>").addClass("history-drop-target").css({height:"64px",margin:"0px 10px 10px 10px",border:"1px dashed black","border-radius":"3px"})},_renderDropTargetHelp:function(){return $("<div/>").addClass("history-drop-target-help").css({margin:"10px 10px 4px 10px",color:"grey","font-size":"80%","font-style":"italic"}).text(b("Drag datasets here to copy them to the current history"))},dropTargetOff:function(){if(!this.dropTarget){return this}this.dropTarget=false;this.$(".history-drop-target").remove();this.$(".history-drop-target-help").remove();return this},dropTargetToggle:function(){if(this.dropTarget){this.dropTargetOff()}else{this.dropTargetOn()}return this},dragenter:function(l){l.preventDefault();l.stopPropagation();this.$(".history-drop-target").css("border","2px solid black")},dragover:function(l){l.preventDefault();l.stopPropagation()},dragleave:function(l){l.preventDefault();l.stopPropagation();this.$(".history-drop-target").css("border","1px dashed black")},drop:function(n){n.preventDefault();n.dataTransfer.dropEffect="move";var l=this,o=n.dataTransfer.getData("text");try{o=JSON.parse(o)}catch(m){this.warn("error parsing JSON from drop:",o)}this.trigger("droptarget:drop",n,o,l);return false},dataDropped:function(m){var l=this;if(_.isObject(m)&&m.model_class==="HistoryDatasetAssociation"&&m.id){return l.model.contents.copy(m.id)}return jQuery.when()},toString:function(){return"HistoryPanelEdit("+((this.model)?(this.model.get("name")):(""))+")"}});return{HistoryPanelEdit:e}}); \ No newline at end of file +define(["mvc/history/history-panel","mvc/history/history-contents","mvc/dataset/states","mvc/history/hda-model","mvc/history/hda-li-edit","mvc/history/hdca-li-edit","mvc/tags","mvc/annotations","jq-plugins/ui/fa-icon-button","utils/localization"],function(g,i,l,e,d,h,k,b,a,c){var j=g.HistoryPanel;var f=j.extend({HDAViewClass:d.HDAListItemEdit,HDCAViewClass:h.HDCAListItemEdit,initialize:function(m){m=m||{};j.prototype.initialize.call(this,m);this.tagsEditor=null;this.annotationEditor=null;this.purgeAllowed=m.purgeAllowed||false;this.annotationEditorShown=m.annotationEditorShown||false;this.tagsEditorShown=m.tagsEditorShown||false;this.multiselectActions=m.multiselectActions||this._getActions()},_setUpListeners:function(){j.prototype._setUpListeners.call(this);this.on("drop",function(m,n){this.dataDropped(n);this.dropTargetOff()})},_setUpCollectionListeners:function(){j.prototype._setUpCollectionListeners.call(this);this.collection.on("change:deleted",this._handleHdaDeletionChange,this);this.collection.on("change:visible",this._handleHdaVisibleChange,this);this.collection.on("change:purged",function(m){this.model.fetch()},this);return this},_setUpModelListeners:function(){j.prototype._setUpModelListeners.call(this);this.model.on("change:nice_size",this.updateHistoryDiskSize,this);return this},_buildNewRender:function(){var m=j.prototype._buildNewRender.call(this);if(!this.model){return m}if(Galaxy&&Galaxy.currUser&&Galaxy.currUser.id&&Galaxy.currUser.id===this.model.get("user_id")){this._renderTags(m);this._renderAnnotation(m)}return m},renderItems:function(n){var m=j.prototype.renderItems.call(this,n);this._renderCounts(n);return m},_renderCounts:function(o){function n(r,s){return['<a class="',r,'" href="javascript:void(0);">',s,"</a>"].join("")}o=o||this.$el;var m=this.collection.where({deleted:true}),q=this.collection.where({visible:false}),p=[];if(this.views.length){p.push([this.views.length,c("shown")].join(" "))}if(m.length){p.push((!this.showDeleted)?([m.length,n("toggle-deleted-link",c("deleted"))].join(" ")):(n("toggle-deleted-link",c("hide deleted"))))}if(q.length){p.push((!this.showHidden)?([q.length,n("toggle-hidden-link",c("hidden"))].join(" ")):(n("toggle-hidden-link",c("hide hidden"))))}return o.find("> .controls .subtitle").html(p.join(", "))},_renderTags:function(m){var n=this;this.tagsEditor=new k.TagsEditor({model:this.model,el:m.find(".controls .tags-display"),onshowFirstTime:function(){this.render()},onshow:function(){n.toggleHDATagEditors(true,n.fxSpeed)},onhide:function(){n.toggleHDATagEditors(false,n.fxSpeed)},$activator:a({title:c("Edit history tags"),classes:"history-tag-btn",faIcon:"fa-tags"}).appendTo(m.find(".controls .actions"))})},_renderAnnotation:function(m){var n=this;this.annotationEditor=new b.AnnotationEditor({model:this.model,el:m.find(".controls .annotation-display"),onshowFirstTime:function(){this.render()},onshow:function(){n.toggleHDAAnnotationEditors(true,n.fxSpeed)},onhide:function(){n.toggleHDAAnnotationEditors(false,n.fxSpeed)},$activator:a({title:c("Edit history annotation"),classes:"history-annotate-btn",faIcon:"fa-comment"}).appendTo(m.find(".controls .actions"))})},_setUpBehaviors:function(m){m=m||this.$el;j.prototype._setUpBehaviors.call(this,m);if(!this.model){return}if(this.multiselectActions.length){this.actionsPopup=new PopupMenu(m.find(".list-action-popup-btn"),this.multiselectActions)}if((!Galaxy.currUser||Galaxy.currUser.isAnonymous())||(Galaxy.currUser.id!==this.model.get("user_id"))){return}var n=this,o=".controls .name";m.find(o).attr("title",c("Click to rename history")).tooltip({placement:"bottom"}).make_text_editable({on_finish:function(p){var q=n.model.get("name");if(p&&p!==q){n.$el.find(o).text(p);n.model.save({name:p}).fail(function(){n.$el.find(o).text(n.model.previous("name"))})}else{n.$el.find(o).text(q)}}})},_getActions:function(){var m=this,n=[{html:c("Hide datasets"),func:function(){var o=e.HistoryDatasetAssociation.prototype.hide;m.getSelectedModels().ajaxQueue(o)}},{html:c("Unhide datasets"),func:function(){var o=e.HistoryDatasetAssociation.prototype.unhide;m.getSelectedModels().ajaxQueue(o)}},{html:c("Delete datasets"),func:function(){var o=e.HistoryDatasetAssociation.prototype["delete"];m.getSelectedModels().ajaxQueue(o)}},{html:c("Undelete datasets"),func:function(){var o=e.HistoryDatasetAssociation.prototype.undelete;m.getSelectedModels().ajaxQueue(o)}}];if(m.purgeAllowed){n.push({html:c("Permanently delete datasets"),func:function(){if(confirm(c("This will permanently remove the data in your datasets. Are you sure?"))){var o=e.HistoryDatasetAssociation.prototype.purge;m.getSelectedModels().ajaxQueue(o)}}})}n.push({html:c("Build Dataset List"),func:function(){m.getSelectedModels().promoteToHistoryDatasetCollection(m.model,"list")}});n.push({html:c("Build Dataset Pair"),func:function(){m.getSelectedModels().promoteToHistoryDatasetCollection(m.model,"paired")}});n.push({html:c("Build List of Dataset Pairs"),func:_.bind(m._showPairedCollectionModal,m)});return n},_showPairedCollectionModal:function(){var m=this,n=m.getSelectedModels().toJSON().filter(function(o){return o.history_content_type==="dataset"&&o.state===l.OK});if(n.length){require(["mvc/collection/paired-collection-creator"],function(o){window.creator=o.pairedCollectionCreatorModal(n,{historyId:m.model.id})})}else{}},_attachItems:function(m){this.$list(m).append(this.views.reverse().map(function(n){return n.$el}));return this},_attachView:function(n){var m=this;m.views.unshift(n);m.$list().prepend(n.render(0).$el.hide());n.$el.slideDown(m.fxSpeed)},_getItemViewOptions:function(n){var m=j.prototype._getItemViewOptions.call(this,n);_.extend(m,{purgeAllowed:this.purgeAllowed,tagsEditorShown:(this.tagsEditor&&!this.tagsEditor.hidden),annotationEditorShown:(this.annotationEditor&&!this.annotationEditor.hidden)});return m},_handleHdaDeletionChange:function(m){if(m.get("deleted")&&!this.showDeleted){this.removeItemView(m)}this._renderCounts()},_handleHdaVisibleChange:function(m){if(m.hidden()&&!this.storage.showHidden){this.removeItemView(m)}this._renderCounts()},toggleHDATagEditors:function(m){var n=Array.prototype.slice.call(arguments,1);_.each(this.views,function(o){if(o.tagsEditor){o.tagsEditor.toggle.apply(o.tagsEditor,n)}})},toggleHDAAnnotationEditors:function(m){var n=Array.prototype.slice.call(arguments,1);_.each(this.views,function(o){if(o.annotationEditor){o.annotationEditor.toggle.apply(o.annotationEditor,n)}})},events:_.extend(_.clone(j.prototype.events),{"click .show-selectors-btn":"toggleSelectors","click .toggle-deleted-link":function(m){this.toggleShowDeleted()},"click .toggle-hidden-link":function(m){this.toggleShowHidden()}}),updateHistoryDiskSize:function(){this.$el.find(".history-size").text(this.model.get("nice_size"))},dropTargetOn:function(){if(this.dropTarget){return this}this.dropTarget=true;var n={dragenter:_.bind(this.dragenter,this),dragover:_.bind(this.dragover,this),dragleave:_.bind(this.dragleave,this),drop:_.bind(this.drop,this)};var o=this._renderDropTarget();this.$list().before([this._renderDropTargetHelp(),o]);for(var m in n){if(n.hasOwnProperty(m)){o.on(m,n[m])}}return this},_renderDropTarget:function(){return $("<div/>").addClass("history-drop-target").css({height:"64px",margin:"0px 10px 10px 10px",border:"1px dashed black","border-radius":"3px"})},_renderDropTargetHelp:function(){return $("<div/>").addClass("history-drop-target-help").css({margin:"10px 10px 4px 10px",color:"grey","font-size":"80%","font-style":"italic"}).text(c("Drag datasets here to copy them to the current history"))},dropTargetOff:function(){if(!this.dropTarget){return this}this.dropTarget=false;this.$(".history-drop-target").remove();this.$(".history-drop-target-help").remove();return this},dropTargetToggle:function(){if(this.dropTarget){this.dropTargetOff()}else{this.dropTargetOn()}return this},dragenter:function(m){m.preventDefault();m.stopPropagation();this.$(".history-drop-target").css("border","2px solid black")},dragover:function(m){m.preventDefault();m.stopPropagation()},dragleave:function(m){m.preventDefault();m.stopPropagation();this.$(".history-drop-target").css("border","1px dashed black")},drop:function(o){o.preventDefault();o.dataTransfer.dropEffect="move";var m=this,p=o.dataTransfer.getData("text");try{p=JSON.parse(p)}catch(n){this.warn("error parsing JSON from drop:",p)}this.trigger("droptarget:drop",o,p,m);return false},dataDropped:function(n){var m=this;if(_.isObject(n)&&n.model_class==="HistoryDatasetAssociation"&&n.id){return m.model.contents.copy(n.id)}return jQuery.when()},toString:function(){return"HistoryPanelEdit("+((this.model)?(this.model.get("name")):(""))+")"}});return{HistoryPanelEdit:f}}); \ No newline at end of file diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/packed/mvc/history/history-panel.js --- a/static/scripts/packed/mvc/history/history-panel.js +++ b/static/scripts/packed/mvc/history/history-panel.js @@ -1,1 +1,1 @@ -define(["mvc/list/list-panel","mvc/history/history-model","mvc/history/history-contents","mvc/history/hda-li","mvc/history/hdca-li","mvc/collection/collection-panel","mvc/user/user-model","mvc/base-mvc","utils/localization","jq-plugins/ui/search-input"],function(d,f,l,b,a,m,g,o,e){var j=o.SessionStorageModel.extend({defaults:{expandedIds:{},show_deleted:false,show_hidden:false},addExpanded:function(p){var q="expandedIds";this.save(q,_.extend(this.get(q),_.object([p.id],[p.get("id")])))},removeExpanded:function(p){var q="expandedIds";this.save(q,_.omit(this.get(q),p.id))},toString:function(){return"HistoryPrefs("+this.id+")"}});j.storageKeyPrefix="history:";j.historyStorageKey=function h(p){if(!p){throw new Error("HistoryPrefs.historyStorageKey needs valid id: "+p)}return(j.storageKeyPrefix+p)};j.get=function c(p){return new j({id:j.historyStorageKey(p)})};j.clearAll=function i(q){for(var p in sessionStorage){if(p.indexOf(j.storageKeyPrefix)===0){sessionStorage.removeItem(p)}}};var n=d.ModelListPanel;var k=n.extend({HDAViewClass:b.HDAListItemView,HDCAViewClass:a.HDCAListItemView,collectionClass:l.HistoryContents,modelCollectionKey:"contents",tagName:"div",className:n.prototype.className+" history-panel",emptyMsg:e("This history is empty"),noneFoundMsg:e("No matching datasets found"),searchPlaceholder:e("search datasets"),initialize:function(p){n.prototype.initialize.call(this,p);this.linkTarget=p.linkTarget||"_blank"},freeModel:function(){n.prototype.freeModel.call(this);if(this.model){this.model.clearUpdateTimeout()}return this},_setUpListeners:function(){n.prototype._setUpListeners.call(this);this.on("error",function(q,t,p,s,r){this.errorHandler(q,t,p,s,r)});this.on("loading-done",function(){if(!this.views.length){this.trigger("empty-history",this)}})},loadHistoryWithDetails:function(s,r,q,t){this.info("loadHistoryWithDetails:",s,r,q,t);var p=function(u){return _.values(j.get(u.id).get("expandedIds"))};return this.loadHistory(s,r,q,t,p)},loadHistory:function(t,s,r,u,p){this.info("loadHistory:",t,s,r,u,p);var q=this;s=s||{};q.trigger("loading",q);var v=f.History.getHistoryData(t,{historyFn:r,contentsFn:u,detailIdsFn:s.initiallyExpanded||p});return q._loadHistoryFromXHR(v,s).fail(function(y,w,x){q.trigger("error",q,y,s,e("An error was encountered while "+w),{historyId:t,history:x||{}})}).always(function(){q.trigger("loading-done",q)})},_loadHistoryFromXHR:function(r,q){var p=this;r.then(function(s,t){p.JSONToModel(s,t,q);p.render()});r.fail(function(t,s){p.render()});return r},refreshContents:function(q,p){if(this.model){return this.model.refresh(q,p)}return $.when()},JSONToModel:function(s,p,q){this.log("JSONToModel:",s,p,q);q=q||{};var r=new f.History(s,p,q);this.setModel(r);return r},setModel:function(q,p){p=p||{};n.prototype.setModel.call(this,q,p);if(this.model){this._setUpWebStorage(p.initiallyExpanded,p.show_deleted,p.show_hidden)}},_setUpWebStorage:function(q,p,r){if(this.storage){this.stopListening(this.storage)}this.storage=new j({id:j.historyStorageKey(this.model.get("id"))});if(_.isObject(q)){this.storage.set("expandedIds",q)}if(_.isBoolean(p)){this.storage.set("show_deleted",p)}if(_.isBoolean(r)){this.storage.set("show_hidden",r)}this.trigger("new-storage",this.storage,this);this.log(this+" (init'd) storage:",this.storage.get());this.listenTo(this.storage,{"change:show_deleted":function(s,t){this.showDeleted=t},"change:show_hidden":function(s,t){this.showHidden=t}},this);this.showDeleted=(p!==undefined)?p:this.storage.get("show_deleted");this.showHidden=(r!==undefined)?r:this.storage.get("show_hidden");return this},_buildNewRender:function(){var p=n.prototype._buildNewRender.call(this);if(this.multiselectActions.length){p.find(".controls .actions").prepend(this._renderSelectButton())}return p},_renderSelectButton:function(p){return faIconButton({title:e("Operations on multiple datasets"),classes:"show-selectors-btn",faIcon:"fa-check-square-o"})},_getItemViewClass:function(p){var q=p.get("history_content_type");switch(q){case"dataset":return this.HDAViewClass;case"dataset_collection":return this.HDCAViewClass}throw new TypeError("Unknown history_content_type: "+q)},_filterItem:function(q){var p=this;return(n.prototype._filterItem.call(p,q)&&(!q.hidden()||p.showHidden)&&(!q.isDeletedOrPurged()||p.showDeleted))},_getItemViewOptions:function(q){var p=n.prototype._getItemViewOptions.call(this,q);return _.extend(p,{linkTarget:this.linkTarget,expanded:!!this.storage.get("expandedIds")[q.id],hasUser:this.model.ownedByCurrUser()})},_setUpItemViewListeners:function(q){var p=this;n.prototype._setUpItemViewListeners.call(p,q);q.on("expanded",function(r){p.storage.addExpanded(r.model)});q.on("collapsed",function(r){p.storage.removeExpanded(r.model)});return this},getSelectedModels:function(){var p=n.prototype.getSelectedModels.call(this);p.historyId=this.collection.historyId;return p},events:_.extend(_.clone(n.prototype.events),{"click .show-selectors-btn":"toggleSelectors"}),toggleShowDeleted:function(p,q){p=(p!==undefined)?(p):(!this.showDeleted);q=(q!==undefined)?(q):(true);this.showDeleted=p;if(q){this.storage.set("show_deleted",p)}this.trigger("show-hidden",p);this.renderItems();return this.showDeleted},toggleShowHidden:function(p,q){p=(p!==undefined)?(p):(!this.showHidden);q=(q!==undefined)?(q):(true);this.showHidden=p;if(q){this.storage.set("show_hidden",p)}this.trigger("show-hidden",p);this.renderItems();return this.showHidden},_firstSearch:function(p){var q=this,r=".history-search-input";this.log("onFirstSearch",p);if(q.model.contents.haveDetails()){q.searchItems(p);return}q.$el.find(r).searchInput("toggle-loading");q.model.contents.fetchAllDetails({silent:true}).always(function(){q.$el.find(r).searchInput("toggle-loading")}).done(function(){q.searchItems(p)})},errorHandler:function(r,u,q,t,s){this.error(r,u,q,t,s);if(u&&u.status===0&&u.readyState===0){}else{if(u&&u.status===502){}else{var p=this._parseErrorMessage(r,u,q,t,s);if(!this.$messages().is(":visible")){this.once("rendered",function(){this.displayMessage("error",p.message,p.details)})}else{this.displayMessage("error",p.message,p.details)}}}},_parseErrorMessage:function(t,w,x,r,p,u){var s=Galaxy.currUser,v={message:this._bePolite(r),details:{message:r,raven:(window.Raven&&_.isFunction(Raven.lastEventId))?(Raven.lastEventId()):(undefined),agent:navigator.userAgent,url:(window.Galaxy)?(Galaxy.lastAjax.url):(undefined),data:(window.Galaxy)?(Galaxy.lastAjax.data):(undefined),options:(w)?(_.omit(x,"xhr")):(x),xhr:w,source:(_.isFunction(t.toJSON))?(t.toJSON()):(t+""),user:(s instanceof g.User)?(s.toJSON()):(s+"")}};_.extend(v.details,p||{});if(w&&_.isFunction(w.getAllResponseHeaders)){var q=w.getAllResponseHeaders();q=_.compact(q.split("\n"));q=_.map(q,function(y){return y.split(": ")});v.details.xhr.responseHeaders=_.object(q)}return v},_bePolite:function(p){p=p||e("An error occurred while getting updates from the server");return p+". "+e("Please contact a Galaxy administrator if the problem persists")+"."},displayMessage:function(u,v,t){var r=this;this.scrollToTop();var s=this.$messages(),p=$("<div/>").addClass(u+"message").html(v);if(!_.isEmpty(t)){var q=$('<a href="javascript:void(0)">Details</a>').click(function(){Galaxy.modal.show(r._messageToModalOptions(u,v,t));return false});p.append(" ",q)}return s.html(p)},_messageToModalOptions:function(s,v,r){var p=this,q={title:"Details"};if(_.isObject(r)){r=_.omit(r,_.functions(r));var u=JSON.stringify(r,null," "),t=$("<pre/>").text(u);q.body=$("<div/>").append(t)}else{q.body=$("<div/>").html(r)}q.buttons={Ok:function(){Galaxy.modal.hide();p.clearMessages()}};return q},clearMessages:function(p){$(p.currentTarget).fadeOut(this.fxSpeed,function(){$(this).remove()});return this},scrollToHid:function(p){return this.scrollToItem(_.first(this.viewsWhereModel({hid:p})))},toString:function(){return"HistoryPanel("+((this.model)?(this.model.get("name")):(""))+")"}});k.prototype.templates=(function(){var p=o.wrapTemplate(['<div class="controls">','<div class="title">','<div class="name"><%= history.name %></div>',"</div>",'<div class="subtitle"></div>','<div class="history-size"><%= history.nice_size %></div>','<div class="actions"></div>','<div class="messages">',"<% if( history.deleted ){ %>",'<div class="deleted-msg warningmessagesmall">',e("This history has been deleted"),"</div>","<% } %>","<% if( history.message ){ %>",'<div class="<%= history.message.level || "info" %>messagesmall">',"<%= history.message.text %>","</div>","<% } %>","</div>",'<div class="tags-display"></div>','<div class="annotation-display"></div>','<div class="search">','<div class="search-input"></div>',"</div>",'<div class="list-actions">','<div class="btn-group">','<button class="select-all btn btn-default"','data-mode="select">',e("All"),"</button>",'<button class="deselect-all btn btn-default"','data-mode="select">',e("None"),"</button>","</div>",'<button class="list-action-popup-btn btn btn-default">',e("For all selected"),"...</button>","</div>","</div>"],"history");return _.extend(_.clone(n.prototype.templates),{controls:p})}());return{HistoryPanel:k}}); \ No newline at end of file +define(["mvc/list/list-panel","mvc/history/history-model","mvc/history/history-contents","mvc/history/hda-li","mvc/history/hdca-li","mvc/collection/collection-panel","mvc/user/user-model","jq-plugins/ui/fa-icon-button","mvc/base-mvc","utils/localization","jq-plugins/ui/search-input"],function(e,g,m,c,a,n,h,b,p,f){var k=p.SessionStorageModel.extend({defaults:{expandedIds:{},show_deleted:false,show_hidden:false},addExpanded:function(q){var r="expandedIds";this.save(r,_.extend(this.get(r),_.object([q.id],[q.get("id")])))},removeExpanded:function(q){var r="expandedIds";this.save(r,_.omit(this.get(r),q.id))},toString:function(){return"HistoryPrefs("+this.id+")"}});k.storageKeyPrefix="history:";k.historyStorageKey=function i(q){if(!q){throw new Error("HistoryPrefs.historyStorageKey needs valid id: "+q)}return(k.storageKeyPrefix+q)};k.get=function d(q){return new k({id:k.historyStorageKey(q)})};k.clearAll=function j(r){for(var q in sessionStorage){if(q.indexOf(k.storageKeyPrefix)===0){sessionStorage.removeItem(q)}}};var o=e.ModelListPanel;var l=o.extend({HDAViewClass:c.HDAListItemView,HDCAViewClass:a.HDCAListItemView,collectionClass:m.HistoryContents,modelCollectionKey:"contents",tagName:"div",className:o.prototype.className+" history-panel",emptyMsg:f("This history is empty"),noneFoundMsg:f("No matching datasets found"),searchPlaceholder:f("search datasets"),initialize:function(q){o.prototype.initialize.call(this,q);this.linkTarget=q.linkTarget||"_blank"},freeModel:function(){o.prototype.freeModel.call(this);if(this.model){this.model.clearUpdateTimeout()}return this},_setUpListeners:function(){o.prototype._setUpListeners.call(this);this.on("error",function(r,u,q,t,s){this.errorHandler(r,u,q,t,s)});this.on("loading-done",function(){if(!this.views.length){this.trigger("empty-history",this)}})},loadHistoryWithDetails:function(t,s,r,u){this.info("loadHistoryWithDetails:",t,s,r,u);var q=function(v){return _.values(k.get(v.id).get("expandedIds"))};return this.loadHistory(t,s,r,u,q)},loadHistory:function(u,t,s,v,q){this.info("loadHistory:",u,t,s,v,q);var r=this;t=t||{};r.trigger("loading",r);var w=g.History.getHistoryData(u,{historyFn:s,contentsFn:v,detailIdsFn:t.initiallyExpanded||q});return r._loadHistoryFromXHR(w,t).fail(function(z,x,y){r.trigger("error",r,z,t,f("An error was encountered while "+x),{historyId:u,history:y||{}})}).always(function(){r.trigger("loading-done",r)})},_loadHistoryFromXHR:function(s,r){var q=this;s.then(function(t,u){q.JSONToModel(t,u,r);q.render()});s.fail(function(u,t){q.render()});return s},refreshContents:function(r,q){if(this.model){return this.model.refresh(r,q)}return $.when()},JSONToModel:function(t,q,r){this.log("JSONToModel:",t,q,r);r=r||{};var s=new g.History(t,q,r);this.setModel(s);return s},setModel:function(r,q){q=q||{};o.prototype.setModel.call(this,r,q);if(this.model){this._setUpWebStorage(q.initiallyExpanded,q.show_deleted,q.show_hidden)}},_setUpWebStorage:function(r,q,s){if(this.storage){this.stopListening(this.storage)}this.storage=new k({id:k.historyStorageKey(this.model.get("id"))});if(_.isObject(r)){this.storage.set("expandedIds",r)}if(_.isBoolean(q)){this.storage.set("show_deleted",q)}if(_.isBoolean(s)){this.storage.set("show_hidden",s)}this.trigger("new-storage",this.storage,this);this.log(this+" (init'd) storage:",this.storage.get());this.listenTo(this.storage,{"change:show_deleted":function(t,u){this.showDeleted=u},"change:show_hidden":function(t,u){this.showHidden=u}},this);this.showDeleted=(q!==undefined)?q:this.storage.get("show_deleted");this.showHidden=(s!==undefined)?s:this.storage.get("show_hidden");return this},_buildNewRender:function(){var q=o.prototype._buildNewRender.call(this);if(this.multiselectActions.length){q.find(".controls .actions").prepend(this._renderSelectButton())}return q},_renderSelectButton:function(q){return b({title:f("Operations on multiple datasets"),classes:"show-selectors-btn",faIcon:"fa-check-square-o"})},_getItemViewClass:function(q){var r=q.get("history_content_type");switch(r){case"dataset":return this.HDAViewClass;case"dataset_collection":return this.HDCAViewClass}throw new TypeError("Unknown history_content_type: "+r)},_filterItem:function(r){var q=this;return(o.prototype._filterItem.call(q,r)&&(!r.hidden()||q.showHidden)&&(!r.isDeletedOrPurged()||q.showDeleted))},_getItemViewOptions:function(r){var q=o.prototype._getItemViewOptions.call(this,r);return _.extend(q,{linkTarget:this.linkTarget,expanded:!!this.storage.get("expandedIds")[r.id],hasUser:this.model.ownedByCurrUser()})},_setUpItemViewListeners:function(r){var q=this;o.prototype._setUpItemViewListeners.call(q,r);r.on("expanded",function(s){q.storage.addExpanded(s.model)});r.on("collapsed",function(s){q.storage.removeExpanded(s.model)});return this},getSelectedModels:function(){var q=o.prototype.getSelectedModels.call(this);q.historyId=this.collection.historyId;return q},events:_.extend(_.clone(o.prototype.events),{"click .show-selectors-btn":"toggleSelectors"}),toggleShowDeleted:function(q,r){q=(q!==undefined)?(q):(!this.showDeleted);r=(r!==undefined)?(r):(true);this.showDeleted=q;if(r){this.storage.set("show_deleted",q)}this.trigger("show-hidden",q);this.renderItems();return this.showDeleted},toggleShowHidden:function(q,r){q=(q!==undefined)?(q):(!this.showHidden);r=(r!==undefined)?(r):(true);this.showHidden=q;if(r){this.storage.set("show_hidden",q)}this.trigger("show-hidden",q);this.renderItems();return this.showHidden},_firstSearch:function(q){var r=this,s=".history-search-input";this.log("onFirstSearch",q);if(r.model.contents.haveDetails()){r.searchItems(q);return}r.$el.find(s).searchInput("toggle-loading");r.model.contents.fetchAllDetails({silent:true}).always(function(){r.$el.find(s).searchInput("toggle-loading")}).done(function(){r.searchItems(q)})},errorHandler:function(s,v,r,u,t){this.error(s,v,r,u,t);if(v&&v.status===0&&v.readyState===0){}else{if(v&&v.status===502){}else{var q=this._parseErrorMessage(s,v,r,u,t);if(!this.$messages().is(":visible")){this.once("rendered",function(){this.displayMessage("error",q.message,q.details)})}else{this.displayMessage("error",q.message,q.details)}}}},_parseErrorMessage:function(u,x,y,s,q,v){var t=Galaxy.currUser,w={message:this._bePolite(s),details:{message:s,raven:(window.Raven&&_.isFunction(Raven.lastEventId))?(Raven.lastEventId()):(undefined),agent:navigator.userAgent,url:(window.Galaxy)?(Galaxy.lastAjax.url):(undefined),data:(window.Galaxy)?(Galaxy.lastAjax.data):(undefined),options:(x)?(_.omit(y,"xhr")):(y),xhr:x,source:(_.isFunction(u.toJSON))?(u.toJSON()):(u+""),user:(t instanceof h.User)?(t.toJSON()):(t+"")}};_.extend(w.details,q||{});if(x&&_.isFunction(x.getAllResponseHeaders)){var r=x.getAllResponseHeaders();r=_.compact(r.split("\n"));r=_.map(r,function(z){return z.split(": ")});w.details.xhr.responseHeaders=_.object(r)}return w},_bePolite:function(q){q=q||f("An error occurred while getting updates from the server");return q+". "+f("Please contact a Galaxy administrator if the problem persists")+"."},displayMessage:function(v,w,u){var s=this;this.scrollToTop();var t=this.$messages(),q=$("<div/>").addClass(v+"message").html(w);if(!_.isEmpty(u)){var r=$('<a href="javascript:void(0)">Details</a>').click(function(){Galaxy.modal.show(s._messageToModalOptions(v,w,u));return false});q.append(" ",r)}return t.html(q)},_messageToModalOptions:function(t,w,s){var q=this,r={title:"Details"};if(_.isObject(s)){s=_.omit(s,_.functions(s));var v=JSON.stringify(s,null," "),u=$("<pre/>").text(v);r.body=$("<div/>").append(u)}else{r.body=$("<div/>").html(s)}r.buttons={Ok:function(){Galaxy.modal.hide();q.clearMessages()}};return r},clearMessages:function(q){$(q.currentTarget).fadeOut(this.fxSpeed,function(){$(this).remove()});return this},scrollToHid:function(q){return this.scrollToItem(_.first(this.viewsWhereModel({hid:q})))},toString:function(){return"HistoryPanel("+((this.model)?(this.model.get("name")):(""))+")"}});l.prototype.templates=(function(){var q=p.wrapTemplate(['<div class="controls">','<div class="title">','<div class="name"><%= history.name %></div>',"</div>",'<div class="subtitle"></div>','<div class="history-size"><%= history.nice_size %></div>','<div class="actions"></div>','<div class="messages">',"<% if( history.deleted ){ %>",'<div class="deleted-msg warningmessagesmall">',f("This history has been deleted"),"</div>","<% } %>","<% if( history.message ){ %>",'<div class="<%= history.message.level || "info" %>messagesmall">',"<%= history.message.text %>","</div>","<% } %>","</div>",'<div class="tags-display"></div>','<div class="annotation-display"></div>','<div class="search">','<div class="search-input"></div>',"</div>",'<div class="list-actions">','<div class="btn-group">','<button class="select-all btn btn-default"','data-mode="select">',f("All"),"</button>",'<button class="deselect-all btn btn-default"','data-mode="select">',f("None"),"</button>","</div>",'<button class="list-action-popup-btn btn btn-default">',f("For all selected"),"...</button>","</div>","</div>"],"history");return _.extend(_.clone(o.prototype.templates),{controls:q})}());return{HistoryPanel:l}}); \ No newline at end of file diff -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 -r 6c9848ad6d02691c7c68cd8faada68753126b472 static/scripts/packed/mvc/ui.js --- a/static/scripts/packed/mvc/ui.js +++ b/static/scripts/packed/mvc/ui.js @@ -1,1 +1,1 @@ -var IconButton=Backbone.Model.extend({defaults:{title:"",icon_class:"",on_click:null,menu_options:null,is_menu_button:true,id:null,href:null,target:null,enabled:true,visible:true,tooltip_config:{}}});var IconButtonView=Backbone.View.extend({initialize:function(){this.model.attributes.tooltip_config={placement:"bottom"};this.model.bind("change",this.render,this)},render:function(){this.$el.tooltip("hide");var a=this.template(this.model.toJSON());a.tooltip(this.model.get("tooltip_config"));this.$el.replaceWith(a);this.setElement(a);return this},events:{click:"click"},click:function(a){if(_.isFunction(this.model.get("on_click"))){this.model.get("on_click")(a);return false}return true},template:function(b){var a='title="'+b.title+'" class="icon-button';if(b.is_menu_button){a+=" menu-button"}a+=" "+b.icon_class;if(!b.enabled){a+="_disabled"}a+='"';if(b.id){a+=' id="'+b.id+'"'}a+=' href="'+b.href+'"';if(b.target){a+=' target="'+b.target+'"'}if(!b.visible){a+=' style="display: none;"'}if(b.enabled){a="<a "+a+"/>"}else{a="<span "+a+"/>"}return $(a)}});var IconButtonCollection=Backbone.Collection.extend({model:IconButton});var IconButtonMenuView=Backbone.View.extend({tagName:"div",initialize:function(){this.render()},render:function(){var a=this;this.collection.each(function(d){var b=$("<a/>").attr("href","javascript:void(0)").attr("title",d.attributes.title).addClass("icon-button menu-button").addClass(d.attributes.icon_class).appendTo(a.$el).click(d.attributes.on_click);if(d.attributes.tooltip_config){b.tooltip(d.attributes.tooltip_config)}var c=d.get("options");if(c){make_popupmenu(b,c)}});return this}});var create_icon_buttons_menu=function(b,a){if(!a){a={}}var c=new IconButtonCollection(_.map(b,function(d){return new IconButton(_.extend(d,a))}));return new IconButtonMenuView({collection:c})};var Grid=Backbone.Collection.extend({});var GridView=Backbone.View.extend({});var PopupMenu=Backbone.View.extend({initialize:function(b,a){this.$button=b;if(!this.$button.size()){this.$button=$("<div/>")}this.options=a||[];var c=this;this.$button.click(function(d){$(".popmenu-wrapper").remove();c._renderAndShow(d);return false})},_renderAndShow:function(a){this.render();this.$el.appendTo("body").css(this._getShownPosition(a)).show();this._setUpCloseBehavior()},render:function(){this.$el.addClass("popmenu-wrapper").hide().css({position:"absolute"}).html(this.template(this.$button.attr("id"),this.options));if(this.options.length){var a=this;this.$el.find("li").each(function(c,b){var d=a.options[c];if(d.func){$(this).children("a.popupmenu-option").click(function(e){d.func.call(a,e,d)})}})}return this},template:function(b,a){return['<ul id="',b,'-menu" class="dropdown-menu">',this._templateOptions(a),"</ul>"].join("")},_templateOptions:function(a){if(!a.length){return"<li>(no options)</li>"}return _.map(a,function(d){if(d.divider){return'<li class="divider"></li>'}else{if(d.header){return['<li class="head"><a href="javascript:void(0);">',d.html,"</a></li>"].join("")}}var c=d.href||"javascript:void(0);",e=(d.target)?(' target="'+d.target+'"'):(""),b=(d.checked)?('<span class="fa fa-check"></span>'):("");return['<li><a class="popupmenu-option" href="',c,'"',e,">",b,d.html,"</a></li>"].join("")}).join("")},_getShownPosition:function(b){var c=this.$el.width();var a=b.pageX-c/2;a=Math.min(a,$(document).scrollLeft()+$(window).width()-c-5);a=Math.max(a,$(document).scrollLeft()+5);return{top:b.pageY,left:a}},_setUpCloseBehavior:function(){var c=this;function a(e){$(document).off("click.close_popup");if(window.parent!==window){try{$(window.parent.document).off("click.close_popup")}catch(d){}}else{try{$("iframe#galaxy_main").contents().off("click.close_popup")}catch(d){}}c.remove()}$("html").one("click.close_popup",a);if(window.parent!==window){try{$(window.parent.document).find("html").one("click.close_popup",a)}catch(b){}}else{try{$("iframe#galaxy_main").contents().one("click.close_popup",a)}catch(b){}}},addItem:function(b,a){a=(a>=0)?a:this.options.length;this.options.splice(a,0,b);return this},removeItem:function(a){if(a>=0){this.options.splice(a,1)}return this},findIndexByHtml:function(b){for(var a=0;a<this.options.length;a++){if(_.has(this.options[a],"html")&&(this.options[a].html===b)){return a}}return null},findItemByHtml:function(a){return this.options[(this.findIndexByHtml(a))]},toString:function(){return"PopupMenu"}});PopupMenu.create=function _create(b,a){return new PopupMenu(b,a)};PopupMenu.make_popupmenu=function(b,c){var a=[];_.each(c,function(f,d){var e={html:d};if(f===null){e.header=true}else{if(jQuery.type(f)==="function"){e.func=f}}a.push(e)});return new PopupMenu($(b),a)};PopupMenu.convertLinksToOptions=function(c,a){c=$(c);a=a||"a";var b=[];c.find(a).each(function(g,e){var f={},d=$(g);f.html=d.text();if(d.attr("href")){var j=d.attr("href"),k=d.attr("target"),h=d.attr("confirm");f.func=function(){if((h)&&(!confirm(h))){return}switch(k){case"_parent":window.parent.location=j;break;case"_top":window.top.location=j;break;default:window.location=j}}}b.push(f)});return b};PopupMenu.fromExistingDom=function(d,c,a){d=$(d);c=$(c);var b=PopupMenu.convertLinksToOptions(c,a);c.remove();return new PopupMenu(d,b)};PopupMenu.make_popup_menus=function(c,b,d){c=c||document;b=b||"div[popupmenu]";d=d||function(e,f){return"#"+e.attr("popupmenu")};var a=[];$(c).find(b).each(function(){var e=$(this),f=$(c).find(d(e,c));a.push(PopupMenu.fromDom(f,e));f.addClass("popup")});return a};var faIconButton=function(a){a=a||{};a.tooltipConfig=a.tooltipConfig||{placement:"bottom"};a.classes=["icon-btn"].concat(a.classes||[]);if(a.disabled){a.classes.push("disabled")}var b=['<a class="',a.classes.join(" "),'"',((a.title)?(' title="'+a.title+'"'):("")),((!a.disabled&&a.target)?(' target="'+a.target+'"'):("")),' href="',((!a.disabled&&a.href)?(a.href):("javascript:void(0);")),'">','<span class="fa ',a.faIcon,'"></span>',"</a>"].join("");var c=$(b).tooltip(a.tooltipConfig);if(_.isFunction(a.onclick)){c.click(a.onclick)}return c}; \ No newline at end of file +var IconButton=Backbone.Model.extend({defaults:{title:"",icon_class:"",on_click:null,menu_options:null,is_menu_button:true,id:null,href:null,target:null,enabled:true,visible:true,tooltip_config:{}}});var IconButtonView=Backbone.View.extend({initialize:function(){this.model.attributes.tooltip_config={placement:"bottom"};this.model.bind("change",this.render,this)},render:function(){this.$el.tooltip("hide");var a=this.template(this.model.toJSON());a.tooltip(this.model.get("tooltip_config"));this.$el.replaceWith(a);this.setElement(a);return this},events:{click:"click"},click:function(a){if(_.isFunction(this.model.get("on_click"))){this.model.get("on_click")(a);return false}return true},template:function(b){var a='title="'+b.title+'" class="icon-button';if(b.is_menu_button){a+=" menu-button"}a+=" "+b.icon_class;if(!b.enabled){a+="_disabled"}a+='"';if(b.id){a+=' id="'+b.id+'"'}a+=' href="'+b.href+'"';if(b.target){a+=' target="'+b.target+'"'}if(!b.visible){a+=' style="display: none;"'}if(b.enabled){a="<a "+a+"/>"}else{a="<span "+a+"/>"}return $(a)}});var IconButtonCollection=Backbone.Collection.extend({model:IconButton});var IconButtonMenuView=Backbone.View.extend({tagName:"div",initialize:function(){this.render()},render:function(){var a=this;this.collection.each(function(d){var b=$("<a/>").attr("href","javascript:void(0)").attr("title",d.attributes.title).addClass("icon-button 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false})},_renderAndShow:function(a){this.render();this.$el.appendTo("body").css(this._getShownPosition(a)).show();this._setUpCloseBehavior()},render:function(){this.$el.addClass("popmenu-wrapper").hide().css({position:"absolute"}).html(this.template(this.$button.attr("id"),this.options));if(this.options.length){var a=this;this.$el.find("li").each(function(c,b){var d=a.options[c];if(d.func){$(this).children("a.popupmenu-option").click(function(e){d.func.call(a,e,d)})}})}return this},template:function(b,a){return['<ul id="',b,'-menu" class="dropdown-menu">',this._templateOptions(a),"</ul>"].join("")},_templateOptions:function(a){if(!a.length){return"<li>(no options)</li>"}return _.map(a,function(d){if(d.divider){return'<li class="divider"></li>'}else{if(d.header){return['<li class="head"><a href="javascript:void(0);">',d.html,"</a></li>"].join("")}}var c=d.href||"javascript:void(0);",e=(d.target)?(' target="'+d.target+'"'):(""),b=(d.checked)?('<span class="fa fa-check"></span>'):("");return['<li><a class="popupmenu-option" href="',c,'"',e,">",b,d.html,"</a></li>"].join("")}).join("")},_getShownPosition:function(b){var c=this.$el.width();var a=b.pageX-c/2;a=Math.min(a,$(document).scrollLeft()+$(window).width()-c-5);a=Math.max(a,$(document).scrollLeft()+5);return{top:b.pageY,left:a}},_setUpCloseBehavior:function(){var c=this;function a(e){$(document).off("click.close_popup");if(window.parent!==window){try{$(window.parent.document).off("click.close_popup")}catch(d){}}else{try{$("iframe#galaxy_main").contents().off("click.close_popup")}catch(d){}}c.remove()}$("html").one("click.close_popup",a);if(window.parent!==window){try{$(window.parent.document).find("html").one("click.close_popup",a)}catch(b){}}else{try{$("iframe#galaxy_main").contents().one("click.close_popup",a)}catch(b){}}},addItem:function(b,a){a=(a>=0)?a:this.options.length;this.options.splice(a,0,b);return this},removeItem:function(a){if(a>=0){this.options.splice(a,1)}return this},findIndexByHtml:function(b){for(var a=0;a<this.options.length;a++){if(_.has(this.options[a],"html")&&(this.options[a].html===b)){return a}}return null},findItemByHtml:function(a){return this.options[(this.findIndexByHtml(a))]},toString:function(){return"PopupMenu"}});PopupMenu.create=function _create(b,a){return new PopupMenu(b,a)};PopupMenu.make_popupmenu=function(b,c){var a=[];_.each(c,function(f,d){var e={html:d};if(f===null){e.header=true}else{if(jQuery.type(f)==="function"){e.func=f}}a.push(e)});return new PopupMenu($(b),a)};PopupMenu.convertLinksToOptions=function(c,a){c=$(c);a=a||"a";var b=[];c.find(a).each(function(g,e){var f={},d=$(g);f.html=d.text();if(d.attr("href")){var j=d.attr("href"),k=d.attr("target"),h=d.attr("confirm");f.func=function(){if((h)&&(!confirm(h))){return}switch(k){case"_parent":window.parent.location=j;break;case"_top":window.top.location=j;break;default:window.location=j}}}b.push(f)});return b};PopupMenu.fromExistingDom=function(d,c,a){d=$(d);c=$(c);var b=PopupMenu.convertLinksToOptions(c,a);c.remove();return new PopupMenu(d,b)};PopupMenu.make_popup_menus=function(c,b,d){c=c||document;b=b||"div[popupmenu]";d=d||function(e,f){return"#"+e.attr("popupmenu")};var a=[];$(c).find(b).each(function(){var e=$(this),f=$(c).find(d(e,c));a.push(PopupMenu.fromDom(f,e));f.addClass("popup")});return a}; \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: carlfeberhard: Client build: modularize loading indicator from ui.js
by commits-noreply＠bitbucket.org 09 Dec '14

09 Dec '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/558cfd39bb3f/ Changeset: 558cfd39bb3f User: carlfeberhard Date: 2014-12-09 17:37:36+00:00 Summary: Client build: modularize loading indicator from ui.js Affected #: 9 files diff -r be3f185f9e75c4a7fc8ecf689ad0d26b98275026 -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 client/galaxy/scripts/jq-plugins/ui/loading-indicator.js --- /dev/null +++ b/client/galaxy/scripts/jq-plugins/ui/loading-indicator.js @@ -0,0 +1,98 @@ +(function (root, factory) { + if (typeof define === 'function' && define.amd) { + // AMD. Register as an anonymous module. + define([], factory); + } else { + // Browser globals + root.LoadingIndicator = factory(); + } + +//============================================================================ +}(this, function () { + //TODO: too specific to history panel + function LoadingIndicator( $where, options ){ + + var self = this; + // defaults + options = jQuery.extend({ + cover : false + }, options || {} ); + + function render(){ + var html = [ + '<div class="loading-indicator">', + '<div class="loading-indicator-text">', + '<span class="fa fa-spinner fa-spin fa-lg"></span>', + '<span class="loading-indicator-message">loading...</span>', + '</div>', + '</div>' + ].join( '\n' ); + + var $indicator = $( html ).hide().css( options.css || { + position : 'fixed' + }), + $text = $indicator.children( '.loading-indicator-text' ); + + if( options.cover ){ + $indicator.css({ + 'z-index' : 2, + top : $where.css( 'top' ), + bottom : $where.css( 'bottom' ), + left : $where.css( 'left' ), + right : $where.css( 'right' ), + opacity : 0.5, + 'background-color': 'white', + 'text-align': 'center' + }); + $text = $indicator.children( '.loading-indicator-text' ).css({ + 'margin-top' : '20px' + }); + + } else { + $text = $indicator.children( '.loading-indicator-text' ).css({ + margin : '12px 0px 0px 10px', + opacity : '0.85', + color : 'grey' + }); + $text.children( '.loading-indicator-message' ).css({ + margin : '0px 8px 0px 0px', + 'font-style' : 'italic' + }); + } + return $indicator; + } + + self.show = function( msg, speed, callback ){ + msg = msg || 'loading...'; + speed = speed || 'fast'; + // remove previous + $where.parent().find( '.loading-indicator' ).remove(); + // since position is fixed - we insert as sibling + self.$indicator = render().insertBefore( $where ); + self.message( msg ); + self.$indicator.fadeIn( speed, callback ); + return self; + }; + + self.message = function( msg ){ + self.$indicator.find( 'i' ).text( msg ); + }; + + self.hide = function( speed, callback ){ + speed = speed || 'fast'; + if( self.$indicator && self.$indicator.size() ){ + self.$indicator.fadeOut( speed, function(){ + self.$indicator.remove(); + if( callback ){ callback(); } + }); + } else { + if( callback ){ callback(); } + } + return self; + }; + return self; + } + +//============================================================================ + return LoadingIndicator; +})); diff -r be3f185f9e75c4a7fc8ecf689ad0d26b98275026 -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 client/galaxy/scripts/mvc/list/list-panel.js --- a/client/galaxy/scripts/mvc/list/list-panel.js +++ b/client/galaxy/scripts/mvc/list/list-panel.js @@ -1,9 +1,10 @@ define([ "mvc/list/list-item", + "jq-plugins/ui/loading-indicator", "mvc/base-mvc", "utils/localization", "jq-plugins/ui/search-input" -], function( LIST_ITEM, BASE_MVC, _l ){ +], function( LIST_ITEM, LoadingIndicator, BASE_MVC, _l ){ /* ============================================================================ TODO: diff -r be3f185f9e75c4a7fc8ecf689ad0d26b98275026 -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 client/galaxy/scripts/mvc/ui.js --- a/client/galaxy/scripts/mvc/ui.js +++ b/client/galaxy/scripts/mvc/ui.js @@ -514,90 +514,3 @@ } return $button; }; - - -//============================================================================== -function LoadingIndicator( $where, options ){ -//TODO: move out of global -//TODO: too specific to history panel - - var self = this; - // defaults - options = jQuery.extend({ - cover : false - }, options || {} ); - - function render(){ - var html = [ - '<div class="loading-indicator">', - '<div class="loading-indicator-text">', - '<span class="fa fa-spinner fa-spin fa-lg"></span>', - '<span class="loading-indicator-message">loading...</span>', - '</div>', - '</div>' - ].join( '\n' ); - - var $indicator = $( html ).hide().css( options.css || { - position : 'fixed' - }), - $text = $indicator.children( '.loading-indicator-text' ); - - if( options.cover ){ - $indicator.css({ - 'z-index' : 2, - top : $where.css( 'top' ), - bottom : $where.css( 'bottom' ), - left : $where.css( 'left' ), - right : $where.css( 'right' ), - opacity : 0.5, - 'background-color': 'white', - 'text-align': 'center' - }); - $text = $indicator.children( '.loading-indicator-text' ).css({ - 'margin-top' : '20px' - }); - - } else { - $text = $indicator.children( '.loading-indicator-text' ).css({ - margin : '12px 0px 0px 10px', - opacity : '0.85', - color : 'grey' - }); - $text.children( '.loading-indicator-message' ).css({ - margin : '0px 8px 0px 0px', - 'font-style' : 'italic' - }); - } - return $indicator; - } - - self.show = function( msg, speed, callback ){ - msg = msg || 'loading...'; - speed = speed || 'fast'; - // remove previous - $where.parent().find( '.loading-indicator' ).remove(); - // since position is fixed - we insert as sibling - self.$indicator = render().insertBefore( $where ); - self.message( msg ); - self.$indicator.fadeIn( speed, callback ); - return self; - }; - - self.message = function( msg ){ - self.$indicator.find( 'i' ).text( msg ); - }; - - self.hide = function( speed, callback ){ - speed = speed || 'fast'; - if( self.$indicator && self.$indicator.size() ){ - self.$indicator.fadeOut( speed, function(){ - self.$indicator.remove(); - if( callback ){ callback(); } - }); - } else { - if( callback ){ callback(); } - } - return self; - }; - return self; -} diff -r be3f185f9e75c4a7fc8ecf689ad0d26b98275026 -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 static/scripts/jq-plugins/ui/loading-indicator.js --- /dev/null +++ b/static/scripts/jq-plugins/ui/loading-indicator.js @@ -0,0 +1,98 @@ +(function (root, factory) { + if (typeof define === 'function' && define.amd) { + // AMD. Register as an anonymous module. + define([], factory); + } else { + // Browser globals + root.LoadingIndicator = factory(); + } + +//============================================================================ +}(this, function () { + //TODO: too specific to history panel + function LoadingIndicator( $where, options ){ + + var self = this; + // defaults + options = jQuery.extend({ + cover : false + }, options || {} ); + + function render(){ + var html = [ + '<div class="loading-indicator">', + '<div class="loading-indicator-text">', + '<span class="fa fa-spinner fa-spin fa-lg"></span>', + '<span class="loading-indicator-message">loading...</span>', + '</div>', + '</div>' + ].join( '\n' ); + + var $indicator = $( html ).hide().css( options.css || { + position : 'fixed' + }), + $text = $indicator.children( '.loading-indicator-text' ); + + if( options.cover ){ + $indicator.css({ + 'z-index' : 2, + top : $where.css( 'top' ), + bottom : $where.css( 'bottom' ), + left : $where.css( 'left' ), + right : $where.css( 'right' ), + opacity : 0.5, + 'background-color': 'white', + 'text-align': 'center' + }); + $text = $indicator.children( '.loading-indicator-text' ).css({ + 'margin-top' : '20px' + }); + + } else { + $text = $indicator.children( '.loading-indicator-text' ).css({ + margin : '12px 0px 0px 10px', + opacity : '0.85', + color : 'grey' + }); + $text.children( '.loading-indicator-message' ).css({ + margin : '0px 8px 0px 0px', + 'font-style' : 'italic' + }); + } + return $indicator; + } + + self.show = function( msg, speed, callback ){ + msg = msg || 'loading...'; + speed = speed || 'fast'; + // remove previous + $where.parent().find( '.loading-indicator' ).remove(); + // since position is fixed - we insert as sibling + self.$indicator = render().insertBefore( $where ); + self.message( msg ); + self.$indicator.fadeIn( speed, callback ); + return self; + }; + + self.message = function( msg ){ + self.$indicator.find( 'i' ).text( msg ); + }; + + self.hide = function( speed, callback ){ + speed = speed || 'fast'; + if( self.$indicator && self.$indicator.size() ){ + self.$indicator.fadeOut( speed, function(){ + self.$indicator.remove(); + if( callback ){ callback(); } + }); + } else { + if( callback ){ callback(); } + } + return self; + }; + return self; + } + +//============================================================================ + return LoadingIndicator; +})); diff -r be3f185f9e75c4a7fc8ecf689ad0d26b98275026 -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 static/scripts/mvc/list/list-panel.js --- a/static/scripts/mvc/list/list-panel.js +++ b/static/scripts/mvc/list/list-panel.js @@ -1,9 +1,10 @@ define([ "mvc/list/list-item", + "jq-plugins/ui/loading-indicator", "mvc/base-mvc", "utils/localization", "jq-plugins/ui/search-input" -], function( LIST_ITEM, BASE_MVC, _l ){ +], function( LIST_ITEM, LoadingIndicator, BASE_MVC, _l ){ /* ============================================================================ TODO: diff -r be3f185f9e75c4a7fc8ecf689ad0d26b98275026 -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 static/scripts/mvc/ui.js --- a/static/scripts/mvc/ui.js +++ b/static/scripts/mvc/ui.js @@ -514,90 +514,3 @@ } return $button; }; - - -//============================================================================== -function LoadingIndicator( $where, options ){ -//TODO: move out of global -//TODO: too specific to history panel - - var self = this; - // defaults - options = jQuery.extend({ - cover : false - }, options || {} ); - - function render(){ - var html = [ - '<div class="loading-indicator">', - '<div class="loading-indicator-text">', - '<span class="fa fa-spinner fa-spin fa-lg"></span>', - '<span class="loading-indicator-message">loading...</span>', - '</div>', - '</div>' - ].join( '\n' ); - - var $indicator = $( html ).hide().css( options.css || { - position : 'fixed' - }), - $text = $indicator.children( '.loading-indicator-text' ); - - if( options.cover ){ - $indicator.css({ - 'z-index' : 2, - top : $where.css( 'top' ), - bottom : $where.css( 'bottom' ), - left : $where.css( 'left' ), - right : $where.css( 'right' ), - opacity : 0.5, - 'background-color': 'white', - 'text-align': 'center' - }); - $text = $indicator.children( '.loading-indicator-text' ).css({ - 'margin-top' : '20px' - }); - - } else { - $text = $indicator.children( '.loading-indicator-text' ).css({ - margin : '12px 0px 0px 10px', - opacity : '0.85', - color : 'grey' - }); - $text.children( '.loading-indicator-message' ).css({ - margin : '0px 8px 0px 0px', - 'font-style' : 'italic' - }); - } - return $indicator; - } - - self.show = function( msg, speed, callback ){ - msg = msg || 'loading...'; - speed = speed || 'fast'; - // remove previous - $where.parent().find( '.loading-indicator' ).remove(); - // since position is fixed - we insert as sibling - self.$indicator = render().insertBefore( $where ); - self.message( msg ); - self.$indicator.fadeIn( speed, callback ); - return self; - }; - - self.message = function( msg ){ - self.$indicator.find( 'i' ).text( msg ); - }; - - self.hide = function( speed, callback ){ - speed = speed || 'fast'; - if( self.$indicator && self.$indicator.size() ){ - self.$indicator.fadeOut( speed, function(){ - self.$indicator.remove(); - if( callback ){ callback(); } - }); - } else { - if( callback ){ callback(); } - } - return self; - }; - return self; -} diff -r be3f185f9e75c4a7fc8ecf689ad0d26b98275026 -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 static/scripts/packed/jq-plugins/ui/loading-indicator.js --- /dev/null +++ b/static/scripts/packed/jq-plugins/ui/loading-indicator.js @@ -0,0 +1,1 @@ +(function(a,b){if(typeof define==="function"&&define.amd){define([],b)}else{a.LoadingIndicator=b()}}(this,function(){function a(b,d){var c=this;d=jQuery.extend({cover:false},d||{});function e(){var f=['<div class="loading-indicator">','<div class="loading-indicator-text">','<span class="fa fa-spinner fa-spin fa-lg"></span>','<span class="loading-indicator-message">loading...</span>',"</div>","</div>"].join("\n");var h=$(f).hide().css(d.css||{position:"fixed"}),g=h.children(".loading-indicator-text");if(d.cover){h.css({"z-index":2,top:b.css("top"),bottom:b.css("bottom"),left:b.css("left"),right:b.css("right"),opacity:0.5,"background-color":"white","text-align":"center"});g=h.children(".loading-indicator-text").css({"margin-top":"20px"})}else{g=h.children(".loading-indicator-text").css({margin:"12px 0px 0px 10px",opacity:"0.85",color:"grey"});g.children(".loading-indicator-message").css({margin:"0px 8px 0px 0px","font-style":"italic"})}return h}c.show=function(g,f,h){g=g||"loading...";f=f||"fast";b.parent().find(".loading-indicator").remove();c.$indicator=e().insertBefore(b);c.message(g);c.$indicator.fadeIn(f,h);return c};c.message=function(f){c.$indicator.find("i").text(f)};c.hide=function(f,g){f=f||"fast";if(c.$indicator&&c.$indicator.size()){c.$indicator.fadeOut(f,function(){c.$indicator.remove();if(g){g()}})}else{if(g){g()}}return c};return c}return a})); \ No newline at end of file diff -r be3f185f9e75c4a7fc8ecf689ad0d26b98275026 -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 static/scripts/packed/mvc/list/list-panel.js --- a/static/scripts/packed/mvc/list/list-panel.js +++ b/static/scripts/packed/mvc/list/list-panel.js @@ -1,1 +1,1 @@ -define(["mvc/list/list-item","mvc/base-mvc","utils/localization","jq-plugins/ui/search-input"],function(d,b,c){var e=Backbone.View.extend(b.LoggableMixin).extend({viewClass:d.ListItemView,collectionClass:Backbone.Collection,tagName:"div",className:"list-panel",fxSpeed:"fast",emptyMsg:c("This list is empty"),noneFoundMsg:c("No matching items found"),searchPlaceholder:c("search"),multiselectActions:[],initialize:function(f,g){f=f||{};if(f.logger){this.logger=f.logger}this.log(this+".initialize:",f);this.fxSpeed=_.has(f,"fxSpeed")?(f.fxSpeed):(this.fxSpeed);this.filters=[];this.searchFor=f.searchFor||"";this.indicator=new LoadingIndicator(this.$el);this.selecting=(f.selecting!==undefined)?f.selecting:true;this.selected=f.selected||[];this.lastSelected=null;this.dragItems=f.dragItems||false;this.viewClass=f.viewClass||this.viewClass;this.views=[];this.collection=f.collection||(new this.collectionClass([]));this.filters=f.filters||[];this.$scrollContainer=f.$scrollContainer||this.$scrollContainer;this.title=f.title||"";this.subtitle=f.subtitle||"";this.multiselectActions=f.multiselectActions||this.multiselectActions;this.actionsPopup=null;this._setUpListeners()},freeViews:function(){_.each(this.views,function(f){f.off()});this.views=[];return this},_setUpListeners:function(){this.off();this.on("error",function(g,j,f,i,h){console.error(g,j,f,i,h)},this);this.on("loading",function(){this._showLoadingIndicator("loading...",40)},this);this.on("loading-done",function(){this._hideLoadingIndicator(40)},this);this.once("rendered",function(){this.trigger("rendered:initial",this)},this);if(this.logger){this.on("all",function(f){this.log(this+"",arguments)},this)}this._setUpCollectionListeners();this._setUpViewListeners();return this},_setUpCollectionListeners:function(){this.log(this+"._setUpCollectionListeners",this.collection);this.collection.off();this.collection.on("error",function(g,j,f,i,h){this.trigger("error",g,j,f,i,h)},this);this.collection.on("reset",function(){this.renderItems()},this);this.collection.on("add",this.addItemView,this);this.collection.on("remove",this.removeItemView,this);if(this.logger){this.collection.on("all",function(f){this.info(this+"(collection)",arguments)},this)}return this},_setUpViewListeners:function(){this.log(this+"._setUpViewListeners");this.on("view:selected",function(f,g){if(g&&g.shiftKey&&this.lastSelected){var h=this.viewFromModelId(this.lastSelected);if(h){this.selectRange(f,h)}}else{if(g&&g.altKey&&!this.selecting){this.showSelectors()}}this.selected.push(f.model.id);this.lastSelected=f.model.id},this);this.on("view:de-selected",function(f,g){this.selected=_.without(this.selected,f.model.id)},this)},render:function(g){this.log(this+".render",g);var f=this._buildNewRender();this._setUpBehaviors(f);this._queueNewRender(f,g);return this},_buildNewRender:function(){this.debug(this+"(ListPanel)._buildNewRender");var f=$(this.templates.el({},this));this._renderControls(f);this._renderTitle(f);this._renderSubtitle(f);this._renderSearch(f);this.renderItems(f);return f},_renderControls:function(g){this.debug(this+"(ListPanel)._renderControls");var f=$(this.templates.controls({},this));g.find(".controls").replaceWith(f);return f},_renderTitle:function(f){},_renderSubtitle:function(f){},_queueNewRender:function(g,h){h=(h===undefined)?(this.fxSpeed):(h);var f=this;f.log("_queueNewRender:",g,h);$(f).queue("fx",[function(i){this.$el.fadeOut(h,i)},function(i){f._swapNewRender(g);i()},function(i){this.$el.fadeIn(h,i)},function(i){f.trigger("rendered",f);i()}])},_swapNewRender:function(f){this.$el.empty().attr("class",this.className).append(f.children());if(this.selecting){this.showSelectors(0)}return this},_setUpBehaviors:function(f){f=f||this.$el;f.find(".controls [title]").tooltip({placement:"bottom"});return this},$scrollContainer:function(){return this.$el.parent().parent()},$list:function(f){return(f||this.$el).find("> .list-items")},$messages:function(f){return(f||this.$el).find("> .controls .messages")},$emptyMessage:function(f){return(f||this.$el).find("> .empty-message")},renderItems:function(h){h=h||this.$el;var f=this;f.log(this+".renderItems",h);var g=f.$list(h);f.views=f._filterCollection().map(function(i){return f._createItemView(i).render(0)});g.empty();if(f.views.length){f._attachItems(h);f.$emptyMessage(h).hide()}else{f._renderEmptyMessage(h).show()}return f.views},_filterCollection:function(){var f=this;return f.collection.filter(_.bind(f._filterItem,f))},_filterItem:function(g){var f=this;return(_.every(f.filters.map(function(h){return h.call(g)})))&&(!f.searchFor||g.matchesAll(f.searchFor))},_createItemView:function(h){var i=this._getItemViewClass(h),g=_.extend(this._getItemViewOptions(h),{model:h}),f=new i(g);this._setUpItemViewListeners(f);return f},_getItemViewClass:function(f){return this.viewClass},_getItemViewOptions:function(f){return{fxSpeed:this.fxSpeed,expanded:false,selectable:this.selecting,selected:_.contains(this.selected,f.id),draggable:this.dragItems}},_setUpItemViewListeners:function(g){var f=this;g.on("all",function(){var h=Array.prototype.slice.call(arguments,0);h[0]="view:"+h[0];f.trigger.apply(f,h)});g.on("draggable:dragstart",function(k,h){var i={},j=this.getSelectedModels();if(j.length){i=j.toJSON()}else{i=[h.model.toJSON()]}k.dataTransfer.setData("text",JSON.stringify(i))},this);return f},_attachItems:function(f){this.$list(f).append(this.views.map(function(g){return g.$el}));return this},_renderEmptyMessage:function(f){this.debug("_renderEmptyMessage",f,this.searchFor);var g=this.searchFor?this.noneFoundMsg:this.emptyMsg;return this.$emptyMessage(f).text(g)},expandAll:function(){_.each(this.views,function(f){f.expand()})},collapseAll:function(){_.each(this.views,function(f){f.collapse()})},addItemView:function(i,j,h){this.log(this+".addItemView:",i);var g=this;if(!g._filterItem(i)){return undefined}var f=g._createItemView(i);$(f).queue("fx",[function(k){g.$emptyMessage().fadeOut(g.fxSpeed,k)},function(k){g._attachView(f);k()}]);return f},_attachView:function(g){var f=this;f.views.push(g);f.$list().append(g.render(0).$el.hide());g.$el.slideDown(f.fxSpeed)},removeItemView:function(i,j,h){this.log(this+".removeItemView:",i);var g=this,f=g.viewFromModel(i);if(!f){return undefined}g.views=_.without(g.views,f);$({}).queue("fx",[function(k){f.$el.fadeOut(g.fxSpeed,k)},function(k){f.remove();if(!g.views.length){g._renderEmptyMessage().fadeIn(g.fxSpeed,k)}else{k()}}]);return f},viewFromModelId:function(g){for(var f=0;f<this.views.length;f++){if(this.views[f].model.id===g){return this.views[f]}}return undefined},viewFromModel:function(f){if(!f){return undefined}return this.viewFromModelId(f.id)},viewsWhereModel:function(f){return this.views.filter(function(g){var i=g.model.toJSON();for(var h in f){if(f.hasOwnProperty(h)){if(i[h]!==g.model.get(h)){return false}}}return true})},viewRange:function(i,h){if(i===h){return(i)?([i]):([])}var g=this.views.indexOf(i),f=this.views.indexOf(h);if(g===-1||f===-1){if(g===f){return[]}return(g===-1)?([h]):([i])}return(g<f)?this.views.slice(g,f+1):this.views.slice(f,g+1)},_renderSearch:function(f){f.find(".controls .search-input").searchInput({placeholder:this.searchPlaceholder,initialVal:this.searchFor,onfirstsearch:_.bind(this._firstSearch,this),onsearch:_.bind(this.searchItems,this),onclear:_.bind(this.clearSearch,this)});return f},_firstSearch:function(f){this.log("onFirstSearch",f);return this.searchItems(f)},searchItems:function(f){this.searchFor=f;this.trigger("search:searching",f,this);this.renderItems();this.$("> .controls .search-query").val(f);return this},clearSearch:function(f){this.searchFor="";this.trigger("search:clear",this);this.renderItems();this.$("> .controls .search-query").val("");return this},showSelectors:function(f){f=(f!==undefined)?(f):(this.fxSpeed);this.selecting=true;this.$(".list-actions").slideDown(f);_.each(this.views,function(g){g.showSelector(f)})},hideSelectors:function(f){f=(f!==undefined)?(f):(this.fxSpeed);this.selecting=false;this.$(".list-actions").slideUp(f);_.each(this.views,function(g){g.hideSelector(f)});this.selected=[];this.lastSelected=null},toggleSelectors:function(){if(!this.selecting){this.showSelectors()}else{this.hideSelectors()}},selectAll:function(f){_.each(this.views,function(g){g.select(f)})},deselectAll:function(f){this.lastSelected=null;_.each(this.views,function(g){g.deselect(f)})},selectRange:function(h,g){var f=this.viewRange(h,g);_.each(f,function(i){i.select()});return f},getSelectedViews:function(){return _.filter(this.views,function(f){return f.selected})},getSelectedModels:function(){return new this.collection.constructor(_.map(this.getSelectedViews(),function(f){return f.model}))},_showLoadingIndicator:function(g,f,h){this.debug("_showLoadingIndicator",this.indicator,g,f,h);f=(f!==undefined)?(f):(this.fxSpeed);if(!this.indicator){this.indicator=new LoadingIndicator(this.$el,this.$el.parent());this.debug("\t created",this.indicator)}if(!this.$el.is(":visible")){this.indicator.show(0,h)}else{this.$el.fadeOut(f);this.indicator.show(g,f,h)}},_hideLoadingIndicator:function(f,g){this.debug("_hideLoadingIndicator",this.indicator,f,g);f=(f!==undefined)?(f):(this.fxSpeed);if(this.indicator){this.indicator.hide(f,g)}},scrollPosition:function(){return this.$scrollContainer().scrollTop()},scrollTo:function(g,f){f=f||0;this.$scrollContainer().animate({scrollTop:g},f);return this},scrollToTop:function(f){return this.scrollTo(0,f)},scrollToItem:function(f,h){if(!f){return this}var g=f.$el.position().top;return this.scrollTo(g,h)},scrollToId:function(g,f){return this.scrollToItem(this.viewFromModelId(g),f)},events:{"click .select-all":"selectAll","click .deselect-all":"deselectAll"},toString:function(){return"ListPanel("+this.collection+")"}});e.prototype.templates=(function(){var g=b.wrapTemplate(["<div>",'<div class="controls"></div>','<div class="list-items"></div>','<div class="empty-message infomessagesmall"></div>',"</div>"]);var f=b.wrapTemplate(['<div class="controls">','<div class="title">','<div class="name"><%= view.title %></div>',"</div>",'<div class="subtitle"><%= view.subtitle %></div>','<div class="actions"></div>','<div class="messages"></div>','<div class="search">','<div class="search-input"></div>',"</div>",'<div class="list-actions">','<div class="btn-group">','<button class="select-all btn btn-default"','data-mode="select">',c("All"),"</button>",'<button class="deselect-all btn btn-default"','data-mode="select">',c("None"),"</button>","</div>","</div>","</div>"]);return{el:g,controls:f}}());var a=e.extend({modelCollectionKey:"contents",initialize:function(f){e.prototype.initialize.call(this,f);this.selecting=(f.selecting!==undefined)?f.selecting:false;this.setModel(this.model,f)},setModel:function(g,f){f=f||{};this.debug(this+".setModel:",g,f);this.freeModel();this.freeViews();if(g){var h=this.model?this.model.get("id"):null;this.model=g;if(this.logger){this.model.logger=this.logger}this._setUpModelListeners();this.collection.off();this.collection=(this.model[this.modelCollectionKey])?this.model[this.modelCollectionKey]:(f.collection||(new this.collectionClass([])));this._setUpCollectionListeners();if(h&&g.get("id")!==h){this.trigger("new-model",this)}}return this},freeModel:function(){if(this.model){this.stopListening(this.model)}return this},_setUpModelListeners:function(){this.log(this+"._setUpModelListeners",this.model);this.model.on("error",function(){this.trigger.apply(panel,arguments)},this);return this},_renderControls:function(g){this.debug(this+"(ListPanel)._renderControls");var h=this.model?this.model.toJSON():{},f=$(this.templates.controls(h,this));g.find(".controls").replaceWith(f);return f},toString:function(){return"ModelListPanel("+this.model+")"}});a.prototype.templates=(function(){var f=b.wrapTemplate(['<div class="controls">','<div class="title">','<div class="name"><%= model.name %></div>',"</div>",'<div class="subtitle"><%= view.subtitle %></div>','<div class="actions"></div>','<div class="messages"></div>','<div class="search">','<div class="search-input"></div>',"</div>",'<div class="list-actions">','<div class="btn-group">','<button class="select-all btn btn-default"','data-mode="select">',c("All"),"</button>",'<button class="deselect-all btn btn-default"','data-mode="select">',c("None"),"</button>","</div>","</div>","</div>"]);return _.extend(_.clone(e.prototype.templates),{controls:f})}());return{ListPanel:e,ModelListPanel:a}}); \ No newline at end of file +define(["mvc/list/list-item","jq-plugins/ui/loading-indicator","mvc/base-mvc","utils/localization","jq-plugins/ui/search-input"],function(d,f,b,c){var e=Backbone.View.extend(b.LoggableMixin).extend({viewClass:d.ListItemView,collectionClass:Backbone.Collection,tagName:"div",className:"list-panel",fxSpeed:"fast",emptyMsg:c("This list is empty"),noneFoundMsg:c("No matching items found"),searchPlaceholder:c("search"),multiselectActions:[],initialize:function(g,h){g=g||{};if(g.logger){this.logger=g.logger}this.log(this+".initialize:",g);this.fxSpeed=_.has(g,"fxSpeed")?(g.fxSpeed):(this.fxSpeed);this.filters=[];this.searchFor=g.searchFor||"";this.indicator=new f(this.$el);this.selecting=(g.selecting!==undefined)?g.selecting:true;this.selected=g.selected||[];this.lastSelected=null;this.dragItems=g.dragItems||false;this.viewClass=g.viewClass||this.viewClass;this.views=[];this.collection=g.collection||(new this.collectionClass([]));this.filters=g.filters||[];this.$scrollContainer=g.$scrollContainer||this.$scrollContainer;this.title=g.title||"";this.subtitle=g.subtitle||"";this.multiselectActions=g.multiselectActions||this.multiselectActions;this.actionsPopup=null;this._setUpListeners()},freeViews:function(){_.each(this.views,function(g){g.off()});this.views=[];return this},_setUpListeners:function(){this.off();this.on("error",function(h,k,g,j,i){console.error(h,k,g,j,i)},this);this.on("loading",function(){this._showLoadingIndicator("loading...",40)},this);this.on("loading-done",function(){this._hideLoadingIndicator(40)},this);this.once("rendered",function(){this.trigger("rendered:initial",this)},this);if(this.logger){this.on("all",function(g){this.log(this+"",arguments)},this)}this._setUpCollectionListeners();this._setUpViewListeners();return this},_setUpCollectionListeners:function(){this.log(this+"._setUpCollectionListeners",this.collection);this.collection.off();this.collection.on("error",function(h,k,g,j,i){this.trigger("error",h,k,g,j,i)},this);this.collection.on("reset",function(){this.renderItems()},this);this.collection.on("add",this.addItemView,this);this.collection.on("remove",this.removeItemView,this);if(this.logger){this.collection.on("all",function(g){this.info(this+"(collection)",arguments)},this)}return this},_setUpViewListeners:function(){this.log(this+"._setUpViewListeners");this.on("view:selected",function(g,h){if(h&&h.shiftKey&&this.lastSelected){var i=this.viewFromModelId(this.lastSelected);if(i){this.selectRange(g,i)}}else{if(h&&h.altKey&&!this.selecting){this.showSelectors()}}this.selected.push(g.model.id);this.lastSelected=g.model.id},this);this.on("view:de-selected",function(g,h){this.selected=_.without(this.selected,g.model.id)},this)},render:function(h){this.log(this+".render",h);var g=this._buildNewRender();this._setUpBehaviors(g);this._queueNewRender(g,h);return this},_buildNewRender:function(){this.debug(this+"(ListPanel)._buildNewRender");var g=$(this.templates.el({},this));this._renderControls(g);this._renderTitle(g);this._renderSubtitle(g);this._renderSearch(g);this.renderItems(g);return g},_renderControls:function(h){this.debug(this+"(ListPanel)._renderControls");var g=$(this.templates.controls({},this));h.find(".controls").replaceWith(g);return g},_renderTitle:function(g){},_renderSubtitle:function(g){},_queueNewRender:function(h,i){i=(i===undefined)?(this.fxSpeed):(i);var g=this;g.log("_queueNewRender:",h,i);$(g).queue("fx",[function(j){this.$el.fadeOut(i,j)},function(j){g._swapNewRender(h);j()},function(j){this.$el.fadeIn(i,j)},function(j){g.trigger("rendered",g);j()}])},_swapNewRender:function(g){this.$el.empty().attr("class",this.className).append(g.children());if(this.selecting){this.showSelectors(0)}return this},_setUpBehaviors:function(g){g=g||this.$el;g.find(".controls [title]").tooltip({placement:"bottom"});return this},$scrollContainer:function(){return this.$el.parent().parent()},$list:function(g){return(g||this.$el).find("> .list-items")},$messages:function(g){return(g||this.$el).find("> .controls .messages")},$emptyMessage:function(g){return(g||this.$el).find("> .empty-message")},renderItems:function(i){i=i||this.$el;var g=this;g.log(this+".renderItems",i);var h=g.$list(i);g.views=g._filterCollection().map(function(j){return g._createItemView(j).render(0)});h.empty();if(g.views.length){g._attachItems(i);g.$emptyMessage(i).hide()}else{g._renderEmptyMessage(i).show()}return g.views},_filterCollection:function(){var g=this;return g.collection.filter(_.bind(g._filterItem,g))},_filterItem:function(h){var g=this;return(_.every(g.filters.map(function(i){return i.call(h)})))&&(!g.searchFor||h.matchesAll(g.searchFor))},_createItemView:function(i){var j=this._getItemViewClass(i),h=_.extend(this._getItemViewOptions(i),{model:i}),g=new j(h);this._setUpItemViewListeners(g);return g},_getItemViewClass:function(g){return this.viewClass},_getItemViewOptions:function(g){return{fxSpeed:this.fxSpeed,expanded:false,selectable:this.selecting,selected:_.contains(this.selected,g.id),draggable:this.dragItems}},_setUpItemViewListeners:function(h){var g=this;h.on("all",function(){var i=Array.prototype.slice.call(arguments,0);i[0]="view:"+i[0];g.trigger.apply(g,i)});h.on("draggable:dragstart",function(l,i){var j={},k=this.getSelectedModels();if(k.length){j=k.toJSON()}else{j=[i.model.toJSON()]}l.dataTransfer.setData("text",JSON.stringify(j))},this);return g},_attachItems:function(g){this.$list(g).append(this.views.map(function(h){return h.$el}));return this},_renderEmptyMessage:function(g){this.debug("_renderEmptyMessage",g,this.searchFor);var h=this.searchFor?this.noneFoundMsg:this.emptyMsg;return this.$emptyMessage(g).text(h)},expandAll:function(){_.each(this.views,function(g){g.expand()})},collapseAll:function(){_.each(this.views,function(g){g.collapse()})},addItemView:function(j,k,i){this.log(this+".addItemView:",j);var h=this;if(!h._filterItem(j)){return undefined}var g=h._createItemView(j);$(g).queue("fx",[function(l){h.$emptyMessage().fadeOut(h.fxSpeed,l)},function(l){h._attachView(g);l()}]);return g},_attachView:function(h){var g=this;g.views.push(h);g.$list().append(h.render(0).$el.hide());h.$el.slideDown(g.fxSpeed)},removeItemView:function(j,k,i){this.log(this+".removeItemView:",j);var h=this,g=h.viewFromModel(j);if(!g){return undefined}h.views=_.without(h.views,g);$({}).queue("fx",[function(l){g.$el.fadeOut(h.fxSpeed,l)},function(l){g.remove();if(!h.views.length){h._renderEmptyMessage().fadeIn(h.fxSpeed,l)}else{l()}}]);return g},viewFromModelId:function(h){for(var g=0;g<this.views.length;g++){if(this.views[g].model.id===h){return this.views[g]}}return undefined},viewFromModel:function(g){if(!g){return undefined}return this.viewFromModelId(g.id)},viewsWhereModel:function(g){return this.views.filter(function(h){var j=h.model.toJSON();for(var i in g){if(g.hasOwnProperty(i)){if(j[i]!==h.model.get(i)){return false}}}return true})},viewRange:function(j,i){if(j===i){return(j)?([j]):([])}var h=this.views.indexOf(j),g=this.views.indexOf(i);if(h===-1||g===-1){if(h===g){return[]}return(h===-1)?([i]):([j])}return(h<g)?this.views.slice(h,g+1):this.views.slice(g,h+1)},_renderSearch:function(g){g.find(".controls .search-input").searchInput({placeholder:this.searchPlaceholder,initialVal:this.searchFor,onfirstsearch:_.bind(this._firstSearch,this),onsearch:_.bind(this.searchItems,this),onclear:_.bind(this.clearSearch,this)});return g},_firstSearch:function(g){this.log("onFirstSearch",g);return this.searchItems(g)},searchItems:function(g){this.searchFor=g;this.trigger("search:searching",g,this);this.renderItems();this.$("> .controls .search-query").val(g);return this},clearSearch:function(g){this.searchFor="";this.trigger("search:clear",this);this.renderItems();this.$("> .controls .search-query").val("");return this},showSelectors:function(g){g=(g!==undefined)?(g):(this.fxSpeed);this.selecting=true;this.$(".list-actions").slideDown(g);_.each(this.views,function(h){h.showSelector(g)})},hideSelectors:function(g){g=(g!==undefined)?(g):(this.fxSpeed);this.selecting=false;this.$(".list-actions").slideUp(g);_.each(this.views,function(h){h.hideSelector(g)});this.selected=[];this.lastSelected=null},toggleSelectors:function(){if(!this.selecting){this.showSelectors()}else{this.hideSelectors()}},selectAll:function(g){_.each(this.views,function(h){h.select(g)})},deselectAll:function(g){this.lastSelected=null;_.each(this.views,function(h){h.deselect(g)})},selectRange:function(i,h){var g=this.viewRange(i,h);_.each(g,function(j){j.select()});return g},getSelectedViews:function(){return _.filter(this.views,function(g){return g.selected})},getSelectedModels:function(){return new this.collection.constructor(_.map(this.getSelectedViews(),function(g){return g.model}))},_showLoadingIndicator:function(h,g,i){this.debug("_showLoadingIndicator",this.indicator,h,g,i);g=(g!==undefined)?(g):(this.fxSpeed);if(!this.indicator){this.indicator=new f(this.$el,this.$el.parent());this.debug("\t created",this.indicator)}if(!this.$el.is(":visible")){this.indicator.show(0,i)}else{this.$el.fadeOut(g);this.indicator.show(h,g,i)}},_hideLoadingIndicator:function(g,h){this.debug("_hideLoadingIndicator",this.indicator,g,h);g=(g!==undefined)?(g):(this.fxSpeed);if(this.indicator){this.indicator.hide(g,h)}},scrollPosition:function(){return this.$scrollContainer().scrollTop()},scrollTo:function(h,g){g=g||0;this.$scrollContainer().animate({scrollTop:h},g);return this},scrollToTop:function(g){return this.scrollTo(0,g)},scrollToItem:function(g,i){if(!g){return this}var h=g.$el.position().top;return this.scrollTo(h,i)},scrollToId:function(h,g){return this.scrollToItem(this.viewFromModelId(h),g)},events:{"click .select-all":"selectAll","click .deselect-all":"deselectAll"},toString:function(){return"ListPanel("+this.collection+")"}});e.prototype.templates=(function(){var h=b.wrapTemplate(["<div>",'<div class="controls"></div>','<div class="list-items"></div>','<div class="empty-message infomessagesmall"></div>',"</div>"]);var g=b.wrapTemplate(['<div class="controls">','<div class="title">','<div class="name"><%= view.title %></div>',"</div>",'<div class="subtitle"><%= view.subtitle %></div>','<div class="actions"></div>','<div class="messages"></div>','<div class="search">','<div class="search-input"></div>',"</div>",'<div class="list-actions">','<div class="btn-group">','<button class="select-all btn btn-default"','data-mode="select">',c("All"),"</button>",'<button class="deselect-all btn btn-default"','data-mode="select">',c("None"),"</button>","</div>","</div>","</div>"]);return{el:h,controls:g}}());var a=e.extend({modelCollectionKey:"contents",initialize:function(g){e.prototype.initialize.call(this,g);this.selecting=(g.selecting!==undefined)?g.selecting:false;this.setModel(this.model,g)},setModel:function(h,g){g=g||{};this.debug(this+".setModel:",h,g);this.freeModel();this.freeViews();if(h){var i=this.model?this.model.get("id"):null;this.model=h;if(this.logger){this.model.logger=this.logger}this._setUpModelListeners();this.collection.off();this.collection=(this.model[this.modelCollectionKey])?this.model[this.modelCollectionKey]:(g.collection||(new this.collectionClass([])));this._setUpCollectionListeners();if(i&&h.get("id")!==i){this.trigger("new-model",this)}}return this},freeModel:function(){if(this.model){this.stopListening(this.model)}return this},_setUpModelListeners:function(){this.log(this+"._setUpModelListeners",this.model);this.model.on("error",function(){this.trigger.apply(panel,arguments)},this);return this},_renderControls:function(h){this.debug(this+"(ListPanel)._renderControls");var i=this.model?this.model.toJSON():{},g=$(this.templates.controls(i,this));h.find(".controls").replaceWith(g);return g},toString:function(){return"ModelListPanel("+this.model+")"}});a.prototype.templates=(function(){var g=b.wrapTemplate(['<div class="controls">','<div class="title">','<div class="name"><%= model.name %></div>',"</div>",'<div class="subtitle"><%= view.subtitle %></div>','<div class="actions"></div>','<div class="messages"></div>','<div class="search">','<div class="search-input"></div>',"</div>",'<div class="list-actions">','<div class="btn-group">','<button class="select-all btn btn-default"','data-mode="select">',c("All"),"</button>",'<button class="deselect-all btn btn-default"','data-mode="select">',c("None"),"</button>","</div>","</div>","</div>"]);return _.extend(_.clone(e.prototype.templates),{controls:g})}());return{ListPanel:e,ModelListPanel:a}}); \ No newline at end of file diff -r be3f185f9e75c4a7fc8ecf689ad0d26b98275026 -r 558cfd39bb3fc40486c894b77b55143785c0a0b6 static/scripts/packed/mvc/ui.js --- a/static/scripts/packed/mvc/ui.js +++ b/static/scripts/packed/mvc/ui.js @@ -1,1 +1,1 @@ -var IconButton=Backbone.Model.extend({defaults:{title:"",icon_class:"",on_click:null,menu_options:null,is_menu_button:true,id:null,href:null,target:null,enabled:true,visible:true,tooltip_config:{}}});var IconButtonView=Backbone.View.extend({initialize:function(){this.model.attributes.tooltip_config={placement:"bottom"};this.model.bind("change",this.render,this)},render:function(){this.$el.tooltip("hide");var a=this.template(this.model.toJSON());a.tooltip(this.model.get("tooltip_config"));this.$el.replaceWith(a);this.setElement(a);return this},events:{click:"click"},click:function(a){if(_.isFunction(this.model.get("on_click"))){this.model.get("on_click")(a);return false}return true},template:function(b){var a='title="'+b.title+'" class="icon-button';if(b.is_menu_button){a+=" menu-button"}a+=" "+b.icon_class;if(!b.enabled){a+="_disabled"}a+='"';if(b.id){a+=' id="'+b.id+'"'}a+=' href="'+b.href+'"';if(b.target){a+=' target="'+b.target+'"'}if(!b.visible){a+=' style="display: none;"'}if(b.enabled){a="<a "+a+"/>"}else{a="<span "+a+"/>"}return $(a)}});var IconButtonCollection=Backbone.Collection.extend({model:IconButton});var IconButtonMenuView=Backbone.View.extend({tagName:"div",initialize:function(){this.render()},render:function(){var a=this;this.collection.each(function(d){var b=$("<a/>").attr("href","javascript:void(0)").attr("title",d.attributes.title).addClass("icon-button menu-button").addClass(d.attributes.icon_class).appendTo(a.$el).click(d.attributes.on_click);if(d.attributes.tooltip_config){b.tooltip(d.attributes.tooltip_config)}var c=d.get("options");if(c){make_popupmenu(b,c)}});return this}});var create_icon_buttons_menu=function(b,a){if(!a){a={}}var c=new IconButtonCollection(_.map(b,function(d){return new IconButton(_.extend(d,a))}));return new IconButtonMenuView({collection:c})};var Grid=Backbone.Collection.extend({});var GridView=Backbone.View.extend({});var PopupMenu=Backbone.View.extend({initialize:function(b,a){this.$button=b;if(!this.$button.size()){this.$button=$("<div/>")}this.options=a||[];var c=this;this.$button.click(function(d){$(".popmenu-wrapper").remove();c._renderAndShow(d);return false})},_renderAndShow:function(a){this.render();this.$el.appendTo("body").css(this._getShownPosition(a)).show();this._setUpCloseBehavior()},render:function(){this.$el.addClass("popmenu-wrapper").hide().css({position:"absolute"}).html(this.template(this.$button.attr("id"),this.options));if(this.options.length){var a=this;this.$el.find("li").each(function(c,b){var d=a.options[c];if(d.func){$(this).children("a.popupmenu-option").click(function(e){d.func.call(a,e,d)})}})}return this},template:function(b,a){return['<ul id="',b,'-menu" class="dropdown-menu">',this._templateOptions(a),"</ul>"].join("")},_templateOptions:function(a){if(!a.length){return"<li>(no options)</li>"}return _.map(a,function(d){if(d.divider){return'<li class="divider"></li>'}else{if(d.header){return['<li class="head"><a href="javascript:void(0);">',d.html,"</a></li>"].join("")}}var c=d.href||"javascript:void(0);",e=(d.target)?(' target="'+d.target+'"'):(""),b=(d.checked)?('<span class="fa fa-check"></span>'):("");return['<li><a class="popupmenu-option" href="',c,'"',e,">",b,d.html,"</a></li>"].join("")}).join("")},_getShownPosition:function(b){var c=this.$el.width();var a=b.pageX-c/2;a=Math.min(a,$(document).scrollLeft()+$(window).width()-c-5);a=Math.max(a,$(document).scrollLeft()+5);return{top:b.pageY,left:a}},_setUpCloseBehavior:function(){var c=this;function a(e){$(document).off("click.close_popup");if(window.parent!==window){try{$(window.parent.document).off("click.close_popup")}catch(d){}}else{try{$("iframe#galaxy_main").contents().off("click.close_popup")}catch(d){}}c.remove()}$("html").one("click.close_popup",a);if(window.parent!==window){try{$(window.parent.document).find("html").one("click.close_popup",a)}catch(b){}}else{try{$("iframe#galaxy_main").contents().one("click.close_popup",a)}catch(b){}}},addItem:function(b,a){a=(a>=0)?a:this.options.length;this.options.splice(a,0,b);return this},removeItem:function(a){if(a>=0){this.options.splice(a,1)}return this},findIndexByHtml:function(b){for(var a=0;a<this.options.length;a++){if(_.has(this.options[a],"html")&&(this.options[a].html===b)){return a}}return null},findItemByHtml:function(a){return this.options[(this.findIndexByHtml(a))]},toString:function(){return"PopupMenu"}});PopupMenu.create=function _create(b,a){return new PopupMenu(b,a)};PopupMenu.make_popupmenu=function(b,c){var a=[];_.each(c,function(f,d){var e={html:d};if(f===null){e.header=true}else{if(jQuery.type(f)==="function"){e.func=f}}a.push(e)});return new PopupMenu($(b),a)};PopupMenu.convertLinksToOptions=function(c,a){c=$(c);a=a||"a";var b=[];c.find(a).each(function(g,e){var f={},d=$(g);f.html=d.text();if(d.attr("href")){var j=d.attr("href"),k=d.attr("target"),h=d.attr("confirm");f.func=function(){if((h)&&(!confirm(h))){return}switch(k){case"_parent":window.parent.location=j;break;case"_top":window.top.location=j;break;default:window.location=j}}}b.push(f)});return b};PopupMenu.fromExistingDom=function(d,c,a){d=$(d);c=$(c);var b=PopupMenu.convertLinksToOptions(c,a);c.remove();return new PopupMenu(d,b)};PopupMenu.make_popup_menus=function(c,b,d){c=c||document;b=b||"div[popupmenu]";d=d||function(e,f){return"#"+e.attr("popupmenu")};var a=[];$(c).find(b).each(function(){var e=$(this),f=$(c).find(d(e,c));a.push(PopupMenu.fromDom(f,e));f.addClass("popup")});return a};var faIconButton=function(a){a=a||{};a.tooltipConfig=a.tooltipConfig||{placement:"bottom"};a.classes=["icon-btn"].concat(a.classes||[]);if(a.disabled){a.classes.push("disabled")}var b=['<a class="',a.classes.join(" "),'"',((a.title)?(' title="'+a.title+'"'):("")),((!a.disabled&&a.target)?(' target="'+a.target+'"'):("")),' href="',((!a.disabled&&a.href)?(a.href):("javascript:void(0);")),'">','<span class="fa ',a.faIcon,'"></span>',"</a>"].join("");var c=$(b).tooltip(a.tooltipConfig);if(_.isFunction(a.onclick)){c.click(a.onclick)}return c};function LoadingIndicator(a,c){var b=this;c=jQuery.extend({cover:false},c||{});function d(){var e=['<div class="loading-indicator">','<div class="loading-indicator-text">','<span class="fa fa-spinner fa-spin fa-lg"></span>','<span class="loading-indicator-message">loading...</span>',"</div>","</div>"].join("\n");var g=$(e).hide().css(c.css||{position:"fixed"}),f=g.children(".loading-indicator-text");if(c.cover){g.css({"z-index":2,top:a.css("top"),bottom:a.css("bottom"),left:a.css("left"),right:a.css("right"),opacity:0.5,"background-color":"white","text-align":"center"});f=g.children(".loading-indicator-text").css({"margin-top":"20px"})}else{f=g.children(".loading-indicator-text").css({margin:"12px 0px 0px 10px",opacity:"0.85",color:"grey"});f.children(".loading-indicator-message").css({margin:"0px 8px 0px 0px","font-style":"italic"})}return g}b.show=function(f,e,g){f=f||"loading...";e=e||"fast";a.parent().find(".loading-indicator").remove();b.$indicator=d().insertBefore(a);b.message(f);b.$indicator.fadeIn(e,g);return b};b.message=function(e){b.$indicator.find("i").text(e)};b.hide=function(e,f){e=e||"fast";if(b.$indicator&&b.$indicator.size()){b.$indicator.fadeOut(e,function(){b.$indicator.remove();if(f){f()}})}else{if(f){f()}}return b};return b}; \ No newline at end of file +var IconButton=Backbone.Model.extend({defaults:{title:"",icon_class:"",on_click:null,menu_options:null,is_menu_button:true,id:null,href:null,target:null,enabled:true,visible:true,tooltip_config:{}}});var IconButtonView=Backbone.View.extend({initialize:function(){this.model.attributes.tooltip_config={placement:"bottom"};this.model.bind("change",this.render,this)},render:function(){this.$el.tooltip("hide");var a=this.template(this.model.toJSON());a.tooltip(this.model.get("tooltip_config"));this.$el.replaceWith(a);this.setElement(a);return this},events:{click:"click"},click:function(a){if(_.isFunction(this.model.get("on_click"))){this.model.get("on_click")(a);return false}return true},template:function(b){var a='title="'+b.title+'" class="icon-button';if(b.is_menu_button){a+=" menu-button"}a+=" "+b.icon_class;if(!b.enabled){a+="_disabled"}a+='"';if(b.id){a+=' id="'+b.id+'"'}a+=' href="'+b.href+'"';if(b.target){a+=' target="'+b.target+'"'}if(!b.visible){a+=' style="display: none;"'}if(b.enabled){a="<a "+a+"/>"}else{a="<span "+a+"/>"}return $(a)}});var IconButtonCollection=Backbone.Collection.extend({model:IconButton});var IconButtonMenuView=Backbone.View.extend({tagName:"div",initialize:function(){this.render()},render:function(){var a=this;this.collection.each(function(d){var b=$("<a/>").attr("href","javascript:void(0)").attr("title",d.attributes.title).addClass("icon-button menu-button").addClass(d.attributes.icon_class).appendTo(a.$el).click(d.attributes.on_click);if(d.attributes.tooltip_config){b.tooltip(d.attributes.tooltip_config)}var c=d.get("options");if(c){make_popupmenu(b,c)}});return this}});var create_icon_buttons_menu=function(b,a){if(!a){a={}}var c=new IconButtonCollection(_.map(b,function(d){return new IconButton(_.extend(d,a))}));return new IconButtonMenuView({collection:c})};var Grid=Backbone.Collection.extend({});var GridView=Backbone.View.extend({});var PopupMenu=Backbone.View.extend({initialize:function(b,a){this.$button=b;if(!this.$button.size()){this.$button=$("<div/>")}this.options=a||[];var c=this;this.$button.click(function(d){$(".popmenu-wrapper").remove();c._renderAndShow(d);return false})},_renderAndShow:function(a){this.render();this.$el.appendTo("body").css(this._getShownPosition(a)).show();this._setUpCloseBehavior()},render:function(){this.$el.addClass("popmenu-wrapper").hide().css({position:"absolute"}).html(this.template(this.$button.attr("id"),this.options));if(this.options.length){var a=this;this.$el.find("li").each(function(c,b){var d=a.options[c];if(d.func){$(this).children("a.popupmenu-option").click(function(e){d.func.call(a,e,d)})}})}return this},template:function(b,a){return['<ul id="',b,'-menu" class="dropdown-menu">',this._templateOptions(a),"</ul>"].join("")},_templateOptions:function(a){if(!a.length){return"<li>(no options)</li>"}return _.map(a,function(d){if(d.divider){return'<li class="divider"></li>'}else{if(d.header){return['<li class="head"><a href="javascript:void(0);">',d.html,"</a></li>"].join("")}}var c=d.href||"javascript:void(0);",e=(d.target)?(' target="'+d.target+'"'):(""),b=(d.checked)?('<span class="fa fa-check"></span>'):("");return['<li><a class="popupmenu-option" href="',c,'"',e,">",b,d.html,"</a></li>"].join("")}).join("")},_getShownPosition:function(b){var c=this.$el.width();var a=b.pageX-c/2;a=Math.min(a,$(document).scrollLeft()+$(window).width()-c-5);a=Math.max(a,$(document).scrollLeft()+5);return{top:b.pageY,left:a}},_setUpCloseBehavior:function(){var c=this;function a(e){$(document).off("click.close_popup");if(window.parent!==window){try{$(window.parent.document).off("click.close_popup")}catch(d){}}else{try{$("iframe#galaxy_main").contents().off("click.close_popup")}catch(d){}}c.remove()}$("html").one("click.close_popup",a);if(window.parent!==window){try{$(window.parent.document).find("html").one("click.close_popup",a)}catch(b){}}else{try{$("iframe#galaxy_main").contents().one("click.close_popup",a)}catch(b){}}},addItem:function(b,a){a=(a>=0)?a:this.options.length;this.options.splice(a,0,b);return this},removeItem:function(a){if(a>=0){this.options.splice(a,1)}return this},findIndexByHtml:function(b){for(var a=0;a<this.options.length;a++){if(_.has(this.options[a],"html")&&(this.options[a].html===b)){return a}}return null},findItemByHtml:function(a){return this.options[(this.findIndexByHtml(a))]},toString:function(){return"PopupMenu"}});PopupMenu.create=function _create(b,a){return new PopupMenu(b,a)};PopupMenu.make_popupmenu=function(b,c){var a=[];_.each(c,function(f,d){var e={html:d};if(f===null){e.header=true}else{if(jQuery.type(f)==="function"){e.func=f}}a.push(e)});return new PopupMenu($(b),a)};PopupMenu.convertLinksToOptions=function(c,a){c=$(c);a=a||"a";var b=[];c.find(a).each(function(g,e){var f={},d=$(g);f.html=d.text();if(d.attr("href")){var j=d.attr("href"),k=d.attr("target"),h=d.attr("confirm");f.func=function(){if((h)&&(!confirm(h))){return}switch(k){case"_parent":window.parent.location=j;break;case"_top":window.top.location=j;break;default:window.location=j}}}b.push(f)});return b};PopupMenu.fromExistingDom=function(d,c,a){d=$(d);c=$(c);var b=PopupMenu.convertLinksToOptions(c,a);c.remove();return new PopupMenu(d,b)};PopupMenu.make_popup_menus=function(c,b,d){c=c||document;b=b||"div[popupmenu]";d=d||function(e,f){return"#"+e.attr("popupmenu")};var a=[];$(c).find(b).each(function(){var e=$(this),f=$(c).find(d(e,c));a.push(PopupMenu.fromDom(f,e));f.addClass("popup")});return a};var faIconButton=function(a){a=a||{};a.tooltipConfig=a.tooltipConfig||{placement:"bottom"};a.classes=["icon-btn"].concat(a.classes||[]);if(a.disabled){a.classes.push("disabled")}var b=['<a class="',a.classes.join(" "),'"',((a.title)?(' title="'+a.title+'"'):("")),((!a.disabled&&a.target)?(' target="'+a.target+'"'):("")),' href="',((!a.disabled&&a.href)?(a.href):("javascript:void(0);")),'">','<span class="fa ',a.faIcon,'"></span>',"</a>"].join("");var c=$(b).tooltip(a.tooltipConfig);if(_.isFunction(a.onclick)){c.click(a.onclick)}return c}; \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. 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