[galaxy-commits] commit/galaxy-central: carlfeberhard: History API: remove set_as_current, api/histories/current, and POST api/histories with current == True (create new current history), replace with controllers/history/set_as_current, current_history_json, and create_new_current (respectively) - all returning json; add exceptions.DeprecatedMethod; pack scripts

2 Sep 2014

1 new commit in galaxy-central:

https://bitbucket.org/galaxy/galaxy-central/commits/5ce55f9f2923/
Changeset:   5ce55f9f2923
User:        carlfeberhard
Date:        2014-09-02 19:26:47
Summary:     History API: remove set_as_current, api/histories/current, and POST api/histories with current == True (create new current history), replace with controllers/history/set_as_current, current_history_json, and create_new_current (respectively) - all returning json; add exceptions.DeprecatedMethod; pack scripts
Affected #:  16 files

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 lib/galaxy/exceptions/__init__.py

--- a/lib/galaxy/exceptions/__init__.py
+++ b/lib/galaxy/exceptions/__init__.py
@@ -127,6 +127,14 @@
     status_code = 404
     err_code = error_codes.USER_OBJECT_NOT_FOUND
 
+class DeprecatedMethod( MessageException ):
+    """
+    Method (or a particular form/arg signature) has been removed and won't be available later
+    """
+    status_code = 404
+    #TODO:?? 410 Gone?
+    err_code = error_codes.DEPRECATED_API_CALL
+
 
 class Conflict( MessageException ):
     status_code = 409

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 lib/galaxy/exceptions/error_codes.json
--- a/lib/galaxy/exceptions/error_codes.json
+++ b/lib/galaxy/exceptions/error_codes.json
@@ -67,7 +67,7 @@
    {
     "name": "USER_NO_API_KEY",
     "code": 403001,
-    "message": "API authentication required for this request"
+    "message": "Authentication required for this request"
     },
    {
     "name": "USER_CANNOT_ACCESS_ITEM",
@@ -100,6 +100,11 @@
     "message": "No such object found."
    },   
    {
+    "name": "DEPRECATED_API_CALL",
+    "code": 404002,
+    "message": "This API method or call signature has been deprecated and is no longer available"
+   },
+   {
     "name": "CONFLICT",
     "code": 409001,
     "message": "Database conflict prevented fulfilling the request."

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 lib/galaxy/web/framework/__init__.py
--- a/lib/galaxy/web/framework/__init__.py
+++ b/lib/galaxy/web/framework/__init__.py
@@ -63,7 +63,10 @@
     'hgw8.cse.ucsc.edu',
 )
 
+JSON_CONTENT_TYPE = "application/json"
 
+
+# ----------------------------------------------------------------------------- web controller decorators
 def expose( func ):
     """
     Decorator: mark a function as 'exposed' and thus web accessible
@@ -71,28 +74,25 @@
     func.exposed = True
     return func
 
-
-def json( func ):
+def json( func, **json_kwargs ):
+    """
+    Format the response as JSON and set the response content type to
+    JSON_CONTENT_TYPE.
+    """
     @wraps(func)
-    def decorator( self, trans, *args, **kwargs ):
-        trans.response.set_content_type( "text/javascript" )
-        return to_json_string( func( self, trans, *args, **kwargs ) )
+    def call_and_format( self, trans, *args, **kwargs ):
+        trans.response.set_content_type( JSON_CONTENT_TYPE )
+        return to_json_string( func( self, trans, *args, **kwargs ), **json_kwargs )
     if not hasattr(func, '_orig'):
-        decorator._orig = func
-    decorator.exposed = True
-    return decorator
-
+        call_and_format._orig = func
+    call_and_format.exposed = True
+    return call_and_format
 
 def json_pretty( func ):
-    @wraps(func)
-    def decorator( self, trans, *args, **kwargs ):
-        trans.response.set_content_type( "text/javascript" )
-        return to_json_string( func( self, trans, *args, **kwargs ), indent=4, sort_keys=True )
-    if not hasattr(func, '_orig'):
-        decorator._orig = func
-    decorator.exposed = True
-    return decorator
-
+    """
+    Indent and sort returned JSON.
+    """
+    return json( func, indent=4, sort_keys=True )
 
 def require_login( verb="perform this action", use_panels=False, webapp='galaxy' ):
     def argcatcher( func ):
@@ -107,59 +107,26 @@
         return decorator
     return argcatcher
 
+def require_admin( func ):
+    @wraps(func)
+    def decorator( self, trans, *args, **kwargs ):
+        if not trans.user_is_admin():
+            msg = "You must be an administrator to access this feature."
+            user = trans.get_user()
+            if not trans.app.config.admin_users_list:
+                msg = "You must be logged in as an administrator to access this feature, but no administrators are set in the Galaxy configuration."
+            elif not user:
+                msg = "You must be logged in as an administrator to access this feature."
+            trans.response.status = 403
+            if trans.response.get_content_type() == 'application/json':
+                return msg
+            else:
+                return trans.show_error_message( msg )
+        return func( self, trans, *args, **kwargs )
+    return decorator
 
-def __extract_payload_from_request(trans, func, kwargs):
-    content_type = trans.request.headers['content-type']
-    if content_type.startswith('application/x-www-form-urlencoded') or content_type.startswith('multipart/form-data'):
-        # If the content type is a standard type such as multipart/form-data, the wsgi framework parses the request body
-        # and loads all field values into kwargs. However, kwargs also contains formal method parameters etc. which
-        # are not a part of the request body. This is a problem because it's not possible to differentiate between values
-        # which are a part of the request body, and therefore should be a part of the payload, and values which should not be
-        # in the payload. Therefore, the decorated method's formal arguments are discovered through reflection and removed from
-        # the payload dictionary. This helps to prevent duplicate argument conflicts in downstream methods.
-        payload = kwargs.copy()
-        named_args, _, _, _ = inspect.getargspec(func)
-        for arg in named_args:
-            payload.pop(arg, None)
-        for k, v in payload.iteritems():
-            if isinstance(v, (str, unicode)):
-                try:
-                    payload[k] = from_json_string(v)
-                except:
-                    # may not actually be json, just continue
-                    pass
-        payload = util.recursively_stringify_dictionary_keys( payload )
-    else:
-        # Assume application/json content type and parse request body manually, since wsgi won't do it. However, the order of this check
-        # should ideally be in reverse, with the if clause being a check for application/json and the else clause assuming a standard encoding
-        # such as multipart/form-data. Leaving it as is for backward compatibility, just in case.
-        payload = util.recursively_stringify_dictionary_keys( from_json_string( trans.request.body ) )
-    return payload
 
-
-def expose_api_raw( func ):
-    """
-    Expose this function via the API but don't dump the results
-    to JSON.
-    """
-    return expose_api( func, to_json=False )
-
-
-def expose_api_raw_anonymous( func ):
-    """
-    Expose this function via the API but don't dump the results
-    to JSON.
-    """
-    return expose_api( func, to_json=False, user_required=False )
-
-
-def expose_api_anonymous( func, to_json=True ):
-    """
-    Expose this function via the API but don't require a set user.
-    """
-    return expose_api( func, to_json=to_json, user_required=False )
-
-
+# ----------------------------------------------------------------------------- (original) api decorators
 def expose_api( func, to_json=True, user_required=True ):
     """
     Expose this function via the API.
@@ -219,76 +186,56 @@
     decorator.exposed = True
     return decorator
 
-API_RESPONSE_CONTENT_TYPE = "application/json"
+def __extract_payload_from_request(trans, func, kwargs):
+    content_type = trans.request.headers['content-type']
+    if content_type.startswith('application/x-www-form-urlencoded') or content_type.startswith('multipart/form-data'):
+        # If the content type is a standard type such as multipart/form-data, the wsgi framework parses the request body
+        # and loads all field values into kwargs. However, kwargs also contains formal method parameters etc. which
+        # are not a part of the request body. This is a problem because it's not possible to differentiate between values
+        # which are a part of the request body, and therefore should be a part of the payload, and values which should not be
+        # in the payload. Therefore, the decorated method's formal arguments are discovered through reflection and removed from
+        # the payload dictionary. This helps to prevent duplicate argument conflicts in downstream methods.
+        payload = kwargs.copy()
+        named_args, _, _, _ = inspect.getargspec(func)
+        for arg in named_args:
+            payload.pop(arg, None)
+        for k, v in payload.iteritems():
+            if isinstance(v, (str, unicode)):
+                try:
+                    payload[k] = from_json_string(v)
+                except:
+                    # may not actually be json, just continue
+                    pass
+        payload = util.recursively_stringify_dictionary_keys( payload )
+    else:
+        # Assume application/json content type and parse request body manually, since wsgi won't do it. However, the order of this check
+        # should ideally be in reverse, with the if clause being a check for application/json and the else clause assuming a standard encoding
+        # such as multipart/form-data. Leaving it as is for backward compatibility, just in case.
+        payload = util.recursively_stringify_dictionary_keys( from_json_string( trans.request.body ) )
+    return payload
 
+def expose_api_raw( func ):
+    """
+    Expose this function via the API but don't dump the results
+    to JSON.
+    """
+    return expose_api( func, to_json=False )
 
-def __api_error_message( trans, **kwds ):
-    exception = kwds.get( "exception", None )
-    if exception:
-        # If we are passed a MessageException use err_msg.
-        default_error_code = getattr( exception, "err_code", error_codes.UNKNOWN )
-        default_error_message = getattr( exception, "err_msg", default_error_code.default_error_message )
-        extra_error_info = getattr( exception, 'extra_error_info', {} )
-        if not isinstance( extra_error_info, dict ):
-            extra_error_info = {}
-    else:
-        default_error_message = "Error processing API request."
-        default_error_code = error_codes.UNKNOWN
-        extra_error_info = {}
-    traceback_string = kwds.get( "traceback", "No traceback available." )
-    err_msg = kwds.get( "err_msg", default_error_message )
-    error_code_object = kwds.get( "err_code", default_error_code )
-    try:
-        error_code = error_code_object.code
-    except AttributeError:
-        # Some sort of bad error code sent in, logic failure on part of
-        # Galaxy developer.
-        error_code = error_codes.UNKNOWN.code
-    # Would prefer the terminology of error_code and error_message, but
-    # err_msg used a good number of places already. Might as well not change
-    # it?
-    error_response = dict( err_msg=err_msg, err_code=error_code, **extra_error_info )
-    if trans.debug:  # TODO: Should admins get to see traceback as well?
-        error_response[ "traceback" ] = traceback_string
-    return error_response
+def expose_api_raw_anonymous( func ):
+    """
+    Expose this function via the API but don't dump the results
+    to JSON.
+    """
+    return expose_api( func, to_json=False, user_required=False )
 
-
-def __api_error_response( trans, **kwds ):
-    error_dict = __api_error_message( trans, **kwds )
-    exception = kwds.get( "exception", None )
-    # If we are given an status code directly - use it - otherwise check
-    # the exception for a status_code attribute.
-    if "status_code" in kwds:
-        status_code = int( kwds.get( "status_code" ) )
-    elif hasattr( exception, "status_code" ):
-        status_code = int( exception.status_code )
-    else:
-        status_code = 500
-    response = trans.response
-    if not response.status or str(response.status).startswith("20"):
-        # Unset status code appears to be string '200 OK', if anything
-        # non-success (i.e. not 200 or 201) has been set, do not override
-        # underlying controller.
-        response.status = status_code
-    return to_json_string( error_dict )
-
-
-# TODO: rename as expose_api and make default.
-def _future_expose_api_anonymous( func, to_json=True ):
+def expose_api_anonymous( func, to_json=True ):
     """
     Expose this function via the API but don't require a set user.
     """
-    return _future_expose_api( func, to_json=to_json, user_required=False )
+    return expose_api( func, to_json=to_json, user_required=False )
 
 
-def _future_expose_api_raw( func ):
-    return _future_expose_api( func, to_json=False, user_required=True )
-
-
-def _future_expose_api_raw_anonymous( func ):
-    return _future_expose_api( func, to_json=False, user_required=False )
-
-
+# ----------------------------------------------------------------------------- (new) api decorators
 # TODO: rename as expose_api and make default.
 def _future_expose_api( func, to_json=True, user_required=True ):
     """
@@ -312,7 +259,7 @@
                 error_code = error_codes.USER_INVALID_JSON
                 return __api_error_response( trans, status_code=400, err_code=error_code )
 
-        trans.response.set_content_type( API_RESPONSE_CONTENT_TYPE )
+        trans.response.set_content_type( JSON_CONTENT_TYPE )
         # send 'do not cache' headers to handle IE's caching of ajax get responses
         trans.response.headers[ 'Cache-Control' ] = "max-age=0,no-cache,no-store"
         # TODO: Refactor next block out into a helper procedure.
@@ -364,24 +311,72 @@
     decorator.exposed = True
     return decorator
 
+def __api_error_message( trans, **kwds ):
+    exception = kwds.get( "exception", None )
+    if exception:
+        # If we are passed a MessageException use err_msg.
+        default_error_code = getattr( exception, "err_code", error_codes.UNKNOWN )
+        default_error_message = getattr( exception, "err_msg", default_error_code.default_error_message )
+        extra_error_info = getattr( exception, 'extra_error_info', {} )
+        if not isinstance( extra_error_info, dict ):
+            extra_error_info = {}
+    else:
+        default_error_message = "Error processing API request."
+        default_error_code = error_codes.UNKNOWN
+        extra_error_info = {}
+    traceback_string = kwds.get( "traceback", "No traceback available." )
+    err_msg = kwds.get( "err_msg", default_error_message )
+    error_code_object = kwds.get( "err_code", default_error_code )
+    try:
+        error_code = error_code_object.code
+    except AttributeError:
+        # Some sort of bad error code sent in, logic failure on part of
+        # Galaxy developer.
+        error_code = error_codes.UNKNOWN.code
+    # Would prefer the terminology of error_code and error_message, but
+    # err_msg used a good number of places already. Might as well not change
+    # it?
+    error_response = dict( err_msg=err_msg, err_code=error_code, **extra_error_info )
+    if trans.debug:  # TODO: Should admins get to see traceback as well?
+        error_response[ "traceback" ] = traceback_string
+    return error_response
 
-def require_admin( func ):
-    @wraps(func)
-    def decorator( self, trans, *args, **kwargs ):
-        if not trans.user_is_admin():
-            msg = "You must be an administrator to access this feature."
-            user = trans.get_user()
-            if not trans.app.config.admin_users_list:
-                msg = "You must be logged in as an administrator to access this feature, but no administrators are set in the Galaxy configuration."
-            elif not user:
-                msg = "You must be logged in as an administrator to access this feature."
-            trans.response.status = 403
-            if trans.response.get_content_type() == 'application/json':
-                return msg
-            else:
-                return trans.show_error_message( msg )
-        return func( self, trans, *args, **kwargs )
-    return decorator
+def __api_error_response( trans, **kwds ):
+    error_dict = __api_error_message( trans, **kwds )
+    exception = kwds.get( "exception", None )
+    # If we are given an status code directly - use it - otherwise check
+    # the exception for a status_code attribute.
+    if "status_code" in kwds:
+        status_code = int( kwds.get( "status_code" ) )
+    elif hasattr( exception, "status_code" ):
+        status_code = int( exception.status_code )
+    else:
+        status_code = 500
+    response = trans.response
+    if not response.status or str(response.status).startswith("20"):
+        # Unset status code appears to be string '200 OK', if anything
+        # non-success (i.e. not 200 or 201) has been set, do not override
+        # underlying controller.
+        response.status = status_code
+    return to_json_string( error_dict )
+
+
+# TODO: rename as expose_api and make default.
+def _future_expose_api_anonymous( func, to_json=True ):
+    """
+    Expose this function via the API but don't require a set user.
+    """
+    return _future_expose_api( func, to_json=to_json, user_required=False )
+
+
+def _future_expose_api_raw( func ):
+    return _future_expose_api( func, to_json=False, user_required=True )
+
+
+def _future_expose_api_raw_anonymous( func ):
+    return _future_expose_api( func, to_json=False, user_required=False )
+
+
 
 NOT_SET = object()
 

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 lib/galaxy/webapps/galaxy/api/histories.py
--- a/lib/galaxy/webapps/galaxy/api/histories.py
+++ b/lib/galaxy/webapps/galaxy/api/histories.py
@@ -84,13 +84,9 @@
             return the deleted history with ``id``
         * GET /api/histories/most_recently_used:
             return the most recently used history
-        * GET /api/histories/current:
-            return the current (working) history
-        .. note:: Anonymous users are allowed to get their current history
 
         :type   id:      an encoded id string
-        :param  id:      the encoded id of the history to query
-            or the string 'most_recently_used' or the string 'current'
+        :param  id:      the encoded id of the history to query or the string 'most_recently_used'
         :type   deleted: boolean
         :param  deleted: if True, allow information on a deleted history to be shown.
 
@@ -107,9 +103,6 @@
             # Most recent active history for user sessions, not deleted
             history = trans.user.galaxy_sessions[0].histories[-1].history
 
-        elif history_id == "current":
-            history = trans.get_history( create=True )
-
         else:
             history = self.mgrs.histories.get( trans, self._decode_id( trans, history_id ),
                                                check_ownership=False, check_accessible=True, deleted=deleted )
@@ -133,30 +126,6 @@
         return map( lambda citation: citation.to_dict( "bibtex" ), self.citations_manager.citations_for_tool_ids( tool_ids ) )
 
     @expose_api
-    def set_as_current( self, trans, id, **kwd ):
-        """
-        set_as_current( trans, id, **kwd )
-        * PUT /api/histories/{id}/set_as_current:
-            set the history with ``id`` to the user's current history and return details
-
-        :type   id:      an encoded id string
-        :param  id:      the encoded id of the history to query or the string 'most_recently_used'
-
-        :rtype:     dictionary
-        :returns:   detailed history information from
-            :func:`galaxy.web.base.controller.UsesHistoryDatasetAssociationMixin.get_history_dict`
-        """
-        # added as a non-ATOM API call to support the notion of a 'current/working' history
-        #   - unique to the history resource
-        history_id = id
-        history = self.mgrs.histories.get( trans, self._decode_id( trans, history_id ),
-            check_ownership=True, check_accessible=True )
-        trans.history = history
-        history_data = self.get_history_dict( trans, history )
-        history_data[ 'contents_url' ] = url_for( 'history_contents', history_id=history_id )
-        return history_data
-
-    @expose_api
     def create( self, trans, payload, **kwd ):
         """
         create( trans, payload )
@@ -166,8 +135,6 @@
         :type   payload: dict
         :param  payload: (optional) dictionary structure containing:
             * name:             the new history's name
-            * current:          if passed, set the new history to be the user's
-                                'current' history
             * history_id:       the id of the history to copy
             * archive_source:   the url that will generate the archive to import
             * archive_type:     'url' (default)
@@ -178,8 +145,6 @@
         hist_name = None
         if payload.get( 'name', None ):
             hist_name = restore_text( payload['name'] )
-        #TODO: possibly default to True here - but favor explicit for now (and backwards compat)
-        set_as_current = string_as_bool( payload[ 'current' ] ) if 'current' in payload else False
         copy_this_history_id = payload.get( 'history_id', None )
 
         if "archive_source" in payload:
@@ -202,8 +167,6 @@
 
         trans.sa_session.add( new_history )
         trans.sa_session.flush()
-        if set_as_current:
-            trans.history = new_history
 
         item = {}
         item = self.get_history_dict( trans, new_history )

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 lib/galaxy/webapps/galaxy/buildapp.py
--- a/lib/galaxy/webapps/galaxy/buildapp.py
+++ b/lib/galaxy/webapps/galaxy/buildapp.py
@@ -197,10 +197,6 @@
                                 controller='page_revisions',
                                 parent_resources=dict( member_name='page', collection_name='pages' ) )
 
-    # add as a non-ATOM API call to support the notion of a 'current/working' history unique to the history resource
-    webapp.mapper.connect( "set_as_current", "/api/histories/{id}/set_as_current",
-        controller="histories", action="set_as_current", conditions=dict( method=["PUT"] ) )
-
     webapp.mapper.connect( "history_archive_export", "/api/histories/{id}/exports",
         controller="histories", action="archive_export", conditions=dict( method=[ "PUT" ] ) )
     webapp.mapper.connect( "history_archive_download", "/api/histories/{id}/exports/{jeha_id}",

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 lib/galaxy/webapps/galaxy/controllers/history.py
--- a/lib/galaxy/webapps/galaxy/controllers/history.py
+++ b/lib/galaxy/webapps/galaxy/controllers/history.py
@@ -1375,13 +1375,50 @@
             msg = 'Copied and created %d new histories.' % len( histories )
         return trans.show_ok_message( msg )
 
+
+    # ------------------------------------------------------------------------- current history
     @web.expose
     @web.require_login( "switch to a history" )
     def switch_to_history( self, trans, hist_id=None ):
-        history = self.get_history( trans, hist_id )
-        trans.set_history( history )
+        """
+        """
+        self.set_as_current( trans, id=hist_id )
         return trans.response.send_redirect( url_for( "/" ) )
 
     def get_item( self, trans, id ):
         return self.get_history( trans, id )
         #TODO: override of base ui controller?
+
+    def history_data( self, trans, history ):
+        """
+        """
+        #TODO: to manager
+        history_data = self.get_history_dict( trans, history )
+        encoded_history_id = trans.security.encode_id( history.id )
+        history_data[ 'contents_url' ] = url_for( 'history_contents', history_id=encoded_history_id )
+        return history_data
+
+    #TODO: combine these next two - poss. with a redirect flag
+    @web.require_login( "switch to a history" )
+    @web.json
+    def set_as_current( self, trans, id=None ):
+        """
+        """
+        history = self.get_history( trans, id )
+        trans.set_history( history )
+        return self.history_data( trans, history )
+
+    @web.json
+    def current_history_json( self, trans ):
+        """
+        """
+        history = trans.get_history( create=True )
+        return self.history_data( trans, history )
+
+    @web.json
+    def create_new_current( self, trans, name=None ):
+        """
+        """
+        return self.history_data( trans, trans.new_history( name ) )
+
+    #TODO: /history/current to do all of the above: if ajax, return json; if post, read id and set to current

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 static/scripts/mvc/history/history-model.js
--- a/static/scripts/mvc/history/history-model.js
+++ b/static/scripts/mvc/history/history-model.js
@@ -234,13 +234,16 @@
     options = options || {};
     var hdaDetailIds = options.hdaDetailIds || [];
     var hdcaDetailIds = options.hdcaDetailIds || [];
-    //this.debug( 'getHistoryData:', historyId, options );
+    //console.debug( 'getHistoryData:', historyId, options );
 
     var df = jQuery.Deferred(),
         historyJSON = null;
 
     function getHistory( id ){
         // get the history data
+        if( historyId === 'current' ){
+            return jQuery.getJSON( galaxy_config.root + 'history/current_history_json' );
+        }
         return jQuery.ajax( galaxy_config.root + 'api/histories/' + historyId );
     }
     function isEmpty( historyData ){

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 static/scripts/mvc/history/history-panel-edit-current.js
--- a/static/scripts/mvc/history/history-panel-edit-current.js
+++ b/static/scripts/mvc/history/history-panel-edit-current.js
@@ -1,9 +1,10 @@
 define([
+    "mvc/history/history-model",
     "mvc/history/history-panel-edit",
     "mvc/collection/collection-panel",
     "mvc/base-mvc",
     "utils/localization"
-], function( HPANEL_EDIT, DC_PANEL, BASE_MVC, _l ){
+], function( HISTORY_MODEL, HPANEL_EDIT, DC_PANEL, BASE_MVC, _l ){
 // ============================================================================
 /** session storage for history panel preferences (and to maintain state)
  */
@@ -74,6 +75,7 @@
     // ------------------------------------------------------------------------ loading history/hda models
     /** (re-)loads the user's current history & hdas w/ details */
     loadCurrentHistory : function( attributes ){
+        this.debug( this + '.loadCurrentHistory' );
         // implemented as a 'fresh start' or for when there is no model (intial panel render)
         var panel = this;
         return this.loadHistoryWithHDADetails( 'current', attributes )
@@ -88,10 +90,9 @@
         var panel = this,
             historyFn = function(){
                 // make this current and get history data with one call
-                return jQuery.ajax({
-                    url     : galaxy_config.root + 'api/histories/' + historyId + '/set_as_current',
-                    method  : 'PUT'
-                });
+                return jQuery.getJSON( galaxy_config.root + 'history/set_as_current?id=' + historyId  );
+                //    method  : 'PUT'
+                //});
             };
         return this.loadHistoryWithHDADetails( historyId, attributes, historyFn )
             .then(function( historyData, hdaData ){
@@ -107,9 +108,10 @@
         }
         var panel = this,
             historyFn = function(){
-                // get history data from posting a new history (and setting it to current)
-                return jQuery.post( galaxy_config.root + 'api/histories', { current: true });
+                // create a new history and save: the server will return the proper JSON
+                return jQuery.getJSON( galaxy_config.root + 'history/create_new_current'  );
             };
+
         // id undefined bc there is no historyId yet - the server will provide
         //  (no need for details - nothing expanded in new history)
         return this.loadHistory( undefined, attributes, historyFn )

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 static/scripts/mvc/history/history-panel.js
--- a/static/scripts/mvc/history/history-panel.js
+++ b/static/scripts/mvc/history/history-panel.js
@@ -273,10 +273,11 @@
     //NOTE: all the following fns replace the existing history model with a new model
     // (in the following 'details' refers to the full set of hda api data (urls, display_apps, misc_info, etc.)
     //  - hdas w/o details will have summary data only (name, hid, deleted, visible, state, etc.))
+//TODO: too tangled...
 
     /** loads a history & hdas w/ details (but does not make them the current history) */
     loadHistoryWithHDADetails : function( historyId, attributes, historyFn, hdaFn ){
-        //this.info( 'loadHistoryWithHDADetails:', historyId, attributes, historyFn, hdaFn );
+        this.info( 'loadHistoryWithHDADetails:', historyId, attributes, historyFn, hdaFn );
         var hdaDetailIds = function( historyData ){
                 // will be called to get hda ids that need details from the api
 //TODO: non-visible HDAs are getting details loaded... either stop loading them at all or filter ids thru isVisible
@@ -287,6 +288,7 @@
 
     /** loads a history & hdas w/ NO details (but does not make them the current history) */
     loadHistory : function( historyId, attributes, historyFn, hdaFn, hdaDetailIds ){
+        this.info( 'loadHistory:', historyId, attributes, historyFn, hdaFn, hdaDetailIds );
         var panel = this;
         attributes = attributes || {};
 

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 static/scripts/mvc/library/library-dataset-view.js
--- a/static/scripts/mvc/library/library-dataset-view.js
+++ b/static/scripts/mvc/library/library-dataset-view.js
@@ -185,11 +185,12 @@
 
       // set the used history as current so user will see the last one 
       // that he imported into in the history panel on the 'analysis' page
-      var set_current_url =  '/api/histories/' + history_id + '/set_as_current';
-      $.ajax({
-        url: set_current_url,
-        type: 'PUT'
-      });
+      //var set_current_url =  '/api/histories/' + history_id + '/set_as_current';
+      //$.ajax({
+      //  url: set_current_url,
+      //  type: 'PUT'
+      //});
+      jQuery.getJSON( galaxy_config.root + 'history/set_as_current?id=' + history_id  );
 
       // save the dataset into selected history
       historyItem.save({ content : this.id, source : 'library' }, { 

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 static/scripts/mvc/library/library-foldertoolbar-view.js
--- a/static/scripts/mvc/library/library-foldertoolbar-view.js
+++ b/static/scripts/mvc/library/library-foldertoolbar-view.js
@@ -80,7 +80,7 @@
   },
 
   // shows modal for creating folder
-  createFolderFromModal: function(){
+  createFolderFromModal: function( event ){
     event.preventDefault();
     event.stopPropagation();
 
@@ -226,11 +226,13 @@
 
       // set the used history as current so user will see the last one 
       // that he imported into in the history panel on the 'analysis' page
-      var set_current_url =  '/api/histories/' + history_id + '/set_as_current';
-      $.ajax({
-        url: set_current_url,
-        type: 'PUT'
-      });
+      //var set_current_url =  '/api/histories/' + history_id + '/set_as_current';
+      //$.ajax({
+      //  url: set_current_url,
+      //  type: 'PUT'
+      //});
+      jQuery.getJSON( galaxy_config.root + 'history/set_as_current?id=' + historyId  );
+
       // call the recursive function to call ajax one after each other (request FIFO queue)
       this.chainCall(datasets_to_import, history_name);
   },

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 static/scripts/packed/mvc/history/history-model.js
--- a/static/scripts/packed/mvc/history/history-model.js
+++ b/static/scripts/packed/mvc/history/history-model.js
@@ -1,1 +1,1 @@
-define(["mvc/history/history-contents","mvc/base-mvc","utils/localization"],function(h,i,d){var e=Backbone.Model.extend(i.LoggableMixin).extend({defaults:{model_class:"History",id:null,name:"Unnamed History",state:"new",diskSize:0,deleted:false},urlRoot:galaxy_config.root+"api/histories",initialize:function(k,l,j){j=j||{};this.logger=j.logger||null;this.log(this+".initialize:",k,l,j);this.log("creating history contents:",l);this.contents=new h.HistoryContents(l||[],{historyId:this.get("id")});this._setUpListeners();this.updateTimeoutId=null},_setUpListeners:function(){this.on("error",function(k,n,j,m,l){this.errorHandler(k,n,j,m,l)});if(this.contents){this.listenTo(this.contents,"error",function(){this.trigger.apply(this,["error:contents"].concat(jQuery.makeArray(arguments)))})}this.on("change:id",function(k,j){if(this.contents){this.contents.historyId=j}},this)},errorHandler:function(k,n,j,m,l){this.clearUpdateTimeout()},ownedByCurrUser:function(){if(!Galaxy||!Galaxy.currUser){return false}if(Galaxy.currUser.isAnonymous()||Galaxy.currUser.id!==this.get("user_id")){return false}return true},contentsCount:function(){return _.reduce(_.values(this.get("state_details")),function(j,k){return j+k},0)},checkForUpdates:function(j){if(this.contents.running().length){this.setUpdateTimeout()}else{this.trigger("ready");if(_.isFunction(j)){j.call(this)}}return this},setUpdateTimeout:function(j){j=j||e.UPDATE_DELAY;var k=this;this.clearUpdateTimeout();this.updateTimeoutId=setTimeout(function(){k.refresh()},j);return this.updateTimeoutId},clearUpdateTimeout:function(){if(this.updateTimeoutId){clearTimeout(this.updateTimeoutId);this.updateTimeoutId=null}},refresh:function(k,j){k=k||[];j=j||{};var l=this;j.data=j.data||{};if(k.length){j.data.details=k.join(",")}var m=this.contents.fetch(j);m.done(function(n){l.checkForUpdates(function(){this.fetch()})});return m},copy:function(m,k){m=(m!==undefined)?(m):(true);if(!this.id){throw new Error("You must set the history ID before copying it.")}var j={history_id:this.id};if(m){j.current=true}if(k){j.name=k}var l=this,n=jQuery.post(this.urlRoot,j);n.done(function(o){l.trigger("copied",l,o)});return n},toString:function(){return"History("+this.get("id")+","+this.get("name")+")"}});e.UPDATE_DELAY=4000;e.getHistoryData=function c(j,v){v=v||{};var p=v.hdaDetailIds||[];var l=v.hdcaDetailIds||[];var r=jQuery.Deferred(),q=null;function k(w){return jQuery.ajax(galaxy_config.root+"api/histories/"+j)}function o(w){return w&&w.empty}function u(x){if(o(x)){return[]}if(_.isFunction(p)){p=p(x)}if(_.isFunction(l)){l=l(x)}var w={};if(p.length){w.dataset_details=p.join(",")}if(l.length){w.dataset_collection_details=l.join(",")}return jQuery.ajax(galaxy_config.root+"api/histories/"+x.id+"/contents",{data:w})}var t=v.historyFn||k,s=v.hdaFn||u;var n=t(j);n.done(function(w){q=w;r.notify({status:"history data retrieved",historyJSON:q})});n.fail(function(y,w,x){r.reject(y,"loading the history")});var m=n.then(s);m.then(function(w){r.notify({status:"dataset data retrieved",historyJSON:q,hdaJSON:w});r.resolve(q,w)});m.fail(function(y,w,x){r.reject(y,"loading the datasets",{history:q})});return r};var f=Backbone.Collection.extend(i.LoggableMixin).extend({model:e,urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/histories",initialize:function(k,j){j=j||{};this.log("HistoryCollection.initialize",arguments);this.includeDeleted=j.includeDeleted||false;this.setUpListeners()},setUpListeners:function a(){var j=this;this.on("change:deleted",function(k){this.debug("change:deleted",j.includeDeleted,k.get("deleted"));if(!j.includeDeleted&&k.get("deleted")){j.remove(k)}});this.on("copied",function(k,l){this.unshift(new e(l,[]))})},create:function g(m,k,j,l){var o=this,n=new e(m||{},k||[],j||{});return n.save(l).done(function(p){o.unshift(n)})},toString:function b(){return"HistoryCollection("+this.length+")"}});return{History:e,HistoryCollection:f}});
\ No newline at end of file
+define(["mvc/history/history-contents","mvc/base-mvc","utils/localization"],function(h,i,d){var e=Backbone.Model.extend(i.LoggableMixin).extend({defaults:{model_class:"History",id:null,name:"Unnamed History",state:"new",diskSize:0,deleted:false},urlRoot:galaxy_config.root+"api/histories",initialize:function(k,l,j){j=j||{};this.logger=j.logger||null;this.log(this+".initialize:",k,l,j);this.log("creating history contents:",l);this.contents=new h.HistoryContents(l||[],{historyId:this.get("id")});this._setUpListeners();this.updateTimeoutId=null},_setUpListeners:function(){this.on("error",function(k,n,j,m,l){this.errorHandler(k,n,j,m,l)});if(this.contents){this.listenTo(this.contents,"error",function(){this.trigger.apply(this,["error:contents"].concat(jQuery.makeArray(arguments)))})}this.on("change:id",function(k,j){if(this.contents){this.contents.historyId=j}},this)},errorHandler:function(k,n,j,m,l){this.clearUpdateTimeout()},ownedByCurrUser:function(){if(!Galaxy||!Galaxy.currUser){return false}if(Galaxy.currUser.isAnonymous()||Galaxy.currUser.id!==this.get("user_id")){return false}return true},contentsCount:function(){return _.reduce(_.values(this.get("state_details")),function(j,k){return j+k},0)},checkForUpdates:function(j){if(this.contents.running().length){this.setUpdateTimeout()}else{this.trigger("ready");if(_.isFunction(j)){j.call(this)}}return this},setUpdateTimeout:function(j){j=j||e.UPDATE_DELAY;var k=this;this.clearUpdateTimeout();this.updateTimeoutId=setTimeout(function(){k.refresh()},j);return this.updateTimeoutId},clearUpdateTimeout:function(){if(this.updateTimeoutId){clearTimeout(this.updateTimeoutId);this.updateTimeoutId=null}},refresh:function(k,j){k=k||[];j=j||{};var l=this;j.data=j.data||{};if(k.length){j.data.details=k.join(",")}var m=this.contents.fetch(j);m.done(function(n){l.checkForUpdates(function(){this.fetch()})});return m},copy:function(m,k){m=(m!==undefined)?(m):(true);if(!this.id){throw new Error("You must set the history ID before copying it.")}var j={history_id:this.id};if(m){j.current=true}if(k){j.name=k}var l=this,n=jQuery.post(this.urlRoot,j);n.done(function(o){l.trigger("copied",l,o)});return n},toString:function(){return"History("+this.get("id")+","+this.get("name")+")"}});e.UPDATE_DELAY=4000;e.getHistoryData=function c(j,v){v=v||{};var p=v.hdaDetailIds||[];var l=v.hdcaDetailIds||[];var r=jQuery.Deferred(),q=null;function k(w){if(j==="current"){return jQuery.getJSON(galaxy_config.root+"history/current_history_json")}return jQuery.ajax(galaxy_config.root+"api/histories/"+j)}function o(w){return w&&w.empty}function u(x){if(o(x)){return[]}if(_.isFunction(p)){p=p(x)}if(_.isFunction(l)){l=l(x)}var w={};if(p.length){w.dataset_details=p.join(",")}if(l.length){w.dataset_collection_details=l.join(",")}return jQuery.ajax(galaxy_config.root+"api/histories/"+x.id+"/contents",{data:w})}var t=v.historyFn||k,s=v.hdaFn||u;var n=t(j);n.done(function(w){q=w;r.notify({status:"history data retrieved",historyJSON:q})});n.fail(function(y,w,x){r.reject(y,"loading the history")});var m=n.then(s);m.then(function(w){r.notify({status:"dataset data retrieved",historyJSON:q,hdaJSON:w});r.resolve(q,w)});m.fail(function(y,w,x){r.reject(y,"loading the datasets",{history:q})});return r};var f=Backbone.Collection.extend(i.LoggableMixin).extend({model:e,urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/histories",initialize:function(k,j){j=j||{};this.log("HistoryCollection.initialize",arguments);this.includeDeleted=j.includeDeleted||false;this.setUpListeners()},setUpListeners:function a(){var j=this;this.on("change:deleted",function(k){this.debug("change:deleted",j.includeDeleted,k.get("deleted"));if(!j.includeDeleted&&k.get("deleted")){j.remove(k)}});this.on("copied",function(k,l){this.unshift(new e(l,[]))})},create:function g(m,k,j,l){var o=this,n=new e(m||{},k||[],j||{});return n.save(l).done(function(p){o.unshift(n)})},toString:function b(){return"HistoryCollection("+this.length+")"}});return{History:e,HistoryCollection:f}});
\ No newline at end of file

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 static/scripts/packed/mvc/history/history-panel-edit-current.js
--- a/static/scripts/packed/mvc/history/history-panel-edit-current.js
+++ b/static/scripts/packed/mvc/history/history-panel-edit-current.js
@@ -1,1 +1,1 @@
-define(["mvc/history/history-panel-edit","mvc/collection/collection-panel","mvc/base-mvc","utils/localization"],function(g,f,b,d){var c=b.SessionStorageModel.extend({defaults:{searching:false,tagsEditorShown:false,annotationEditorShown:false},toString:function(){return"HistoryPanelPrefs("+JSON.stringify(this.toJSON())+")"}});c.storageKey=function h(){return("history-panel")};var e=g.HistoryPanel;var a=e.extend({emptyMsg:d("This history is empty. Click 'Get Data' on the left tool menu to start"),noneFoundMsg:d("No matching datasets found"),initialize:function(i){i=i||{};this.preferences=new c(_.extend({id:c.storageKey()},_.pick(i,_.keys(c.prototype.defaults))));e.prototype.initialize.call(this,i);this.panelStack=[]},loadCurrentHistory:function(j){var i=this;return this.loadHistoryWithHDADetails("current",j).then(function(l,k){i.trigger("current-history",i)})},switchToHistory:function(l,k){var i=this,j=function(){return jQuery.ajax({url:galaxy_config.root+"api/histories/"+l+"/set_as_current",method:"PUT"})};return this.loadHistoryWithHDADetails(l,k,j).then(function(n,m){i.trigger("switched-history",i)})},createNewHistory:function(k){if(!Galaxy||!Galaxy.currUser||Galaxy.currUser.isAnonymous()){this.displayMessage("error",d("You must be logged in to create histories"));return $.when()}var i=this,j=function(){return jQuery.post(galaxy_config.root+"api/histories",{current:true})};return this.loadHistory(undefined,k,j).then(function(m,l){i.trigger("new-history",i)})},setModel:function(j,i,k){e.prototype.setModel.call(this,j,i,k);if(this.model){this.log("checking for updates");this.model.checkForUpdates()}return this},_setUpModelEventHandlers:function(){e.prototype._setUpModelEventHandlers.call(this);if(Galaxy&&Galaxy.quotaMeter){this.listenTo(this.model,"change:nice_size",function(){Galaxy.quotaMeter.update()})}this.model.contents.on("state:ready",function(j,k,i){if((!j.get("visible"))&&(!this.storage.get("show_hidden"))){this.removeHdaView(this.hdaViews[j.id])}},this)},render:function(k,l){this.log("render:",k,l);k=(k===undefined)?(this.fxSpeed):(k);var i=this,j;if(this.model){j=this.renderModel()}else{j=this.renderWithoutModel()}$(i).queue("fx",[function(m){if(k&&i.$el.is(":visible")){i.$el.fadeOut(k,m)}else{m()}},function(m){i.$el.empty();if(j){i.$el.append(j.children());i.renderBasedOnPrefs()}m()},function(m){if(k&&!i.$el.is(":visible")){i.$el.fadeIn(k,m)}else{m()}},function(m){if(l){l.call(this)}i.trigger("rendered",this);m()}]);return this},renderBasedOnPrefs:function(){if(this.preferences.get("searching")){this.toggleSearchControls(0,true)}},_renderEmptyMsg:function(k){var j=this,i=j.$emptyMessage(k),l=$(".toolMenuContainer");if((_.isEmpty(j.hdaViews)&&!j.searchFor)&&(Galaxy&&Galaxy.upload&&l.size())){i.empty();i.html([d("This history is empty"),". ",d("You can "),'<a class="uploader-link" href="javascript:void(0)">',d("load your own data"),"</a>",d(" or "),'<a class="get-data-link" href="javascript:void(0)">',d("get data from an external source"),"</a>"].join(""));i.find(".uploader-link").click(function(m){Galaxy.upload._eventShow(m)});i.find(".get-data-link").click(function(m){l.parent().scrollTop(0);l.find('span:contains("Get Data")').click()});i.show()}else{e.prototype._renderEmptyMsg.call(this,k)}return this},toggleSearchControls:function(j,i){var k=e.prototype.toggleSearchControls.call(this,j,i);this.preferences.set("searching",k)},_renderTags:function(i){var j=this;e.prototype._renderTags.call(this,i);if(this.preferences.get("tagsEditorShown")){this.tagsEditor.toggle(true)}this.tagsEditor.on("hiddenUntilActivated:shown hiddenUntilActivated:hidden",function(k){j.preferences.set("tagsEditorShown",k.hidden)})},_renderAnnotation:function(i){var j=this;e.prototype._renderAnnotation.call(this,i);if(this.preferences.get("annotationEditorShown")){this.annotationEditor.toggle(true)}this.annotationEditor.on("hiddenUntilActivated:shown hiddenUntilActivated:hidden",function(k){j.preferences.set("annotationEditorShown",k.hidden)})},_setUpHdaListeners:function(j){e.prototype._setUpHdaListeners.call(this,j);var i=this;if(j instanceof i.HDCAViewClass){j.off("expanded");j.on("expanded",function(k){this.info("expanded",k);i._addCollectionPanel(k)});j.off("collapsed")}},_addCollectionPanel:function(k){var l=this,i=k.model;this.debug("history panel (stack), collectionModel:",i);var j=new (this._getCollectionPanelClass(i))({model:i,HDAViewClass:this.HDAViewClass,parentName:this.model.get("name"),linkTarget:this.linkTarget});l.panelStack.push(j);l.$(".history-controls").add(".datasets-list").hide();l.$el.append(j.$el);j.on("close",function(){l.render();k.collapse();l.panelStack.pop()});if(!j.model.hasDetails()){var m=j.model.fetch();m.done(function(){j.render()})}else{j.render()}},_getCollectionPanelClass:function(i){switch(i.get("collection_type")){case"list":return f.ListCollectionPanel;case"paired":return f.PairCollectionPanel;case"list:paired":return f.ListOfPairsCollectionPanel}throw new TypeError("Uknown collection_type: "+i.get("collection_type"))},addContentView:function(i){if(this.panelStack.length){return this}return e.prototype.addContentView.call(this,i)},connectToQuotaMeter:function(i){if(!i){return this}this.listenTo(i,"quota:over",this.showQuotaMessage);this.listenTo(i,"quota:under",this.hideQuotaMessage);this.on("rendered rendered:initial",function(){if(i&&i.isOverQuota()){this.showQuotaMessage()}});return this},showQuotaMessage:function(){var i=this.$el.find(".quota-message");if(i.is(":hidden")){i.slideDown(this.fxSpeed)}},hideQuotaMessage:function(){var i=this.$el.find(".quota-message");if(!i.is(":hidden")){i.slideUp(this.fxSpeed)}},connectToOptionsMenu:function(i){if(!i){return this}this.on("new-storage",function(k,j){if(i&&k){i.findItemByHtml(d("Include Deleted Datasets")).checked=k.get("show_deleted");i.findItemByHtml(d("Include Hidden Datasets")).checked=k.get("show_hidden")}});return this},toString:function(){return"CurrentHistoryPanel("+((this.model)?(this.model.get("name")):(""))+")"}});return{CurrentHistoryPanel:a}});
\ No newline at end of file
+define(["mvc/history/history-model","mvc/history/history-panel-edit","mvc/collection/collection-panel","mvc/base-mvc","utils/localization"],function(d,c,a,h,b){var e=h.SessionStorageModel.extend({defaults:{searching:false,tagsEditorShown:false,annotationEditorShown:false},toString:function(){return"HistoryPanelPrefs("+JSON.stringify(this.toJSON())+")"}});e.storageKey=function f(){return("history-panel")};var g=c.HistoryPanel;var i=g.extend({emptyMsg:b("This history is empty. Click 'Get Data' on the left tool menu to start"),noneFoundMsg:b("No matching datasets found"),initialize:function(j){j=j||{};this.preferences=new e(_.extend({id:e.storageKey()},_.pick(j,_.keys(e.prototype.defaults))));g.prototype.initialize.call(this,j);this.panelStack=[]},loadCurrentHistory:function(k){this.debug(this+".loadCurrentHistory");var j=this;return this.loadHistoryWithHDADetails("current",k).then(function(m,l){j.trigger("current-history",j)})},switchToHistory:function(m,l){var j=this,k=function(){return jQuery.getJSON(galaxy_config.root+"history/set_as_current?id="+m)};return this.loadHistoryWithHDADetails(m,l,k).then(function(o,n){j.trigger("switched-history",j)})},createNewHistory:function(l){if(!Galaxy||!Galaxy.currUser||Galaxy.currUser.isAnonymous()){this.displayMessage("error",b("You must be logged in to create histories"));return $.when()}var j=this,k=function(){return jQuery.getJSON(galaxy_config.root+"history/create_new_current")};return this.loadHistory(undefined,l,k).then(function(n,m){j.trigger("new-history",j)})},setModel:function(k,j,l){g.prototype.setModel.call(this,k,j,l);if(this.model){this.log("checking for updates");this.model.checkForUpdates()}return this},_setUpModelEventHandlers:function(){g.prototype._setUpModelEventHandlers.call(this);if(Galaxy&&Galaxy.quotaMeter){this.listenTo(this.model,"change:nice_size",function(){Galaxy.quotaMeter.update()})}this.model.contents.on("state:ready",function(k,l,j){if((!k.get("visible"))&&(!this.storage.get("show_hidden"))){this.removeHdaView(this.hdaViews[k.id])}},this)},render:function(l,m){this.log("render:",l,m);l=(l===undefined)?(this.fxSpeed):(l);var j=this,k;if(this.model){k=this.renderModel()}else{k=this.renderWithoutModel()}$(j).queue("fx",[function(n){if(l&&j.$el.is(":visible")){j.$el.fadeOut(l,n)}else{n()}},function(n){j.$el.empty();if(k){j.$el.append(k.children());j.renderBasedOnPrefs()}n()},function(n){if(l&&!j.$el.is(":visible")){j.$el.fadeIn(l,n)}else{n()}},function(n){if(m){m.call(this)}j.trigger("rendered",this);n()}]);return this},renderBasedOnPrefs:function(){if(this.preferences.get("searching")){this.toggleSearchControls(0,true)}},_renderEmptyMsg:function(l){var k=this,j=k.$emptyMessage(l),m=$(".toolMenuContainer");if((_.isEmpty(k.hdaViews)&&!k.searchFor)&&(Galaxy&&Galaxy.upload&&m.size())){j.empty();j.html([b("This history is empty"),". ",b("You can "),'<a class="uploader-link" href="javascript:void(0)">',b("load your own data"),"</a>",b(" or "),'<a class="get-data-link" href="javascript:void(0)">',b("get data from an external source"),"</a>"].join(""));j.find(".uploader-link").click(function(n){Galaxy.upload._eventShow(n)});j.find(".get-data-link").click(function(n){m.parent().scrollTop(0);m.find('span:contains("Get Data")').click()});j.show()}else{g.prototype._renderEmptyMsg.call(this,l)}return this},toggleSearchControls:function(k,j){var l=g.prototype.toggleSearchControls.call(this,k,j);this.preferences.set("searching",l)},_renderTags:function(j){var k=this;g.prototype._renderTags.call(this,j);if(this.preferences.get("tagsEditorShown")){this.tagsEditor.toggle(true)}this.tagsEditor.on("hiddenUntilActivated:shown hiddenUntilActivated:hidden",function(l){k.preferences.set("tagsEditorShown",l.hidden)})},_renderAnnotation:function(j){var k=this;g.prototype._renderAnnotation.call(this,j);if(this.preferences.get("annotationEditorShown")){this.annotationEditor.toggle(true)}this.annotationEditor.on("hiddenUntilActivated:shown hiddenUntilActivated:hidden",function(l){k.preferences.set("annotationEditorShown",l.hidden)})},_setUpHdaListeners:function(k){g.prototype._setUpHdaListeners.call(this,k);var j=this;if(k instanceof j.HDCAViewClass){k.off("expanded");k.on("expanded",function(l){this.info("expanded",l);j._addCollectionPanel(l)});k.off("collapsed")}},_addCollectionPanel:function(l){var m=this,j=l.model;this.debug("history panel (stack), collectionModel:",j);var k=new (this._getCollectionPanelClass(j))({model:j,HDAViewClass:this.HDAViewClass,parentName:this.model.get("name"),linkTarget:this.linkTarget});m.panelStack.push(k);m.$(".history-controls").add(".datasets-list").hide();m.$el.append(k.$el);k.on("close",function(){m.render();l.collapse();m.panelStack.pop()});if(!k.model.hasDetails()){var n=k.model.fetch();n.done(function(){k.render()})}else{k.render()}},_getCollectionPanelClass:function(j){switch(j.get("collection_type")){case"list":return a.ListCollectionPanel;case"paired":return a.PairCollectionPanel;case"list:paired":return a.ListOfPairsCollectionPanel}throw new TypeError("Uknown collection_type: "+j.get("collection_type"))},addContentView:function(j){if(this.panelStack.length){return this}return g.prototype.addContentView.call(this,j)},connectToQuotaMeter:function(j){if(!j){return this}this.listenTo(j,"quota:over",this.showQuotaMessage);this.listenTo(j,"quota:under",this.hideQuotaMessage);this.on("rendered rendered:initial",function(){if(j&&j.isOverQuota()){this.showQuotaMessage()}});return this},showQuotaMessage:function(){var j=this.$el.find(".quota-message");if(j.is(":hidden")){j.slideDown(this.fxSpeed)}},hideQuotaMessage:function(){var j=this.$el.find(".quota-message");if(!j.is(":hidden")){j.slideUp(this.fxSpeed)}},connectToOptionsMenu:function(j){if(!j){return this}this.on("new-storage",function(l,k){if(j&&l){j.findItemByHtml(b("Include Deleted Datasets")).checked=l.get("show_deleted");j.findItemByHtml(b("Include Hidden Datasets")).checked=l.get("show_hidden")}});return this},toString:function(){return"CurrentHistoryPanel("+((this.model)?(this.model.get("name")):(""))+")"}});return{CurrentHistoryPanel:i}});
\ No newline at end of file

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 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/history/history-model","mvc/history/hda-li","mvc/history/hdca-li","mvc/user/user-model","mvc/base-mvc","utils/localization"],function(e,b,a,f,k,d){var i=k.SessionStorageModel.extend({defaults:{expandedHdas:{},show_deleted:false,show_hidden:false},addExpandedHda:function(m){var n="expandedHdas";this.save(n,_.extend(this.get(n),_.object([m.id],[m.get("id")])))},removeExpandedHda:function(m){var n="expandedHdas";this.save(n,_.omit(this.get(n),m.id))},toString:function(){return"HistoryPrefs("+this.id+")"}});i.storageKeyPrefix="history:";i.historyStorageKey=function g(m){if(!m){throw new Error("HistoryPrefs.historyStorageKey needs valid id: "+m)}return(i.storageKeyPrefix+m)};i.get=function c(m){return new i({id:i.historyStorageKey(m)})};i.clearAll=function h(n){for(var m in sessionStorage){if(m.indexOf(i.storageKeyPrefix)===0){sessionStorage.removeItem(m)}}};var j=Backbone.View.extend(k.LoggableMixin).extend({HDAViewClass:b.HDAListItemView,HDCAViewClass:a.HDCAListItemView,tagName:"div",className:"history-panel",fxSpeed:"fast",emptyMsg:d("This history is empty"),noneFoundMsg:d("No matching datasets found"),initialize:function(m){m=m||{};if(m.logger){this.logger=m.logger}this.log(this+".initialize:",m);this.linkTarget=m.linkTarget||"_blank";this.fxSpeed=_.has(m,"fxSpeed")?(m.fxSpeed):(this.fxSpeed);this.filters=[];this.searchFor="";this.findContainerFn=m.findContainerFn;this.hdaViews={};this.indicator=new LoadingIndicator(this.$el);this._setUpListeners();var n=_.pick(m,"initiallyExpanded","show_deleted","show_hidden");this.setModel(this.model,n,false);if(m.onready){m.onready.call(this)}},_setUpListeners:function(){this.on("error",function(n,q,m,p,o){this.errorHandler(n,q,m,p,o)});this.on("loading-history",function(){this._showLoadingIndicator("loading history...",40)});this.on("loading-done",function(){this._hideLoadingIndicator(40);if(_.isEmpty(this.hdaViews)){this.trigger("empty-history",this)}});this.once("rendered",function(){this.trigger("rendered:initial",this);return false});if(this.logger){this.on("all",function(m){this.log(this+"",arguments)},this)}return this},errorHandler:function(o,r,n,q,p){this.error(o,r,n,q,p);window.xhr=r;if(r&&r.status===0&&r.readyState===0){}else{if(r&&r.status===502){}else{var m=this._parseErrorMessage(o,r,n,q,p);if(!this.$messages().is(":visible")){this.once("rendered",function(){this.displayMessage("error",m.message,m.details)})}else{this.displayMessage("error",m.message,m.details)}}}},_parseErrorMessage:function(q,t,u,o,m,r){var p=Galaxy.currUser,s={message:this._bePolite(o),details:{message:o,raven:(window.Raven)?(Raven.lastEventId()):(undefined),agent:navigator.userAgent,url:(window.Galaxy)?(Galaxy.lastAjax.url):(undefined),data:(window.Galaxy)?(Galaxy.lastAjax.data):(undefined),options:(t)?(_.omit(u,"xhr")):(u),xhr:t,source:(_.isFunction(q.toJSON))?(q.toJSON()):(q+""),user:(p instanceof f.User)?(p.toJSON()):(p+"")}};_.extend(s.details,m||{});if(t&&_.isFunction(t.getAllResponseHeaders)){var n=t.getAllResponseHeaders();n=_.compact(n.split("\n"));n=_.map(n,function(v){return v.split(": ")});s.details.xhr.responseHeaders=_.object(n)}return s},_bePolite:function(m){m=m||d("An error occurred while getting updates from the server");return m+". "+d("Please contact a Galaxy administrator if the problem persists")+"."},loadHistoryWithHDADetails:function(o,n,m,q){var p=function(r){return _.values(i.get(r.id).get("expandedHdas"))};return this.loadHistory(o,n,m,q,p)},loadHistory:function(p,o,n,s,q){var m=this;o=o||{};m.trigger("loading-history",m);var r=e.History.getHistoryData(p,{historyFn:n,hdaFn:s,hdaDetailIds:o.initiallyExpanded||q});return m._loadHistoryFromXHR(r,o).fail(function(v,t,u){m.trigger("error",m,v,o,d("An error was encountered while "+t),{historyId:p,history:u||{}})}).always(function(){m.trigger("loading-done",m)})},_loadHistoryFromXHR:function(o,n){var m=this;o.then(function(p,q){m.JSONToModel(p,q,n)});o.fail(function(q,p){m.render()});return o},JSONToModel:function(p,m,n){this.log("JSONToModel:",p,m,n);n=n||{};var o=new e.History(p,m,n);this.setModel(o);return this},setModel:function(n,m,o){m=m||{};o=(o!==undefined)?(o):(true);this.log("setModel:",n,m,o);this.freeModel();this.selectedHdaIds=[];if(n){this.model=n;if(this.logger){this.model.logger=this.logger}this._setUpWebStorage(m.initiallyExpanded,m.show_deleted,m.show_hidden);this._setUpModelEventHandlers();this.trigger("new-model",this)}if(o){this.render()}return this},freeModel:function(){if(this.model){this.model.clearUpdateTimeout();this.stopListening(this.model);this.stopListening(this.model.contents)}this.freeHdaViews();return this},freeHdaViews:function(){this.hdaViews={};return this},_setUpWebStorage:function(n,m,o){this.storage=new i({id:i.historyStorageKey(this.model.get("id"))});if(_.isObject(n)){this.storage.set("exandedHdas",n)}if(_.isBoolean(m)){this.storage.set("show_deleted",m)}if(_.isBoolean(o)){this.storage.set("show_hidden",o)}this.trigger("new-storage",this.storage,this);this.log(this+" (init'd) storage:",this.storage.get());return this},_setUpModelEventHandlers:function(){this.model.contents.on("add",this.addContentView,this);this.model.on("error error:contents",function(n,p,m,o){this.errorHandler(n,p,m,o)},this);return this},render:function(o,p){this.log("render:",o,p);o=(o===undefined)?(this.fxSpeed):(o);var m=this,n;if(this.model){n=this.renderModel()}else{n=this.renderWithoutModel()}$(m).queue("fx",[function(q){if(o&&m.$el.is(":visible")){m.$el.fadeOut(o,q)}else{q()}},function(q){m.$el.empty();if(n){m.$el.append(n.children())}q()},function(q){if(o&&!m.$el.is(":visible")){m.$el.fadeIn(o,q)}else{q()}},function(q){if(p){p.call(this)}m.trigger("rendered",this);q()}]);return this},renderWithoutModel:function(){var m=$("<div/>"),n=$("<div/>").addClass("message-container").css({margin:"4px"});return m.append(n)},renderModel:function(){var m=$("<div/>");m.append(j.templates.historyPanel(this.model.toJSON()));this.$emptyMessage(m).text(this.emptyMsg);m.find(".history-secondary-actions").prepend(this._renderSearchButton());this._setUpBehaviours(m);this.renderHdas(m);return m},_renderEmptyMsg:function(o){var n=this,m=n.$emptyMessage(o);if(!_.isEmpty(n.hdaViews)){m.hide()}else{if(n.searchFor){m.text(n.noneFoundMsg).show()}else{m.text(n.emptyMsg).show()}}return this},_renderSearchButton:function(m){return faIconButton({title:d("Search datasets"),classes:"history-search-btn",faIcon:"fa-search"})},_setUpBehaviours:function(m){m=m||this.$el;m.find("[title]").tooltip({placement:"bottom"});this._setUpSearchInput(m.find(".history-search-controls .history-search-input"));return this},$container:function(){return(this.findContainerFn)?(this.findContainerFn.call(this)):(this.$el.parent())},$datasetsList:function(m){return(m||this.$el).find(".datasets-list")},$messages:function(m){return(m||this.$el).find(".message-container")},$emptyMessage:function(m){return(m||this.$el).find(".empty-history-message")},renderHdas:function(n){n=n||this.$el;var m=this,p={},o=this.model.contents.getVisible(this.storage.get("show_deleted"),this.storage.get("show_hidden"),this.filters);this.$datasetsList(n).empty();if(o.length){o.each(function(r){var q=r.id,s=m._createContentView(r);p[q]=s;if(_.contains(m.selectedHdaIds,q)){s.selected=true}m.attachContentView(s.render(),n)})}this.hdaViews=p;this._renderEmptyMsg(n);return this.hdaViews},_createContentView:function(p){var n=this._getContentClass(p),m=_.extend(this._getContentOptions(p),{model:p}),o=new n(m);this._setUpHdaListeners(o);return o},_getContentClass:function(m){var n=m.get("history_content_type");switch(n){case"dataset":return this.HDAViewClass;case"dataset_collection":return this.HDCAViewClass}throw new TypeError("Unknown history_content_type: "+n)},_getContentOptions:function(m){return{linkTarget:this.linkTarget,expanded:!!this.storage.get("expandedHdas")[m.id],hasUser:this.model.ownedByCurrUser(),logger:this.logger}},_setUpHdaListeners:function(n){var m=this;n.on("error",function(p,r,o,q){m.errorHandler(p,r,o,q)});n.on("expanded",function(o){m.storage.addExpandedHda(o.model)});n.on("collapsed",function(o){m.storage.removeExpandedHda(o.model)});return this},attachContentView:function(o,n){n=n||this.$el;var m=this.$datasetsList(n);m.prepend(o.$el);return this},addContentView:function(p){this.log("add."+this,p);var n=this;if(!p.isVisible(this.storage.get("show_deleted"),this.storage.get("show_hidden"))){return n}$({}).queue([function o(r){var q=n.$emptyMessage();if(q.is(":visible")){q.fadeOut(n.fxSpeed,r)}else{r()}},function m(q){var r=n._createContentView(p);n.hdaViews[p.id]=r;r.render().$el.hide();n.scrollToTop();n.attachContentView(r);r.$el.slideDown(n.fxSpeed)}]);return n},views:function(m){var n=this,o=this.model.contents.getVisible(this.storage.get("show_deleted"),this.storage.get("show_hidden"),this.filters);if(m!==undefined){return n.hdaViews[o.at(m).id]}return o.map(function(p){return n.hdaViews[p.id]})},refreshContents:function(n,m){if(this.model){return this.model.refresh(n,m)}return $.when()},hdaViewRange:function(p,o){if(p===o){return[p]}var m=this,n=false,q=[];this.model.contents.getVisible(this.storage.get("show_deleted"),this.storage.get("show_hidden"),this.filters).each(function(r){if(n){q.push(m.hdaViews[r.id]);if(r===p.model||r===o.model){n=false}}else{if(r===p.model||r===o.model){n=true;q.push(m.hdaViews[r.id])}}});return q},events:{"click .message-container":"clearMessages","click .history-search-btn":"toggleSearchControls"},collapseAllHdaBodies:function(){_.each(this.hdaViews,function(m){m.collapse()});this.storage.set("expandedHdas",{});return this},toggleShowDeleted:function(m){m=(m!==undefined)?(m):(!this.storage.get("show_deleted"));this.storage.set("show_deleted",m);this.renderHdas();return this.storage.get("show_deleted")},toggleShowHidden:function(m){m=(m!==undefined)?(m):(!this.storage.get("show_hidden"));this.storage.set("show_hidden",m);this.renderHdas();return this.storage.get("show_hidden")},_setUpSearchInput:function(n){var o=this,p=".history-search-input";function m(q){if(o.model.contents.haveDetails()){o.searchHdas(q);return}o.$el.find(p).searchInput("toggle-loading");o.model.contents.fetchAllDetails({silent:true}).always(function(){o.$el.find(p).searchInput("toggle-loading")}).done(function(){o.searchHdas(q)})}n.searchInput({initialVal:o.searchFor,name:"history-search",placeholder:"search datasets",classes:"history-search",onfirstsearch:m,onsearch:_.bind(this.searchHdas,this),onclear:_.bind(this.clearHdaSearch,this)});return n},toggleSearchControls:function(o,m){var n=this.$el.find(".history-search-controls"),p=(jQuery.type(o)==="number")?(o):(this.fxSpeed);m=(m!==undefined)?(m):(!n.is(":visible"));if(m){n.slideDown(p,function(){$(this).find("input").focus()})}else{n.slideUp(p)}return m},searchHdas:function(m){var n=this;this.searchFor=m;this.filters=[function(o){return o.matchesAll(n.searchFor)}];this.trigger("search:searching",m,this);this.renderHdas();return this},clearHdaSearch:function(m){this.searchFor="";this.filters=[];this.trigger("search:clear",this);this.renderHdas();return this},_showLoadingIndicator:function(n,m,o){m=(m!==undefined)?(m):(this.fxSpeed);if(!this.indicator){this.indicator=new LoadingIndicator(this.$el,this.$el.parent())}if(!this.$el.is(":visible")){this.indicator.show(0,o)}else{this.$el.fadeOut(m);this.indicator.show(n,m,o)}},_hideLoadingIndicator:function(m,n){m=(m!==undefined)?(m):(this.fxSpeed);if(this.indicator){this.indicator.hide(m,n)}},displayMessage:function(r,s,q){var o=this;this.scrollToTop();var p=this.$messages(),m=$("<div/>").addClass(r+"message").html(s);if(!_.isEmpty(q)){var n=$('<a href="javascript:void(0)">Details</a>').click(function(){Galaxy.modal.show(o._messageToModalOptions(r,s,q));return false});m.append(" ",n)}return p.html(m)},_messageToModalOptions:function(q,s,p){var m=this,r=$("<div/>"),o={title:"Details"};function n(t){t=_.omit(t,_.functions(t));return["<table>",_.map(t,function(v,u){v=(_.isObject(v))?(n(v)):(v);return'<tr><td style="vertical-align: top; color: grey">'+u+'</td><td style="padding-left: 8px">'+v+"</td></tr>"}).join(""),"</table>"].join("")}if(_.isObject(p)){o.body=r.append(n(p))}else{o.body=r.html(p)}o.buttons={Ok:function(){Galaxy.modal.hide();m.clearMessages()}};return o},clearMessages:function(){this.$messages().empty();return this},scrollPosition:function(){return this.$container().scrollTop()},scrollTo:function(m){this.$container().scrollTop(m);return this},scrollToTop:function(){this.$container().scrollTop(0);return this},scrollToId:function(n){if((!n)||(!this.hdaViews[n])){return this}var m=this.hdaViews[n];this.scrollTo(m.el.offsetTop);return this},scrollToHid:function(m){var n=this.model.contents.getByHid(m);if(!n){return this}return this.scrollToId(n.id)},print:function(){var m=this;m.debug(this);_.each(this.hdaViews,function(n,o){m.debug("\t "+o,n)})},toString:function(){return"ReadOnlyHistoryPanel("+((this.model)?(this.model.get("name")):(""))+")"}});var l=['<div class="history-controls">','<div class="history-search-controls">','<div class="history-search-input"></div>',"</div>",'<div class="history-title">',"<% if( history.name ){ %>",'<div class="history-name"><%= history.name %></div>',"<% } %>","</div>",'<div class="history-subtitle clear">',"<% if( history.nice_size ){ %>",'<div class="history-size"><%= history.nice_size %></div>',"<% } %>",'<div class="history-secondary-actions"></div>',"</div>","<% if( history.deleted ){ %>",'<div class="warningmessagesmall"><strong>',d("You are currently viewing a deleted history!"),"</strong></div>","<% } %>",'<div class="message-container">',"<% if( history.message ){ %>",'<div class="<%= history.status %>message"><%= history.message %></div>',"<% } %>","</div>",'<div class="quota-message errormessage">',d("You are over your disk quota"),". ",d("Tool execution is on hold until your disk usage drops below your allocated quota"),".","</div>",'<div class="tags-display"></div>','<div class="annotation-display"></div>','<div class="history-dataset-actions">','<div class="btn-group">','<button class="history-select-all-datasets-btn btn btn-default"','data-mode="select">',d("All"),"</button>",'<button class="history-deselect-all-datasets-btn btn btn-default"','data-mode="select">',d("None"),"</button>","</div>",'<button class="history-dataset-action-popup-btn btn btn-default">',d("For all selected"),"...</button>","</div>","</div>",'<div class="datasets-list"></div>','<div class="empty-history-message infomessagesmall">',d("This history is empty"),"</div>"].join("");j.templates={historyPanel:function(m){return _.template(l,m,{variable:"history"})}};return{ReadOnlyHistoryPanel:j}});
\ No newline at end of file
+define(["mvc/history/history-model","mvc/history/hda-li","mvc/history/hdca-li","mvc/user/user-model","mvc/base-mvc","utils/localization"],function(e,b,a,f,k,d){var i=k.SessionStorageModel.extend({defaults:{expandedHdas:{},show_deleted:false,show_hidden:false},addExpandedHda:function(m){var n="expandedHdas";this.save(n,_.extend(this.get(n),_.object([m.id],[m.get("id")])))},removeExpandedHda:function(m){var n="expandedHdas";this.save(n,_.omit(this.get(n),m.id))},toString:function(){return"HistoryPrefs("+this.id+")"}});i.storageKeyPrefix="history:";i.historyStorageKey=function g(m){if(!m){throw new Error("HistoryPrefs.historyStorageKey needs valid id: "+m)}return(i.storageKeyPrefix+m)};i.get=function c(m){return new i({id:i.historyStorageKey(m)})};i.clearAll=function h(n){for(var m in sessionStorage){if(m.indexOf(i.storageKeyPrefix)===0){sessionStorage.removeItem(m)}}};var j=Backbone.View.extend(k.LoggableMixin).extend({HDAViewClass:b.HDAListItemView,HDCAViewClass:a.HDCAListItemView,tagName:"div",className:"history-panel",fxSpeed:"fast",emptyMsg:d("This history is empty"),noneFoundMsg:d("No matching datasets found"),initialize:function(m){m=m||{};if(m.logger){this.logger=m.logger}this.log(this+".initialize:",m);this.linkTarget=m.linkTarget||"_blank";this.fxSpeed=_.has(m,"fxSpeed")?(m.fxSpeed):(this.fxSpeed);this.filters=[];this.searchFor="";this.findContainerFn=m.findContainerFn;this.hdaViews={};this.indicator=new LoadingIndicator(this.$el);this._setUpListeners();var n=_.pick(m,"initiallyExpanded","show_deleted","show_hidden");this.setModel(this.model,n,false);if(m.onready){m.onready.call(this)}},_setUpListeners:function(){this.on("error",function(n,q,m,p,o){this.errorHandler(n,q,m,p,o)});this.on("loading-history",function(){this._showLoadingIndicator("loading history...",40)});this.on("loading-done",function(){this._hideLoadingIndicator(40);if(_.isEmpty(this.hdaViews)){this.trigger("empty-history",this)}});this.once("rendered",function(){this.trigger("rendered:initial",this);return false});if(this.logger){this.on("all",function(m){this.log(this+"",arguments)},this)}return this},errorHandler:function(o,r,n,q,p){this.error(o,r,n,q,p);window.xhr=r;if(r&&r.status===0&&r.readyState===0){}else{if(r&&r.status===502){}else{var m=this._parseErrorMessage(o,r,n,q,p);if(!this.$messages().is(":visible")){this.once("rendered",function(){this.displayMessage("error",m.message,m.details)})}else{this.displayMessage("error",m.message,m.details)}}}},_parseErrorMessage:function(q,t,u,o,m,r){var p=Galaxy.currUser,s={message:this._bePolite(o),details:{message:o,raven:(window.Raven)?(Raven.lastEventId()):(undefined),agent:navigator.userAgent,url:(window.Galaxy)?(Galaxy.lastAjax.url):(undefined),data:(window.Galaxy)?(Galaxy.lastAjax.data):(undefined),options:(t)?(_.omit(u,"xhr")):(u),xhr:t,source:(_.isFunction(q.toJSON))?(q.toJSON()):(q+""),user:(p instanceof f.User)?(p.toJSON()):(p+"")}};_.extend(s.details,m||{});if(t&&_.isFunction(t.getAllResponseHeaders)){var n=t.getAllResponseHeaders();n=_.compact(n.split("\n"));n=_.map(n,function(v){return v.split(": ")});s.details.xhr.responseHeaders=_.object(n)}return s},_bePolite:function(m){m=m||d("An error occurred while getting updates from the server");return m+". "+d("Please contact a Galaxy administrator if the problem persists")+"."},loadHistoryWithHDADetails:function(o,n,m,q){this.info("loadHistoryWithHDADetails:",o,n,m,q);var p=function(r){return _.values(i.get(r.id).get("expandedHdas"))};return this.loadHistory(o,n,m,q,p)},loadHistory:function(p,o,n,s,q){this.info("loadHistory:",p,o,n,s,q);var m=this;o=o||{};m.trigger("loading-history",m);var r=e.History.getHistoryData(p,{historyFn:n,hdaFn:s,hdaDetailIds:o.initiallyExpanded||q});return m._loadHistoryFromXHR(r,o).fail(function(v,t,u){m.trigger("error",m,v,o,d("An error was encountered while "+t),{historyId:p,history:u||{}})}).always(function(){m.trigger("loading-done",m)})},_loadHistoryFromXHR:function(o,n){var m=this;o.then(function(p,q){m.JSONToModel(p,q,n)});o.fail(function(q,p){m.render()});return o},JSONToModel:function(p,m,n){this.log("JSONToModel:",p,m,n);n=n||{};var o=new e.History(p,m,n);this.setModel(o);return this},setModel:function(n,m,o){m=m||{};o=(o!==undefined)?(o):(true);this.log("setModel:",n,m,o);this.freeModel();this.selectedHdaIds=[];if(n){this.model=n;if(this.logger){this.model.logger=this.logger}this._setUpWebStorage(m.initiallyExpanded,m.show_deleted,m.show_hidden);this._setUpModelEventHandlers();this.trigger("new-model",this)}if(o){this.render()}return this},freeModel:function(){if(this.model){this.model.clearUpdateTimeout();this.stopListening(this.model);this.stopListening(this.model.contents)}this.freeHdaViews();return this},freeHdaViews:function(){this.hdaViews={};return this},_setUpWebStorage:function(n,m,o){this.storage=new i({id:i.historyStorageKey(this.model.get("id"))});if(_.isObject(n)){this.storage.set("exandedHdas",n)}if(_.isBoolean(m)){this.storage.set("show_deleted",m)}if(_.isBoolean(o)){this.storage.set("show_hidden",o)}this.trigger("new-storage",this.storage,this);this.log(this+" (init'd) storage:",this.storage.get());return this},_setUpModelEventHandlers:function(){this.model.contents.on("add",this.addContentView,this);this.model.on("error error:contents",function(n,p,m,o){this.errorHandler(n,p,m,o)},this);return this},render:function(o,p){this.log("render:",o,p);o=(o===undefined)?(this.fxSpeed):(o);var m=this,n;if(this.model){n=this.renderModel()}else{n=this.renderWithoutModel()}$(m).queue("fx",[function(q){if(o&&m.$el.is(":visible")){m.$el.fadeOut(o,q)}else{q()}},function(q){m.$el.empty();if(n){m.$el.append(n.children())}q()},function(q){if(o&&!m.$el.is(":visible")){m.$el.fadeIn(o,q)}else{q()}},function(q){if(p){p.call(this)}m.trigger("rendered",this);q()}]);return this},renderWithoutModel:function(){var m=$("<div/>"),n=$("<div/>").addClass("message-container").css({margin:"4px"});return m.append(n)},renderModel:function(){var m=$("<div/>");m.append(j.templates.historyPanel(this.model.toJSON()));this.$emptyMessage(m).text(this.emptyMsg);m.find(".history-secondary-actions").prepend(this._renderSearchButton());this._setUpBehaviours(m);this.renderHdas(m);return m},_renderEmptyMsg:function(o){var n=this,m=n.$emptyMessage(o);if(!_.isEmpty(n.hdaViews)){m.hide()}else{if(n.searchFor){m.text(n.noneFoundMsg).show()}else{m.text(n.emptyMsg).show()}}return this},_renderSearchButton:function(m){return faIconButton({title:d("Search datasets"),classes:"history-search-btn",faIcon:"fa-search"})},_setUpBehaviours:function(m){m=m||this.$el;m.find("[title]").tooltip({placement:"bottom"});this._setUpSearchInput(m.find(".history-search-controls .history-search-input"));return this},$container:function(){return(this.findContainerFn)?(this.findContainerFn.call(this)):(this.$el.parent())},$datasetsList:function(m){return(m||this.$el).find(".datasets-list")},$messages:function(m){return(m||this.$el).find(".message-container")},$emptyMessage:function(m){return(m||this.$el).find(".empty-history-message")},renderHdas:function(n){n=n||this.$el;var m=this,p={},o=this.model.contents.getVisible(this.storage.get("show_deleted"),this.storage.get("show_hidden"),this.filters);this.$datasetsList(n).empty();if(o.length){o.each(function(r){var q=r.id,s=m._createContentView(r);p[q]=s;if(_.contains(m.selectedHdaIds,q)){s.selected=true}m.attachContentView(s.render(),n)})}this.hdaViews=p;this._renderEmptyMsg(n);return this.hdaViews},_createContentView:function(p){var n=this._getContentClass(p),m=_.extend(this._getContentOptions(p),{model:p}),o=new n(m);this._setUpHdaListeners(o);return o},_getContentClass:function(m){var n=m.get("history_content_type");switch(n){case"dataset":return this.HDAViewClass;case"dataset_collection":return this.HDCAViewClass}throw new TypeError("Unknown history_content_type: "+n)},_getContentOptions:function(m){return{linkTarget:this.linkTarget,expanded:!!this.storage.get("expandedHdas")[m.id],hasUser:this.model.ownedByCurrUser(),logger:this.logger}},_setUpHdaListeners:function(n){var m=this;n.on("error",function(p,r,o,q){m.errorHandler(p,r,o,q)});n.on("expanded",function(o){m.storage.addExpandedHda(o.model)});n.on("collapsed",function(o){m.storage.removeExpandedHda(o.model)});return this},attachContentView:function(o,n){n=n||this.$el;var m=this.$datasetsList(n);m.prepend(o.$el);return this},addContentView:function(p){this.log("add."+this,p);var n=this;if(!p.isVisible(this.storage.get("show_deleted"),this.storage.get("show_hidden"))){return n}$({}).queue([function o(r){var q=n.$emptyMessage();if(q.is(":visible")){q.fadeOut(n.fxSpeed,r)}else{r()}},function m(q){var r=n._createContentView(p);n.hdaViews[p.id]=r;r.render().$el.hide();n.scrollToTop();n.attachContentView(r);r.$el.slideDown(n.fxSpeed)}]);return n},views:function(m){var n=this,o=this.model.contents.getVisible(this.storage.get("show_deleted"),this.storage.get("show_hidden"),this.filters);if(m!==undefined){return n.hdaViews[o.at(m).id]}return o.map(function(p){return n.hdaViews[p.id]})},refreshContents:function(n,m){if(this.model){return this.model.refresh(n,m)}return $.when()},hdaViewRange:function(p,o){if(p===o){return[p]}var m=this,n=false,q=[];this.model.contents.getVisible(this.storage.get("show_deleted"),this.storage.get("show_hidden"),this.filters).each(function(r){if(n){q.push(m.hdaViews[r.id]);if(r===p.model||r===o.model){n=false}}else{if(r===p.model||r===o.model){n=true;q.push(m.hdaViews[r.id])}}});return q},events:{"click .message-container":"clearMessages","click .history-search-btn":"toggleSearchControls"},collapseAllHdaBodies:function(){_.each(this.hdaViews,function(m){m.collapse()});this.storage.set("expandedHdas",{});return this},toggleShowDeleted:function(m){m=(m!==undefined)?(m):(!this.storage.get("show_deleted"));this.storage.set("show_deleted",m);this.renderHdas();return this.storage.get("show_deleted")},toggleShowHidden:function(m){m=(m!==undefined)?(m):(!this.storage.get("show_hidden"));this.storage.set("show_hidden",m);this.renderHdas();return this.storage.get("show_hidden")},_setUpSearchInput:function(n){var o=this,p=".history-search-input";function m(q){if(o.model.contents.haveDetails()){o.searchHdas(q);return}o.$el.find(p).searchInput("toggle-loading");o.model.contents.fetchAllDetails({silent:true}).always(function(){o.$el.find(p).searchInput("toggle-loading")}).done(function(){o.searchHdas(q)})}n.searchInput({initialVal:o.searchFor,name:"history-search",placeholder:"search datasets",classes:"history-search",onfirstsearch:m,onsearch:_.bind(this.searchHdas,this),onclear:_.bind(this.clearHdaSearch,this)});return n},toggleSearchControls:function(o,m){var n=this.$el.find(".history-search-controls"),p=(jQuery.type(o)==="number")?(o):(this.fxSpeed);m=(m!==undefined)?(m):(!n.is(":visible"));if(m){n.slideDown(p,function(){$(this).find("input").focus()})}else{n.slideUp(p)}return m},searchHdas:function(m){var n=this;this.searchFor=m;this.filters=[function(o){return o.matchesAll(n.searchFor)}];this.trigger("search:searching",m,this);this.renderHdas();return this},clearHdaSearch:function(m){this.searchFor="";this.filters=[];this.trigger("search:clear",this);this.renderHdas();return this},_showLoadingIndicator:function(n,m,o){m=(m!==undefined)?(m):(this.fxSpeed);if(!this.indicator){this.indicator=new LoadingIndicator(this.$el,this.$el.parent())}if(!this.$el.is(":visible")){this.indicator.show(0,o)}else{this.$el.fadeOut(m);this.indicator.show(n,m,o)}},_hideLoadingIndicator:function(m,n){m=(m!==undefined)?(m):(this.fxSpeed);if(this.indicator){this.indicator.hide(m,n)}},displayMessage:function(r,s,q){var o=this;this.scrollToTop();var p=this.$messages(),m=$("<div/>").addClass(r+"message").html(s);if(!_.isEmpty(q)){var n=$('<a href="javascript:void(0)">Details</a>').click(function(){Galaxy.modal.show(o._messageToModalOptions(r,s,q));return false});m.append(" ",n)}return p.html(m)},_messageToModalOptions:function(q,s,p){var m=this,r=$("<div/>"),o={title:"Details"};function n(t){t=_.omit(t,_.functions(t));return["<table>",_.map(t,function(v,u){v=(_.isObject(v))?(n(v)):(v);return'<tr><td style="vertical-align: top; color: grey">'+u+'</td><td style="padding-left: 8px">'+v+"</td></tr>"}).join(""),"</table>"].join("")}if(_.isObject(p)){o.body=r.append(n(p))}else{o.body=r.html(p)}o.buttons={Ok:function(){Galaxy.modal.hide();m.clearMessages()}};return o},clearMessages:function(){this.$messages().empty();return this},scrollPosition:function(){return this.$container().scrollTop()},scrollTo:function(m){this.$container().scrollTop(m);return this},scrollToTop:function(){this.$container().scrollTop(0);return this},scrollToId:function(n){if((!n)||(!this.hdaViews[n])){return this}var m=this.hdaViews[n];this.scrollTo(m.el.offsetTop);return this},scrollToHid:function(m){var n=this.model.contents.getByHid(m);if(!n){return this}return this.scrollToId(n.id)},print:function(){var m=this;m.debug(this);_.each(this.hdaViews,function(n,o){m.debug("\t "+o,n)})},toString:function(){return"ReadOnlyHistoryPanel("+((this.model)?(this.model.get("name")):(""))+")"}});var l=['<div class="history-controls">','<div class="history-search-controls">','<div class="history-search-input"></div>',"</div>",'<div class="history-title">',"<% if( history.name ){ %>",'<div class="history-name"><%= history.name %></div>',"<% } %>","</div>",'<div class="history-subtitle clear">',"<% if( history.nice_size ){ %>",'<div class="history-size"><%= history.nice_size %></div>',"<% } %>",'<div class="history-secondary-actions"></div>',"</div>","<% if( history.deleted ){ %>",'<div class="warningmessagesmall"><strong>',d("You are currently viewing a deleted history!"),"</strong></div>","<% } %>",'<div class="message-container">',"<% if( history.message ){ %>",'<div class="<%= history.status %>message"><%= history.message %></div>',"<% } %>","</div>",'<div class="quota-message errormessage">',d("You are over your disk quota"),". ",d("Tool execution is on hold until your disk usage drops below your allocated quota"),".","</div>",'<div class="tags-display"></div>','<div class="annotation-display"></div>','<div class="history-dataset-actions">','<div class="btn-group">','<button class="history-select-all-datasets-btn btn btn-default"','data-mode="select">',d("All"),"</button>",'<button class="history-deselect-all-datasets-btn btn btn-default"','data-mode="select">',d("None"),"</button>","</div>",'<button class="history-dataset-action-popup-btn btn btn-default">',d("For all selected"),"...</button>","</div>","</div>",'<div class="datasets-list"></div>','<div class="empty-history-message infomessagesmall">',d("This history is empty"),"</div>"].join("");j.templates={historyPanel:function(m){return _.template(l,m,{variable:"history"})}};return{ReadOnlyHistoryPanel:j}});
\ No newline at end of file

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 static/scripts/packed/mvc/library/library-dataset-view.js
--- a/static/scripts/packed/mvc/library/library-dataset-view.js
+++ b/static/scripts/packed/mvc/library/library-dataset-view.js
@@ -1,1 +1,1 @@
-define(["libs/toastr","mvc/library/library-model","mvc/ui/ui-select"],function(d,c,b){var a=Backbone.View.extend({el:"#center",model:null,options:{},events:{"click .toolbtn_modify_dataset":"enableModification","click .toolbtn_cancel_modifications":"render","click .toolbtn-download-dataset":"downloadDataset","click .toolbtn-import-dataset":"importIntoHistory","click .toolbtn-share-dataset":"shareDataset","click .btn-copy-link-to-clipboard":"copyToClipboard","click .btn-make-private":"makeDatasetPrivate","click .btn-remove-restrictions":"removeDatasetRestrictions","click .toolbtn_save_permissions":"savePermissions","click .toolbtn_save_modifications":"comingSoon",},initialize:function(e){this.options=_.extend(this.options,e);if(this.options.id){this.fetchDataset()}},fetchDataset:function(e){this.options=_.extend(this.options,e);this.model=new c.Item({id:this.options.id});var f=this;this.model.fetch({success:function(){if(f.options.show_permissions){f.showPermissions()}else{if(f.options.show_version){f.fetchVersion()}else{f.render()}}},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error(g.responseJSON.err_msg+" Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}else{d.error("An error ocurred :(. Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}}})},render:function(e){this.options=_.extend(this.options,e);$(".tooltip").remove();var f=this.templateDataset();this.$el.html(f({item:this.model}));$(".peek").html(this.model.get("peek"));$("#center [data-toggle]").tooltip()},fetchVersion:function(e){this.options=_.extend(this.options,e);that=this;if(!this.options.ldda_id){this.render();d.error("Library dataset version requested but no id provided.")}else{this.ldda=new c.Ldda({id:this.options.ldda_id});this.ldda.url=this.ldda.urlRoot+this.model.id+"/versions/"+this.ldda.id;this.ldda.fetch({success:function(){that.renderVersion()},error:function(g,f){if(typeof f.responseJSON!=="undefined"){d.error(f.responseJSON.err_msg)}else{d.error("An error ocurred :(")}}})}},renderVersion:function(){$(".tooltip").remove();var e=this.templateVersion();this.$el.html(e({item:this.model,ldda:this.ldda}));$(".peek").html(this.ldda.get("peek"))},enableModification:function(){$(".tooltip").remove();var e=this.templateModifyDataset();this.$el.html(e({item:this.model}));$(".peek").html(this.model.get("peek"));$("#center [data-toggle]").tooltip()},downloadDataset:function(){var e="/api/libraries/datasets/download/uncompressed";var f={ldda_ids:this.id};this.processDownload(e,f)},processDownload:function(f,g,h){if(f&&g){g=typeof g=="string"?g:$.param(g);var e="";$.each(g.split("&"),function(){var i=this.split("=");e+='<input type="hidden" name="'+i[0]+'" value="'+i[1]+'" />'});$('<form action="'+f+'" method="'+(h||"post")+'">'+e+"</form>").appendTo("body").submit().remove();d.info("Your download will begin soon")}},importIntoHistory:function(){this.refreshUserHistoriesList(function(e){var f=e.templateBulkImportInModal();e.modal=Galaxy.modal;e.modal.show({closing_events:true,title:"Import into History",body:f({histories:e.histories.models}),buttons:{Import:function(){e.importCurrentIntoHistory()},Close:function(){Galaxy.modal.hide()}}})})},refreshUserHistoriesList:function(f){var e=this;this.histories=new c.GalaxyHistories();this.histories.fetch({success:function(g){if(g.length===0){d.warning("You have to create history first. Click this to do so.","",{onclick:function(){window.location="/"}})}else{f(e)}},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error(g.responseJSON.err_msg)}else{d.error("An error ocurred :(")}}})},importCurrentIntoHistory:function(){var f=$(this.modal.elMain).find("select[name=dataset_import_single] option:selected").val();var g=new c.HistoryItem();g.url=g.urlRoot+f+"/contents";var e="/api/histories/"+f+"/set_as_current";$.ajax({url:e,type:"PUT"});g.save({content:this.id,source:"library"},{success:function(){Galaxy.modal.hide();d.success("Dataset imported. Click this to start analysing it.","",{onclick:function(){window.location="/"}})},error:function(i,h){if(typeof h.responseJSON!=="undefined"){d.error("Dataset not imported. "+h.responseJSON.err_msg)}else{d.error("An error occured! Dataset not imported. Please try again.")}}})},shareDataset:function(){d.info("Feature coming soon.")},goBack:function(){Galaxy.libraries.library_router.back()},showPermissions:function(f){this.options=_.extend(this.options,f);$(".tooltip").remove();if(this.options.fetched_permissions!==undefined){if(this.options.fetched_permissions.access_dataset_roles.length===0){this.model.set({is_unrestricted:true})}else{this.model.set({is_unrestricted:false})}}var h=false;if(Galaxy.currUser){h=Galaxy.currUser.isAdmin()}var g=this.templateDatasetPermissions();this.$el.html(g({item:this.model,is_admin:h}));var e=this;if(this.options.fetched_permissions===undefined){$.get("/api/libraries/datasets/"+e.id+"/permissions?scope=current").done(function(i){e.prepareSelectBoxes({fetched_permissions:i,is_admin:h})}).fail(function(){d.error("An error occurred while fetching dataset permissions. :(")})}else{this.prepareSelectBoxes({is_admin:h})}$("#center [data-toggle]").tooltip();$("#center").css("overflow","auto")},prepareSelectBoxes:function(r){this.options=_.extend(this.options,r);var s=this.options.fetched_permissions;var k=this.options.is_admin;var q=this;var m=[];for(var h=0;h<s.access_dataset_roles.length;h++){m.push(s.access_dataset_roles[h]+":"+s.access_dataset_roles[h])}var f=[];for(var h=0;h<s.modify_item_roles.length;h++){f.push(s.modify_item_roles[h]+":"+s.modify_item_roles[h])}var g=[];for(var h=0;h<s.manage_dataset_roles.length;h++){g.push(s.manage_dataset_roles[h]+":"+s.manage_dataset_roles[h])}if(k){var o={minimumInputLength:0,css:"access_perm",multiple:true,placeholder:"Click to select a role",container:q.$el.find("#access_perm"),ajax:{url:"/api/libraries/datasets/"+q.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(i,t){return{q:i,page_limit:10,page:t}},results:function(u,t){var i=(t*10)<u.total;return{results:u.roles,more:i}}},formatResult:function j(i){return i.name+" type: "+i.type},formatSelection:function e(i){return i.name},initSelection:function(i,u){var t=[];$(i.val().split(",")).each(function(){var v=this.split(":");t.push({id:v[1],name:v[1]})});u(t)},initialData:m.join(","),dropdownCssClass:"bigdrop"};var l={minimumInputLength:0,css:"modify_perm",multiple:true,placeholder:"Click to select a role",container:q.$el.find("#modify_perm"),ajax:{url:"/api/libraries/datasets/"+q.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(i,t){return{q:i,page_limit:10,page:t}},results:function(u,t){var i=(t*10)<u.total;return{results:u.roles,more:i}}},formatResult:function j(i){return i.name+" type: "+i.type},formatSelection:function e(i){return i.name},initSelection:function(i,u){var t=[];$(i.val().split(",")).each(function(){var v=this.split(":");t.push({id:v[1],name:v[1]})});u(t)},initialData:f.join(","),dropdownCssClass:"bigdrop"};var p={minimumInputLength:0,css:"manage_perm",multiple:true,placeholder:"Click to select a role",container:q.$el.find("#manage_perm"),ajax:{url:"/api/libraries/datasets/"+q.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(i,t){return{q:i,page_limit:10,page:t}},results:function(u,t){var i=(t*10)<u.total;return{results:u.roles,more:i}}},formatResult:function j(i){return i.name+" type: "+i.type},formatSelection:function e(i){return i.name},initSelection:function(i,u){var t=[];$(i.val().split(",")).each(function(){var v=this.split(":");t.push({id:v[1],name:v[1]})});u(t)},initialData:g.join(","),dropdownCssClass:"bigdrop"};q.accessSelectObject=new b.View(o);q.modifySelectObject=new b.View(l);q.manageSelectObject=new b.View(p)}else{var n=q.templateAccessSelect();$.get("/api/libraries/datasets/"+q.id+"/permissions?scope=available",function(i){$(".access_perm").html(n({options:i.roles}));q.accessSelectObject=$("#access_select").select2()}).fail(function(){d.error("An error occurred while fetching data with permissions. :(")})}},comingSoon:function(){d.warning("Feature coming soon")},copyToClipboard:function(){var e=Backbone.history.location.href;if(e.lastIndexOf("/permissions")!==-1){e=e.substr(0,e.lastIndexOf("/permissions"))}window.prompt("Copy to clipboard: Ctrl+C, Enter",e)},makeDatasetPrivate:function(){var e=this;$.post("/api/libraries/datasets/"+e.id+"/permissions?action=make_private").done(function(f){e.model.set({is_unrestricted:false});e.showPermissions({fetched_permissions:f});d.success("The dataset is now private to you")}).fail(function(){d.error("An error occurred while making dataset private :(")})},removeDatasetRestrictions:function(){var e=this;$.post("/api/libraries/datasets/"+e.id+"/permissions?action=remove_restrictions").done(function(f){e.model.set({is_unrestricted:true});e.showPermissions({fetched_permissions:f});d.success("Access to this dataset is now unrestricted")}).fail(function(){d.error("An error occurred while making dataset unrestricted :(")})},savePermissions:function(e){var n=this;var k=this.accessSelectObject.$el.select2("data");var f=this.manageSelectObject.$el.select2("data");var m=this.modifySelectObject.$el.select2("data");var g=[];var j=[];var l=[];for(var h=k.length-1;h>=0;h--){g.push(k[h].id)}for(var h=f.length-1;h>=0;h--){j.push(f[h].id)}for(var h=m.length-1;h>=0;h--){l.push(m[h].id)}$.post("/api/libraries/datasets/"+n.id+"/permissions?action=set_permissions",{"access_ids[]":g,"manage_ids[]":j,"modify_ids[]":l,}).done(function(i){n.showPermissions({fetched_permissions:i});d.success("Permissions saved")}).fail(function(){d.error("An error occurred while setting dataset permissions :(")})},templateDataset:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <button data-toggle="tooltip" data-placement="top" title="Download dataset" class="btn btn-default toolbtn-download-dataset primary-button" type="button"><span class="fa fa-download"></span> Download</span></button>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Import dataset into history" class="btn btn-default toolbtn-import-dataset primary-button" type="button"><span class="fa fa-book"></span> to History</span></button>');e.push('   <% if (item.get("can_user_modify")) { %>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Modify library item" class="btn btn-default toolbtn_modify_dataset primary-button" type="button"><span class="fa fa-pencil"></span> Modify</span></button>');e.push("   <% } %>");e.push('   <% if (item.get("can_user_manage")) { %>');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>/permissions"><button data-toggle="tooltip" data-placement="top" title="Manage permissions" class="btn btn-default toolbtn_change_permissions primary-button" type="button"><span class="fa fa-group"></span> Permissions</span></button></a>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Share dataset" class="btn btn-default toolbtn-share-dataset primary-button" type="button"><span class="fa fa-share"></span> Share</span></button>');e.push("   <% } %>");e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a></li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('<% if (item.get("is_unrestricted")) { %>');e.push('  <div class="alert alert-info">');e.push("  This dataset is unrestricted so everybody can access it. Just share the URL of this page. ");e.push('  <button data-toggle="tooltip" data-placement="top" title="Copy to clipboard" class="btn btn-default btn-copy-link-to-clipboard primary-button" type="button"><span class="fa fa-clipboard"></span> To Clipboard</span></button> ');e.push("  </div>");e.push("<% } %>");e.push('<div class="dataset_table">');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(item.get("ldda_id")) %>">Name</th>');e.push('           <td><%= _.escape(item.get("name")) %></td>');e.push("       </tr>");e.push('   <% if (item.get("file_ext")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(item.get("file_ext")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("genome_build")) { %>');e.push("       <tr>");e.push('           <th scope="row">Genome build</th>');e.push('           <td><%= _.escape(item.get("genome_build")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("file_size")) { %>');e.push("       <tr>");e.push('           <th scope="row">Size</th>');e.push('           <td><%= _.escape(item.get("file_size")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("date_uploaded")) { %>');e.push("       <tr>");e.push('           <th scope="row">Date uploaded (UTC)</th>');e.push('           <td><%= _.escape(item.get("date_uploaded")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("uploaded_by")) { %>');e.push("       <tr>");e.push('           <th scope="row">Uploaded by</th>');e.push('           <td><%= _.escape(item.get("uploaded_by")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_data_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data Lines</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_data_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_comment_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Comment Lines</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_comment_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_columns")) { %>');e.push("       <tr>");e.push('           <th scope="row">Number of Columns</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_columns")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_column_types")) { %>');e.push("       <tr>");e.push('           <th scope="row">Column Types</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_column_types")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("message")) { %>');e.push("       <tr>");e.push('           <th scope="row">Message</th>');e.push('           <td scope="row"><%= _.escape(item.get("message")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("misc_blurb")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous blurb</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_blurb")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("misc_info")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous information</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_info")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push("    </table>");e.push("    <div>");e.push('        <pre class="peek">');e.push("        </pre>");e.push("    </div>");e.push('   <% if (item.get("has_versions")) { %>');e.push("      <div>");e.push("      <h3>Expired versions:</h3>");e.push("      <ul>");e.push('      <% _.each(item.get("expired_versions"), function(version) { %>');e.push('        <li><a title="See details of this version" href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>/versions/<%- version[0] %>"><%- version[1] %></a></li>');e.push("      <% }) %>");e.push("      <ul>");e.push("      </div>");e.push("   <% } %>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateVersion:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>"><button data-toggle="tooltip" data-placement="top" title="Go to latest dataset" class="btn btn-default primary-button" type="button"><span class="fa fa-caret-left fa-lg"></span> Latest dataset</span></button><a>');e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a></li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('  <div class="alert alert-warning">This is an expired version of the library dataset: <%= _.escape(item.get("name")) %></div>');e.push('<div class="dataset_table">');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(ldda.id) %>">Name</th>');e.push('           <td><%= _.escape(ldda.get("name")) %></td>');e.push("       </tr>");e.push('   <% if (ldda.get("file_ext")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(ldda.get("file_ext")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("genome_build")) { %>');e.push("       <tr>");e.push('           <th scope="row">Genome build</th>');e.push('           <td><%= _.escape(ldda.get("genome_build")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("file_size")) { %>');e.push("       <tr>");e.push('           <th scope="row">Size</th>');e.push('           <td><%= _.escape(ldda.get("file_size")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("date_uploaded")) { %>');e.push("       <tr>");e.push('           <th scope="row">Date uploaded (UTC)</th>');e.push('           <td><%= _.escape(ldda.get("date_uploaded")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("uploaded_by")) { %>');e.push("       <tr>");e.push('           <th scope="row">Uploaded by</th>');e.push('           <td><%= _.escape(ldda.get("uploaded_by")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_data_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data Lines</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_data_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_comment_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Comment Lines</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_comment_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_columns")) { %>');e.push("       <tr>");e.push('           <th scope="row">Number of Columns</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_columns")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_column_types")) { %>');e.push("       <tr>");e.push('           <th scope="row">Column Types</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_column_types")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("message")) { %>');e.push("       <tr>");e.push('           <th scope="row">Message</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("message")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("misc_blurb")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous blurb</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("misc_blurb")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("misc_info")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous information</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("misc_info")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push("    </table>");e.push("    <div>");e.push('        <pre class="peek">');e.push("        </pre>");e.push("    </div>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateModifyDataset:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <button data-toggle="tooltip" data-placement="top" title="Cancel modifications" class="btn btn-default toolbtn_cancel_modifications primary-button" type="button"><span class="fa fa-times"></span> Cancel</span></button>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Save modifications" class="btn btn-default toolbtn_save_modifications primary-button" type="button"><span class="fa fa-floppy-o"></span> Save</span></button>');e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a></li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('<div class="dataset_table">');e.push('<p>For more editing options please import the dataset to history and use "Edit attributes" on it.</p>');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(item.get("ldda_id")) %>">Name</th>');e.push('           <td><input class="input_dataset_name form-control" type="text" placeholder="name" value="<%= _.escape(item.get("name")) %>"></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(item.get("file_ext")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Genome build</th>');e.push('           <td><%= _.escape(item.get("genome_build")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Size</th>');e.push('           <td><%= _.escape(item.get("file_size")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Date uploaded (UTC)</th>');e.push('           <td><%= _.escape(item.get("date_uploaded")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Uploaded by</th>');e.push('           <td><%= _.escape(item.get("uploaded_by")) %></td>');e.push("       </tr>");e.push('           <tr scope="row">');e.push('           <th scope="row">Data Lines</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_data_lines")) %></td>');e.push("       </tr>");e.push('       <th scope="row">Comment Lines</th>');e.push('           <% if (item.get("metadata_comment_lines") === "") { %>');e.push('               <td scope="row"><%= _.escape(item.get("metadata_comment_lines")) %></td>');e.push("           <% } else { %>");e.push('               <td scope="row">unknown</td>');e.push("           <% } %>");e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Number of Columns</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_columns")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Column Types</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_column_types")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Message</th>');e.push('           <td scope="row"><%= _.escape(item.get("message")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Miscellaneous information</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_info")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Miscellaneous blurb</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_blurb")) %></td>');e.push("       </tr>");e.push("   </table>");e.push("<div>");e.push('   <pre class="peek">');e.push("   </pre>");e.push("</div>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateDatasetPermissions:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <a href="#folders/<%- item.get("folder_id") %>"><button data-toggle="tooltip" data-placement="top" title="Go back to containing folder" class="btn btn-default primary-button" type="button"><span class="fa fa-folder-open-o"></span> Containing Folder</span></button></a>');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>"><button data-toggle="tooltip" data-placement="top" title="Go back to dataset" class="btn btn-default primary-button" type="button"><span class="fa fa-file-o"></span> Dataset Details</span></button><a>');e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a></li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('<h1>Dataset: <%= _.escape(item.get("name")) %></h1>');e.push('<div class="alert alert-warning">');e.push("<% if (is_admin) { %>");e.push("You are logged in as an <strong>administrator</strong> therefore you can manage any dataset on this Galaxy instance. Please make sure you understand the consequences.");e.push("<% } else { %>");e.push("You can assign any number of roles to any of the following permission types. However please read carefully the implications of such actions.");e.push("<% } %>");e.push("</div>");e.push('<div class="dataset_table">');e.push("<h2>Library-related permissions</h2>");e.push("<h4>Roles that can modify the library item</h4>");e.push('<div id="modify_perm" class="modify_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can modify name, metadata, and other information about this library item.</div>');e.push("<hr/>");e.push("<h2>Dataset-related permissions</h2>");e.push('<div class="alert alert-warning">Changes made below will affect <strong>every</strong> library item that was created from this dataset and also every history this dataset is part of.</div>');e.push('<% if (!item.get("is_unrestricted")) { %>');e.push(" <p>You can remove all access restrictions on this dataset. ");e.push(' <button data-toggle="tooltip" data-placement="top" title="Everybody will be able to access the dataset." class="btn btn-default btn-remove-restrictions primary-button" type="button">');e.push(' <span class="fa fa-globe"> Remove restrictions</span>');e.push(" </button>");e.push(" </p>");e.push("<% } else { %>");e.push("  This dataset is unrestricted so everybody can access it. Just share the URL of this page.");e.push('  <button data-toggle="tooltip" data-placement="top" title="Copy to clipboard" class="btn btn-default btn-copy-link-to-clipboard primary-button" type="button"><span class="fa fa-clipboard"> To Clipboard</span></button> ');e.push("  <p>You can make this dataset private to you. ");e.push(' <button data-toggle="tooltip" data-placement="top" title="Only you will be able to access the dataset." class="btn btn-default btn-make-private primary-button" type="button"><span class="fa fa-key"> Make Private</span></button>');e.push(" </p>");e.push("<% } %>");e.push("<h4>Roles that can access the dataset</h4>");e.push('<div id="access_perm" class="access_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User has to have <strong>all these roles</strong> in order to access this dataset. Users without access permission <strong>cannot</strong> have other permissions on this dataset. If there are no access roles set on the dataset it is considered <strong>unrestricted</strong>.</div>');e.push("<h4>Roles that can manage permissions on the dataset</h4>");e.push('<div id="manage_perm" class="manage_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can manage permissions of this dataset. If you remove yourself you will loose the ability manage this dataset unless you are an admin.</div>');e.push('<button data-toggle="tooltip" data-placement="top" title="Save modifications made on this page" class="btn btn-default toolbtn_save_permissions primary-button" type="button"><span class="fa fa-floppy-o"></span> Save</span></button>');e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateBulkImportInModal:function(){var e=[];e.push('<span id="history_modal_combo_bulk" style="width:90%; margin-left: 1em; margin-right: 1em; ">');e.push("Select history: ");e.push('<select id="dataset_import_single" name="dataset_import_single" style="width:50%; margin-bottom: 1em; "> ');e.push("   <% _.each(histories, function(history) { %>");e.push('       <option value="<%= _.escape(history.get("id")) %>"><%= _.escape(history.get("name")) %></option>');e.push("   <% }); %>");e.push("</select>");e.push("</span>");return _.template(e.join(""))},templateAccessSelect:function(){var e=[];e.push('<select id="access_select" multiple>');e.push("   <% _.each(options, function(option) { %>");e.push('       <option value="<%- option.name %>"><%- option.name %></option>');e.push("   <% }); %>");e.push("</select>");return _.template(e.join(""))}});return{LibraryDatasetView:a}});
\ No newline at end of file
+define(["libs/toastr","mvc/library/library-model","mvc/ui/ui-select"],function(d,c,b){var a=Backbone.View.extend({el:"#center",model:null,options:{},events:{"click .toolbtn_modify_dataset":"enableModification","click .toolbtn_cancel_modifications":"render","click .toolbtn-download-dataset":"downloadDataset","click .toolbtn-import-dataset":"importIntoHistory","click .toolbtn-share-dataset":"shareDataset","click .btn-copy-link-to-clipboard":"copyToClipboard","click .btn-make-private":"makeDatasetPrivate","click .btn-remove-restrictions":"removeDatasetRestrictions","click .toolbtn_save_permissions":"savePermissions","click .toolbtn_save_modifications":"comingSoon",},initialize:function(e){this.options=_.extend(this.options,e);if(this.options.id){this.fetchDataset()}},fetchDataset:function(e){this.options=_.extend(this.options,e);this.model=new c.Item({id:this.options.id});var f=this;this.model.fetch({success:function(){if(f.options.show_permissions){f.showPermissions()}else{if(f.options.show_version){f.fetchVersion()}else{f.render()}}},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error(g.responseJSON.err_msg+" Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}else{d.error("An error ocurred :(. Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}}})},render:function(e){this.options=_.extend(this.options,e);$(".tooltip").remove();var f=this.templateDataset();this.$el.html(f({item:this.model}));$(".peek").html(this.model.get("peek"));$("#center [data-toggle]").tooltip()},fetchVersion:function(e){this.options=_.extend(this.options,e);that=this;if(!this.options.ldda_id){this.render();d.error("Library dataset version requested but no id provided.")}else{this.ldda=new c.Ldda({id:this.options.ldda_id});this.ldda.url=this.ldda.urlRoot+this.model.id+"/versions/"+this.ldda.id;this.ldda.fetch({success:function(){that.renderVersion()},error:function(g,f){if(typeof f.responseJSON!=="undefined"){d.error(f.responseJSON.err_msg)}else{d.error("An error ocurred :(")}}})}},renderVersion:function(){$(".tooltip").remove();var e=this.templateVersion();this.$el.html(e({item:this.model,ldda:this.ldda}));$(".peek").html(this.ldda.get("peek"))},enableModification:function(){$(".tooltip").remove();var e=this.templateModifyDataset();this.$el.html(e({item:this.model}));$(".peek").html(this.model.get("peek"));$("#center [data-toggle]").tooltip()},downloadDataset:function(){var e="/api/libraries/datasets/download/uncompressed";var f={ldda_ids:this.id};this.processDownload(e,f)},processDownload:function(f,g,h){if(f&&g){g=typeof g=="string"?g:$.param(g);var e="";$.each(g.split("&"),function(){var i=this.split("=");e+='<input type="hidden" name="'+i[0]+'" value="'+i[1]+'" />'});$('<form action="'+f+'" method="'+(h||"post")+'">'+e+"</form>").appendTo("body").submit().remove();d.info("Your download will begin soon")}},importIntoHistory:function(){this.refreshUserHistoriesList(function(e){var f=e.templateBulkImportInModal();e.modal=Galaxy.modal;e.modal.show({closing_events:true,title:"Import into History",body:f({histories:e.histories.models}),buttons:{Import:function(){e.importCurrentIntoHistory()},Close:function(){Galaxy.modal.hide()}}})})},refreshUserHistoriesList:function(f){var e=this;this.histories=new c.GalaxyHistories();this.histories.fetch({success:function(g){if(g.length===0){d.warning("You have to create history first. Click this to do so.","",{onclick:function(){window.location="/"}})}else{f(e)}},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error(g.responseJSON.err_msg)}else{d.error("An error ocurred :(")}}})},importCurrentIntoHistory:function(){var e=$(this.modal.elMain).find("select[name=dataset_import_single] option:selected").val();var f=new c.HistoryItem();f.url=f.urlRoot+e+"/contents";jQuery.getJSON(galaxy_config.root+"history/set_as_current?id="+e);f.save({content:this.id,source:"library"},{success:function(){Galaxy.modal.hide();d.success("Dataset imported. Click this to start analysing it.","",{onclick:function(){window.location="/"}})},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error("Dataset not imported. "+g.responseJSON.err_msg)}else{d.error("An error occured! Dataset not imported. Please try again.")}}})},shareDataset:function(){d.info("Feature coming soon.")},goBack:function(){Galaxy.libraries.library_router.back()},showPermissions:function(f){this.options=_.extend(this.options,f);$(".tooltip").remove();if(this.options.fetched_permissions!==undefined){if(this.options.fetched_permissions.access_dataset_roles.length===0){this.model.set({is_unrestricted:true})}else{this.model.set({is_unrestricted:false})}}var h=false;if(Galaxy.currUser){h=Galaxy.currUser.isAdmin()}var g=this.templateDatasetPermissions();this.$el.html(g({item:this.model,is_admin:h}));var e=this;if(this.options.fetched_permissions===undefined){$.get("/api/libraries/datasets/"+e.id+"/permissions?scope=current").done(function(i){e.prepareSelectBoxes({fetched_permissions:i,is_admin:h})}).fail(function(){d.error("An error occurred while fetching dataset permissions. :(")})}else{this.prepareSelectBoxes({is_admin:h})}$("#center [data-toggle]").tooltip();$("#center").css("overflow","auto")},prepareSelectBoxes:function(r){this.options=_.extend(this.options,r);var s=this.options.fetched_permissions;var k=this.options.is_admin;var q=this;var m=[];for(var h=0;h<s.access_dataset_roles.length;h++){m.push(s.access_dataset_roles[h]+":"+s.access_dataset_roles[h])}var f=[];for(var h=0;h<s.modify_item_roles.length;h++){f.push(s.modify_item_roles[h]+":"+s.modify_item_roles[h])}var g=[];for(var h=0;h<s.manage_dataset_roles.length;h++){g.push(s.manage_dataset_roles[h]+":"+s.manage_dataset_roles[h])}if(k){var o={minimumInputLength:0,css:"access_perm",multiple:true,placeholder:"Click to select a role",container:q.$el.find("#access_perm"),ajax:{url:"/api/libraries/datasets/"+q.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(i,t){return{q:i,page_limit:10,page:t}},results:function(u,t){var i=(t*10)<u.total;return{results:u.roles,more:i}}},formatResult:function j(i){return i.name+" type: "+i.type},formatSelection:function e(i){return i.name},initSelection:function(i,u){var t=[];$(i.val().split(",")).each(function(){var v=this.split(":");t.push({id:v[1],name:v[1]})});u(t)},initialData:m.join(","),dropdownCssClass:"bigdrop"};var l={minimumInputLength:0,css:"modify_perm",multiple:true,placeholder:"Click to select a role",container:q.$el.find("#modify_perm"),ajax:{url:"/api/libraries/datasets/"+q.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(i,t){return{q:i,page_limit:10,page:t}},results:function(u,t){var i=(t*10)<u.total;return{results:u.roles,more:i}}},formatResult:function j(i){return i.name+" type: "+i.type},formatSelection:function e(i){return i.name},initSelection:function(i,u){var t=[];$(i.val().split(",")).each(function(){var v=this.split(":");t.push({id:v[1],name:v[1]})});u(t)},initialData:f.join(","),dropdownCssClass:"bigdrop"};var p={minimumInputLength:0,css:"manage_perm",multiple:true,placeholder:"Click to select a role",container:q.$el.find("#manage_perm"),ajax:{url:"/api/libraries/datasets/"+q.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(i,t){return{q:i,page_limit:10,page:t}},results:function(u,t){var i=(t*10)<u.total;return{results:u.roles,more:i}}},formatResult:function j(i){return i.name+" type: "+i.type},formatSelection:function e(i){return i.name},initSelection:function(i,u){var t=[];$(i.val().split(",")).each(function(){var v=this.split(":");t.push({id:v[1],name:v[1]})});u(t)},initialData:g.join(","),dropdownCssClass:"bigdrop"};q.accessSelectObject=new b.View(o);q.modifySelectObject=new b.View(l);q.manageSelectObject=new b.View(p)}else{var n=q.templateAccessSelect();$.get("/api/libraries/datasets/"+q.id+"/permissions?scope=available",function(i){$(".access_perm").html(n({options:i.roles}));q.accessSelectObject=$("#access_select").select2()}).fail(function(){d.error("An error occurred while fetching data with permissions. :(")})}},comingSoon:function(){d.warning("Feature coming soon")},copyToClipboard:function(){var e=Backbone.history.location.href;if(e.lastIndexOf("/permissions")!==-1){e=e.substr(0,e.lastIndexOf("/permissions"))}window.prompt("Copy to clipboard: Ctrl+C, Enter",e)},makeDatasetPrivate:function(){var e=this;$.post("/api/libraries/datasets/"+e.id+"/permissions?action=make_private").done(function(f){e.model.set({is_unrestricted:false});e.showPermissions({fetched_permissions:f});d.success("The dataset is now private to you")}).fail(function(){d.error("An error occurred while making dataset private :(")})},removeDatasetRestrictions:function(){var e=this;$.post("/api/libraries/datasets/"+e.id+"/permissions?action=remove_restrictions").done(function(f){e.model.set({is_unrestricted:true});e.showPermissions({fetched_permissions:f});d.success("Access to this dataset is now unrestricted")}).fail(function(){d.error("An error occurred while making dataset unrestricted :(")})},savePermissions:function(e){var n=this;var k=this.accessSelectObject.$el.select2("data");var f=this.manageSelectObject.$el.select2("data");var m=this.modifySelectObject.$el.select2("data");var g=[];var j=[];var l=[];for(var h=k.length-1;h>=0;h--){g.push(k[h].id)}for(var h=f.length-1;h>=0;h--){j.push(f[h].id)}for(var h=m.length-1;h>=0;h--){l.push(m[h].id)}$.post("/api/libraries/datasets/"+n.id+"/permissions?action=set_permissions",{"access_ids[]":g,"manage_ids[]":j,"modify_ids[]":l,}).done(function(i){n.showPermissions({fetched_permissions:i});d.success("Permissions saved")}).fail(function(){d.error("An error occurred while setting dataset permissions :(")})},templateDataset:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <button data-toggle="tooltip" data-placement="top" title="Download dataset" class="btn btn-default toolbtn-download-dataset primary-button" type="button"><span class="fa fa-download"></span> Download</span></button>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Import dataset into history" class="btn btn-default toolbtn-import-dataset primary-button" type="button"><span class="fa fa-book"></span> to History</span></button>');e.push('   <% if (item.get("can_user_modify")) { %>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Modify library item" class="btn btn-default toolbtn_modify_dataset primary-button" type="button"><span class="fa fa-pencil"></span> Modify</span></button>');e.push("   <% } %>");e.push('   <% if (item.get("can_user_manage")) { %>');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>/permissions"><button data-toggle="tooltip" data-placement="top" title="Manage permissions" class="btn btn-default toolbtn_change_permissions primary-button" type="button"><span class="fa fa-group"></span> Permissions</span></button></a>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Share dataset" class="btn btn-default toolbtn-share-dataset primary-button" type="button"><span class="fa fa-share"></span> Share</span></button>');e.push("   <% } %>");e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a></li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('<% if (item.get("is_unrestricted")) { %>');e.push('  <div class="alert alert-info">');e.push("  This dataset is unrestricted so everybody can access it. Just share the URL of this page. ");e.push('  <button data-toggle="tooltip" data-placement="top" title="Copy to clipboard" class="btn btn-default btn-copy-link-to-clipboard primary-button" type="button"><span class="fa fa-clipboard"></span> To Clipboard</span></button> ');e.push("  </div>");e.push("<% } %>");e.push('<div class="dataset_table">');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(item.get("ldda_id")) %>">Name</th>');e.push('           <td><%= _.escape(item.get("name")) %></td>');e.push("       </tr>");e.push('   <% if (item.get("file_ext")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(item.get("file_ext")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("genome_build")) { %>');e.push("       <tr>");e.push('           <th scope="row">Genome build</th>');e.push('           <td><%= _.escape(item.get("genome_build")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("file_size")) { %>');e.push("       <tr>");e.push('           <th scope="row">Size</th>');e.push('           <td><%= _.escape(item.get("file_size")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("date_uploaded")) { %>');e.push("       <tr>");e.push('           <th scope="row">Date uploaded (UTC)</th>');e.push('           <td><%= _.escape(item.get("date_uploaded")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("uploaded_by")) { %>');e.push("       <tr>");e.push('           <th scope="row">Uploaded by</th>');e.push('           <td><%= _.escape(item.get("uploaded_by")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_data_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data Lines</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_data_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_comment_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Comment Lines</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_comment_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_columns")) { %>');e.push("       <tr>");e.push('           <th scope="row">Number of Columns</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_columns")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_column_types")) { %>');e.push("       <tr>");e.push('           <th scope="row">Column Types</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_column_types")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("message")) { %>');e.push("       <tr>");e.push('           <th scope="row">Message</th>');e.push('           <td scope="row"><%= _.escape(item.get("message")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("misc_blurb")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous blurb</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_blurb")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("misc_info")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous information</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_info")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push("    </table>");e.push("    <div>");e.push('        <pre class="peek">');e.push("        </pre>");e.push("    </div>");e.push('   <% if (item.get("has_versions")) { %>');e.push("      <div>");e.push("      <h3>Expired versions:</h3>");e.push("      <ul>");e.push('      <% _.each(item.get("expired_versions"), function(version) { %>');e.push('        <li><a title="See details of this version" href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>/versions/<%- version[0] %>"><%- version[1] %></a></li>');e.push("      <% }) %>");e.push("      <ul>");e.push("      </div>");e.push("   <% } %>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateVersion:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>"><button data-toggle="tooltip" data-placement="top" title="Go to latest dataset" class="btn btn-default primary-button" type="button"><span class="fa fa-caret-left fa-lg"></span> Latest dataset</span></button><a>');e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a></li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('  <div class="alert alert-warning">This is an expired version of the library dataset: <%= _.escape(item.get("name")) %></div>');e.push('<div class="dataset_table">');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(ldda.id) %>">Name</th>');e.push('           <td><%= _.escape(ldda.get("name")) %></td>');e.push("       </tr>");e.push('   <% if (ldda.get("file_ext")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(ldda.get("file_ext")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("genome_build")) { %>');e.push("       <tr>");e.push('           <th scope="row">Genome build</th>');e.push('           <td><%= _.escape(ldda.get("genome_build")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("file_size")) { %>');e.push("       <tr>");e.push('           <th scope="row">Size</th>');e.push('           <td><%= _.escape(ldda.get("file_size")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("date_uploaded")) { %>');e.push("       <tr>");e.push('           <th scope="row">Date uploaded (UTC)</th>');e.push('           <td><%= _.escape(ldda.get("date_uploaded")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("uploaded_by")) { %>');e.push("       <tr>");e.push('           <th scope="row">Uploaded by</th>');e.push('           <td><%= _.escape(ldda.get("uploaded_by")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_data_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data Lines</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_data_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_comment_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Comment Lines</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_comment_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_columns")) { %>');e.push("       <tr>");e.push('           <th scope="row">Number of Columns</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_columns")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_column_types")) { %>');e.push("       <tr>");e.push('           <th scope="row">Column Types</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_column_types")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("message")) { %>');e.push("       <tr>");e.push('           <th scope="row">Message</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("message")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("misc_blurb")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous blurb</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("misc_blurb")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("misc_info")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous information</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("misc_info")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push("    </table>");e.push("    <div>");e.push('        <pre class="peek">');e.push("        </pre>");e.push("    </div>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateModifyDataset:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <button data-toggle="tooltip" data-placement="top" title="Cancel modifications" class="btn btn-default toolbtn_cancel_modifications primary-button" type="button"><span class="fa fa-times"></span> Cancel</span></button>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Save modifications" class="btn btn-default toolbtn_save_modifications primary-button" type="button"><span class="fa fa-floppy-o"></span> Save</span></button>');e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a></li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('<div class="dataset_table">');e.push('<p>For more editing options please import the dataset to history and use "Edit attributes" on it.</p>');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(item.get("ldda_id")) %>">Name</th>');e.push('           <td><input class="input_dataset_name form-control" type="text" placeholder="name" value="<%= _.escape(item.get("name")) %>"></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(item.get("file_ext")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Genome build</th>');e.push('           <td><%= _.escape(item.get("genome_build")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Size</th>');e.push('           <td><%= _.escape(item.get("file_size")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Date uploaded (UTC)</th>');e.push('           <td><%= _.escape(item.get("date_uploaded")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Uploaded by</th>');e.push('           <td><%= _.escape(item.get("uploaded_by")) %></td>');e.push("       </tr>");e.push('           <tr scope="row">');e.push('           <th scope="row">Data Lines</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_data_lines")) %></td>');e.push("       </tr>");e.push('       <th scope="row">Comment Lines</th>');e.push('           <% if (item.get("metadata_comment_lines") === "") { %>');e.push('               <td scope="row"><%= _.escape(item.get("metadata_comment_lines")) %></td>');e.push("           <% } else { %>");e.push('               <td scope="row">unknown</td>');e.push("           <% } %>");e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Number of Columns</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_columns")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Column Types</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_column_types")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Message</th>');e.push('           <td scope="row"><%= _.escape(item.get("message")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Miscellaneous information</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_info")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Miscellaneous blurb</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_blurb")) %></td>');e.push("       </tr>");e.push("   </table>");e.push("<div>");e.push('   <pre class="peek">');e.push("   </pre>");e.push("</div>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateDatasetPermissions:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <a href="#folders/<%- item.get("folder_id") %>"><button data-toggle="tooltip" data-placement="top" title="Go back to containing folder" class="btn btn-default primary-button" type="button"><span class="fa fa-folder-open-o"></span> Containing Folder</span></button></a>');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>"><button data-toggle="tooltip" data-placement="top" title="Go back to dataset" class="btn btn-default primary-button" type="button"><span class="fa fa-file-o"></span> Dataset Details</span></button><a>');e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a></li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('<h1>Dataset: <%= _.escape(item.get("name")) %></h1>');e.push('<div class="alert alert-warning">');e.push("<% if (is_admin) { %>");e.push("You are logged in as an <strong>administrator</strong> therefore you can manage any dataset on this Galaxy instance. Please make sure you understand the consequences.");e.push("<% } else { %>");e.push("You can assign any number of roles to any of the following permission types. However please read carefully the implications of such actions.");e.push("<% } %>");e.push("</div>");e.push('<div class="dataset_table">');e.push("<h2>Library-related permissions</h2>");e.push("<h4>Roles that can modify the library item</h4>");e.push('<div id="modify_perm" class="modify_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can modify name, metadata, and other information about this library item.</div>');e.push("<hr/>");e.push("<h2>Dataset-related permissions</h2>");e.push('<div class="alert alert-warning">Changes made below will affect <strong>every</strong> library item that was created from this dataset and also every history this dataset is part of.</div>');e.push('<% if (!item.get("is_unrestricted")) { %>');e.push(" <p>You can remove all access restrictions on this dataset. ");e.push(' <button data-toggle="tooltip" data-placement="top" title="Everybody will be able to access the dataset." class="btn btn-default btn-remove-restrictions primary-button" type="button">');e.push(' <span class="fa fa-globe"> Remove restrictions</span>');e.push(" </button>");e.push(" </p>");e.push("<% } else { %>");e.push("  This dataset is unrestricted so everybody can access it. Just share the URL of this page.");e.push('  <button data-toggle="tooltip" data-placement="top" title="Copy to clipboard" class="btn btn-default btn-copy-link-to-clipboard primary-button" type="button"><span class="fa fa-clipboard"> To Clipboard</span></button> ');e.push("  <p>You can make this dataset private to you. ");e.push(' <button data-toggle="tooltip" data-placement="top" title="Only you will be able to access the dataset." class="btn btn-default btn-make-private primary-button" type="button"><span class="fa fa-key"> Make Private</span></button>');e.push(" </p>");e.push("<% } %>");e.push("<h4>Roles that can access the dataset</h4>");e.push('<div id="access_perm" class="access_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User has to have <strong>all these roles</strong> in order to access this dataset. Users without access permission <strong>cannot</strong> have other permissions on this dataset. If there are no access roles set on the dataset it is considered <strong>unrestricted</strong>.</div>');e.push("<h4>Roles that can manage permissions on the dataset</h4>");e.push('<div id="manage_perm" class="manage_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can manage permissions of this dataset. If you remove yourself you will loose the ability manage this dataset unless you are an admin.</div>');e.push('<button data-toggle="tooltip" data-placement="top" title="Save modifications made on this page" class="btn btn-default toolbtn_save_permissions primary-button" type="button"><span class="fa fa-floppy-o"></span> Save</span></button>');e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateBulkImportInModal:function(){var e=[];e.push('<span id="history_modal_combo_bulk" style="width:90%; margin-left: 1em; margin-right: 1em; ">');e.push("Select history: ");e.push('<select id="dataset_import_single" name="dataset_import_single" style="width:50%; margin-bottom: 1em; "> ');e.push("   <% _.each(histories, function(history) { %>");e.push('       <option value="<%= _.escape(history.get("id")) %>"><%= _.escape(history.get("name")) %></option>');e.push("   <% }); %>");e.push("</select>");e.push("</span>");return _.template(e.join(""))},templateAccessSelect:function(){var e=[];e.push('<select id="access_select" multiple>');e.push("   <% _.each(options, function(option) { %>");e.push('       <option value="<%- option.name %>"><%- option.name %></option>');e.push("   <% }); %>");e.push("</select>");return _.template(e.join(""))}});return{LibraryDatasetView:a}});
\ No newline at end of file

diff -r b05591d4a9631cb3d62a95e98153edc4c67ab395 -r 5ce55f9f2923dcdf27150cce3addd6e1ff3782d7 static/scripts/packed/mvc/library/library-foldertoolbar-view.js
--- a/static/scripts/packed/mvc/library/library-foldertoolbar-view.js
+++ b/static/scripts/packed/mvc/library/library-foldertoolbar-view.js
@@ -1,1 +1,1 @@
-define(["galaxy.masthead","utils/utils","libs/toastr","mvc/library/library-model"],function(b,d,e,c){var a=Backbone.View.extend({el:"#center",events:{"click #toolbtn_create_folder":"createFolderFromModal","click #toolbtn_bulk_import":"modalBulkImport","click .toolbtn_add_files":"addFilesToFolderModal","click #include_deleted_datasets_chk":"checkIncludeDeleted","click #toolbtn_show_libinfo":"showLibInfo","click #toolbtn_bulk_delete":"deleteSelectedDatasets"},defaults:{can_add_library_item:false,contains_file:false,chain_call_control:{total_number:0,failed_number:0}},modal:null,histories:null,initialize:function(f){this.options=_.defaults(f||{},this.defaults);this.render()},render:function(g){this.options=_.extend(this.options,g);var i=false;var f=true;if(Galaxy.currUser){i=Galaxy.currUser.isAdmin();f=Galaxy.currUser.isAnonymous()}var h=this.templateToolBar();this.$el.html(h({id:this.options.id,admin_user:i,anonym:f}))},configureElements:function(f){this.options=_.extend(this.options,f);if(this.options.can_add_library_item===true){$(".add-library-items").show()}else{$(".add-library-items").hide()}if(this.options.contains_file===true){if(Galaxy.currUser){if(!Galaxy.currUser.isAnonymous()){$(".logged-dataset-manipulation").show();$(".dataset-manipulation").show()}else{$(".dataset-manipulation").show();$(".logged-dataset-manipulation").hide()}}else{$(".logged-dataset-manipulation").hide();$(".dataset-manipulation").hide()}}else{$(".logged-dataset-manipulation").hide();$(".dataset-manipulation").hide()}this.$el.find("[data-toggle]").tooltip()},createFolderFromModal:function(){event.preventDefault();event.stopPropagation();var f=this;var g=this.templateNewFolderInModal();this.modal=Galaxy.modal;this.modal.show({closing_events:true,title:"Create New Folder",body:g(),buttons:{Create:function(){f.create_new_folder_event()},Close:function(){Galaxy.modal.hide()}}})},create_new_folder_event:function(){var f=this.serialize_new_folder();if(this.validate_new_folder(f)){var g=new c.FolderAsModel();url_items=Backbone.history.fragment.split("/");current_folder_id=url_items[url_items.length-1];g.url=g.urlRoot+"/"+current_folder_id;g.save(f,{success:function(h){Galaxy.modal.hide();e.success("Folder created");h.set({type:"folder"});Galaxy.libraries.folderListView.collection.add(h)},error:function(i,h){Galaxy.modal.hide();if(typeof h.responseJSON!=="undefined"){e.error(h.responseJSON.err_msg)}else{e.error("An error ocurred :(")}}})}else{e.error("Folder's name is missing")}return false},serialize_new_folder:function(){return{name:$("input[name='Name']").val(),description:$("input[name='Description']").val()}},validate_new_folder:function(f){return f.name!==""},modalBulkImport:function(){var f=$("#folder_table").find(":checked");if(f.length===0){e.info("You have to select some datasets first")}else{this.refreshUserHistoriesList(function(g){var h=g.templateBulkImportInModal();g.modal=Galaxy.modal;g.modal.show({closing_events:true,title:"Import into History",body:h({histories:g.histories.models}),buttons:{Import:function(){g.importAllIntoHistory()},Close:function(){Galaxy.modal.hide()}}})})}},refreshUserHistoriesList:function(g){var f=this;this.histories=new c.GalaxyHistories();this.histories.fetch({success:function(){g(f)},error:function(i,h){if(typeof h.responseJSON!=="undefined"){e.error(h.responseJSON.err_msg)}else{e.error("An error ocurred :(")}}})},importAllIntoHistory:function(){this.modal.disableButton("Import");this.options.chain_call_control.total_number=0;this.options.chain_call_control.failed_number=0;var k=$("select[name=dataset_import_bulk] option:selected").val();this.options.last_used_history_id=k;var n=$("select[name=dataset_import_bulk] option:selected").text();var p=[];$("#folder_table").find(":checked").each(function(){if(this.parentElement.parentElement.id!==""){p.push(this.parentElement.parentElement.id)}});var o=this.templateImportIntoHistoryProgressBar();this.modal.$el.find(".modal-body").html(o({history_name:n}));var l=100/p.length;this.initProgress(l);var f=[];for(var h=p.length-1;h>=0;h--){var j=p[h];var m=new c.HistoryItem();m.url=m.urlRoot+k+"/contents";m.content=j;m.source="library";f.push(m)}this.options.chain_call_control.total_number=f.length;var g="/api/histories/"+k+"/set_as_current";$.ajax({url:g,type:"PUT"});this.chainCall(f,n)},chainCall:function(g,j){var f=this;var h=g.pop();if(typeof h==="undefined"){if(this.options.chain_call_control.failed_number===0){e.success("Selected datasets imported into history. Click this to start analysing it.","",{onclick:function(){window.location="/"}})}else{if(this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number){e.error("There was an error and no datasets were imported into history.")}else{if(this.options.chain_call_control.failed_number<this.options.chain_call_control.total_number){e.warning("Some of the datasets could not be imported into history. Click this to see what was imported.","",{onclick:function(){window.location="/"}})}}}Galaxy.modal.hide();return}var i=$.when(h.save({content:h.content,source:h.source}));i.done(function(){f.updateProgress();f.chainCall(g,j)}).fail(function(){f.options.chain_call_control.failed_number+=1;f.updateProgress();f.chainCall(g,j)})},initProgress:function(f){this.progress=0;this.progressStep=f},updateProgress:function(){this.progress+=this.progressStep;$(".progress-bar-import").width(Math.round(this.progress)+"%");txt_representation=Math.round(this.progress)+"% Complete";$(".completion_span").text(txt_representation)},download:function(f,j){var h=[];$("#folder_table").find(":checked").each(function(){if(this.parentElement.parentElement.id!==""){h.push(this.parentElement.parentElement.id)}});var g="/api/libraries/datasets/download/"+j;var i={ldda_ids:h};this.processDownload(g,i,"get")},processDownload:function(g,h,i){if(g&&h){h=typeof h==="string"?h:$.param(h);var f="";$.each(h.split("&"),function(){var j=this.split("=");f+='<input type="hidden" name="'+j[0]+'" value="'+j[1]+'" />'});$('<form action="'+g+'" method="'+(i||"post")+'">'+f+"</form>").appendTo("body").submit().remove();e.info("Your download will begin soon")}},addFilesToFolderModal:function(){this.refreshUserHistoriesList(function(f){f.modal=Galaxy.modal;var g=f.templateAddFilesInModal();var h=f.options.full_path[f.options.full_path.length-1][1];f.modal.show({closing_events:true,title:"Add datasets from history to "+h,body:g({histories:f.histories.models}),buttons:{Add:function(){f.addAllDatasetsFromHistory()},Close:function(){Galaxy.modal.hide()}}});if(f.histories.models.length>0){f.fetchAndDisplayHistoryContents(f.histories.models[0].id);$("#dataset_add_bulk").change(function(i){f.fetchAndDisplayHistoryContents(i.target.value)})}else{e.error("An error ocurred :(")}})},fetchAndDisplayHistoryContents:function(h){var g=new c.HistoryContents({id:h});var f=this;g.fetch({success:function(j){var i=f.templateHistoryContents();f.histories.get(h).set({contents:j});f.modal.$el.find("#selected_history_content").html(i({history_contents:j.models.reverse()}))},error:function(j,i){if(typeof i.responseJSON!=="undefined"){e.error(i.responseJSON.err_msg)}else{e.error("An error ocurred :(")}}})},addAllDatasetsFromHistory:function(){this.modal.disableButton("Add");this.options.chain_call_control.total_number=0;this.options.chain_call_control.failed_number=0;var f=[];this.modal.$el.find("#selected_history_content").find(":checked").each(function(){var i=$(this.parentElement).data("id");if(i){f.push(i)}});var l=this.options.folder_name;var k=this.templateAddingDatasetsProgressBar();this.modal.$el.find(".modal-body").html(k({folder_name:l}));this.progressStep=100/f.length;this.progress=0;var j=[];for(var h=f.length-1;h>=0;h--){history_dataset_id=f[h];var g=new c.Item();g.url="/api/folders/"+this.options.id+"/contents";g.set({from_hda_id:history_dataset_id});j.push(g)}this.options.chain_call_control.total_number=j.length;this.chainCallAddingHdas(j)},chainCallAddingHdas:function(g){var f=this;this.added_hdas=new c.Folder();var h=g.pop();if(typeof h==="undefined"){if(this.options.chain_call_control.failed_number===0){e.success("Selected datasets from history added to the folder")}else{if(this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number){e.error("There was an error and no datasets were added to the folder.")}else{if(this.options.chain_call_control.failed_number<this.options.chain_call_control.total_number){e.warning("Some of the datasets could not be added to the folder")}}}Galaxy.modal.hide();return this.added_hdas}var i=$.when(h.save({from_hda_id:h.get("from_hda_id")}));i.done(function(j){Galaxy.libraries.folderListView.collection.add(j);f.updateProgress();f.chainCallAddingHdas(g)}).fail(function(){f.options.chain_call_control.failed_number+=1;f.updateProgress();f.chainCallAddingHdas(g)})},checkIncludeDeleted:function(f){if(f.target.checked){Galaxy.libraries.folderListView.fetchFolder({include_deleted:true})}else{Galaxy.libraries.folderListView.fetchFolder({include_deleted:false})}},deleteSelectedDatasets:function(){var f=$("#folder_table").find(":checked");if(f.length===0){e.info("You have to select some datasets first")}else{var j=this.templateDeletingDatasetsProgressBar();this.modal=Galaxy.modal;this.modal.show({closing_events:true,title:"Deleting selected datasets",body:j({}),buttons:{Close:function(){Galaxy.modal.hide()}}});this.options.chain_call_control.total_number=0;this.options.chain_call_control.failed_number=0;var g=[];f.each(function(){if(this.parentElement.parentElement.id!==""){g.push(this.parentElement.parentElement.id)}});this.progressStep=100/g.length;this.progress=0;var l=[];for(var h=g.length-1;h>=0;h--){var k=new c.Item({id:g[h]});l.push(k)}this.options.chain_call_control.total_number=g.length;this.chainCallDeletingHdas(l)}},chainCallDeletingHdas:function(g){var f=this;this.deleted_lddas=new c.Folder();var h=g.pop();if(typeof h==="undefined"){if(this.options.chain_call_control.failed_number===0){e.success("Selected datasets deleted")}else{if(this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number){e.error("There was an error and no datasets were deleted.")}else{if(this.options.chain_call_control.failed_number<this.options.chain_call_control.total_number){e.warning("Some of the datasets could not be deleted")}}}Galaxy.modal.hide();return this.deleted_lddas}var i=$.when(h.destroy());i.done(function(k){Galaxy.libraries.folderListView.collection.remove(h.id);f.updateProgress();if(Galaxy.libraries.folderListView.options.include_deleted){var j=new c.Item(k);Galaxy.libraries.folderListView.collection.add(j)}f.chainCallDeletingHdas(g)}).fail(function(){f.options.chain_call_control.failed_number+=1;f.updateProgress();f.chainCallDeletingHdas(g)})},showLibInfo:function(){var g=Galaxy.libraries.folderListView.folderContainer.attributes.metadata.parent_library_id;var f=null;var h=this;if(Galaxy.libraries.libraryListView!==null){f=Galaxy.libraries.libraryListView.collection.get(g)}else{f=new c.Library({id:g});f.fetch({success:function(){var i=h.templateLibInfoInModal();h.modal=Galaxy.modal;h.modal.show({closing_events:true,title:"Library Information",body:i({library:f}),buttons:{Close:function(){Galaxy.modal.hide()}}})},error:function(j,i){if(typeof i.responseJSON!=="undefined"){e.error(i.responseJSON.err_msg)}else{e.error("An error ocurred :(")}}})}},templateToolBar:function(){tmpl_array=[];tmpl_array.push('<div class="library_style_container">');tmpl_array.push(' <div id="library_toolbar">');tmpl_array.push("       <span><strong>DATA LIBRARIES</strong></span>");tmpl_array.push('   <span data-toggle="tooltip" data-placement="top" class="logged-dataset-manipulation" title="Include deleted datasets" style="display:none;"> | <input id="include_deleted_datasets_chk" style="margin: 0;" type="checkbox"> include deleted | </input></span>');tmpl_array.push('   <div class="btn-group add-library-items" style="display:none;">');tmpl_array.push('     <button data-toggle="tooltip" data-placement="top" title="Create New Folder" id="toolbtn_create_folder" class="btn btn-default primary-button" type="button"><span class="fa fa-plus"></span><span class="fa fa-folder"></span></button>');tmpl_array.push('     <button data-toggle="tooltip" data-placement="top" title="Add Datasets to Current Folder" id="toolbtn_add_files" class="btn btn-default toolbtn_add_files primary-button" type="button"><span class="fa fa-plus"></span><span class="fa fa-file"></span></span></button>');tmpl_array.push("   </div>");tmpl_array.push('   <button data-toggle="tooltip" data-placement="top" title="Import selected datasets into history" id="toolbtn_bulk_import" class="primary-button dataset-manipulation" style="margin-left: 0.5em; display:none;" type="button"><span class="fa fa-book"></span> to History</button>');tmpl_array.push('   <div id="toolbtn_dl" class="btn-group dataset-manipulation" style="margin-left: 0.5em; display:none; ">');tmpl_array.push('     <button title="Download selected datasets as archive" id="drop_toggle" type="button" class="primary-button dropdown-toggle" data-toggle="dropdown">');tmpl_array.push('     <span class="fa fa-download"></span> Download <span class="caret"></span>');tmpl_array.push("     </button>");tmpl_array.push('     <ul class="dropdown-menu" role="menu">');tmpl_array.push('        <li id="download_archive"><a href="#/folders/<%= id %>/download/tgz">.tar.gz</a></li>');tmpl_array.push('        <li id="download_archive"><a href="#/folders/<%= id %>/download/tbz">.tar.bz</a></li>');tmpl_array.push('        <li id="download_archive"><a href="#/folders/<%= id %>/download/zip">.zip</a></li>');tmpl_array.push("     </ul>");tmpl_array.push("   </div>");tmpl_array.push('   <button data-toggle="tooltip" data-placement="top" title="Mark selected datasets deleted" id="toolbtn_bulk_delete" class="primary-button logged-dataset-manipulation" style="margin-left: 0.5em; display:none; " type="button"><span class="fa fa-times"></span> Delete</button>');tmpl_array.push('   <button data-id="<%- id %>" data-toggle="tooltip" data-placement="top" title="Show library information" id="toolbtn_show_libinfo" class="primary-button" style="margin-left: 0.5em;" type="button"><span class="fa fa-info-circle"></span> Library Info</button>');tmpl_array.push('   <span class="help-button" data-toggle="tooltip" data-placement="top" title="Visit Libraries Wiki"><a href="https://wiki.galaxyproject.org/DataLibraries/screen/FolderContents" target="_blank"><button class="primary-button btn-xs" type="button"><span class="fa fa-question-circle"></span> Help</button></a></span>');tmpl_array.push(" </div>");tmpl_array.push(' <div id="folder_items_element">');tmpl_array.push(" </div>");tmpl_array.push("</div>");return _.template(tmpl_array.join(""))},templateLibInfoInModal:function(){tmpl_array=[];tmpl_array.push('<div id="lif_info_modal">');tmpl_array.push("<h2>Library name:</h2>");tmpl_array.push('<p><%- library.get("name") %></p>');tmpl_array.push("<h3>Library description:</h3>");tmpl_array.push('<p><%- library.get("description") %></p>');tmpl_array.push("<h3>Library synopsis:</h3>");tmpl_array.push('<p><%- library.get("synopsis") %></p>');tmpl_array.push("</div>");return _.template(tmpl_array.join(""))},templateNewFolderInModal:function(){tmpl_array=[];tmpl_array.push('<div id="new_folder_modal">');tmpl_array.push("<form>");tmpl_array.push('<input type="text" name="Name" value="" placeholder="Name">');tmpl_array.push('<input type="text" name="Description" value="" placeholder="Description">');tmpl_array.push("</form>");tmpl_array.push("</div>");return _.template(tmpl_array.join(""))},templateBulkImportInModal:function(){var f=[];f.push('<span id="history_modal_combo_bulk" style="width:90%; margin-left: 1em; margin-right: 1em; ">');f.push("Select history: ");f.push('<select id="dataset_import_bulk" name="dataset_import_bulk" style="width:50%; margin-bottom: 1em; "> ');f.push("   <% _.each(histories, function(history) { %>");f.push('       <option value="<%= _.escape(history.get("id")) %>"><%= _.escape(history.get("name")) %></option>');f.push("   <% }); %>");f.push("</select>");f.push("</span>");return _.template(f.join(""))},templateImportIntoHistoryProgressBar:function(){var f=[];f.push('<div class="import_text">');f.push("Importing selected datasets to history <b><%= _.escape(history_name) %></b>");f.push("</div>");f.push('<div class="progress">');f.push('   <div class="progress-bar progress-bar-import" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100" style="width: 00%;">');f.push('       <span class="completion_span">0% Complete</span>');f.push("   </div>");f.push("</div>");f.push("");return _.template(f.join(""))},templateAddingDatasetsProgressBar:function(){var f=[];f.push('<div class="import_text">');f.push("Adding selected datasets from history to library folder <b><%= _.escape(folder_name) %></b>");f.push("</div>");f.push('<div class="progress">');f.push('   <div class="progress-bar progress-bar-import" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100" style="width: 00%;">');f.push('       <span class="completion_span">0% Complete</span>');f.push("   </div>");f.push("</div>");f.push("");return _.template(f.join(""))},templateDeletingDatasetsProgressBar:function(){var f=[];f.push('<div class="import_text">');f.push("</div>");f.push('<div class="progress">');f.push('   <div class="progress-bar progress-bar-delete" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100" style="width: 00%;">');f.push('       <span class="completion_span">0% Complete</span>');f.push("   </div>");f.push("</div>");f.push("");return _.template(f.join(""))},templateAddFilesInModal:function(){var f=[];f.push('<div id="add_files_modal">');f.push('<div id="history_modal_combo_bulk">');f.push("Select history:  ");f.push('<select id="dataset_add_bulk" name="dataset_add_bulk" style="width:66%; "> ');f.push("   <% _.each(histories, function(history) { %>");f.push('       <option value="<%= _.escape(history.get("id")) %>"><%= _.escape(history.get("name")) %></option>');f.push("   <% }); %>");f.push("</select>");f.push("</div>");f.push('<div id="selected_history_content">');f.push("</div>");f.push("</div>");return _.template(f.join(""))},templateHistoryContents:function(){var f=[];f.push("Choose the datasets to import:");f.push("<ul>");f.push(" <% _.each(history_contents, function(history_item) { %>");f.push(' <li data-id="<%= _.escape(history_item.get("id")) %>">');f.push('   <input style="margin: 0;" type="checkbox"><%= _.escape(history_item.get("hid")) %>: <%= _.escape(history_item.get("name")) %>');f.push(" </li>");f.push(" <% }); %>");f.push("</ul>");return _.template(f.join(""))}});return{FolderToolbarView:a}});
\ No newline at end of file
+define(["galaxy.masthead","utils/utils","libs/toastr","mvc/library/library-model"],function(b,d,e,c){var a=Backbone.View.extend({el:"#center",events:{"click #toolbtn_create_folder":"createFolderFromModal","click #toolbtn_bulk_import":"modalBulkImport","click .toolbtn_add_files":"addFilesToFolderModal","click #include_deleted_datasets_chk":"checkIncludeDeleted","click #toolbtn_show_libinfo":"showLibInfo","click #toolbtn_bulk_delete":"deleteSelectedDatasets"},defaults:{can_add_library_item:false,contains_file:false,chain_call_control:{total_number:0,failed_number:0}},modal:null,histories:null,initialize:function(f){this.options=_.defaults(f||{},this.defaults);this.render()},render:function(g){this.options=_.extend(this.options,g);var i=false;var f=true;if(Galaxy.currUser){i=Galaxy.currUser.isAdmin();f=Galaxy.currUser.isAnonymous()}var h=this.templateToolBar();this.$el.html(h({id:this.options.id,admin_user:i,anonym:f}))},configureElements:function(f){this.options=_.extend(this.options,f);if(this.options.can_add_library_item===true){$(".add-library-items").show()}else{$(".add-library-items").hide()}if(this.options.contains_file===true){if(Galaxy.currUser){if(!Galaxy.currUser.isAnonymous()){$(".logged-dataset-manipulation").show();$(".dataset-manipulation").show()}else{$(".dataset-manipulation").show();$(".logged-dataset-manipulation").hide()}}else{$(".logged-dataset-manipulation").hide();$(".dataset-manipulation").hide()}}else{$(".logged-dataset-manipulation").hide();$(".dataset-manipulation").hide()}this.$el.find("[data-toggle]").tooltip()},createFolderFromModal:function(h){h.preventDefault();h.stopPropagation();var f=this;var g=this.templateNewFolderInModal();this.modal=Galaxy.modal;this.modal.show({closing_events:true,title:"Create New Folder",body:g(),buttons:{Create:function(){f.create_new_folder_event()},Close:function(){Galaxy.modal.hide()}}})},create_new_folder_event:function(){var f=this.serialize_new_folder();if(this.validate_new_folder(f)){var g=new c.FolderAsModel();url_items=Backbone.history.fragment.split("/");current_folder_id=url_items[url_items.length-1];g.url=g.urlRoot+"/"+current_folder_id;g.save(f,{success:function(h){Galaxy.modal.hide();e.success("Folder created");h.set({type:"folder"});Galaxy.libraries.folderListView.collection.add(h)},error:function(i,h){Galaxy.modal.hide();if(typeof h.responseJSON!=="undefined"){e.error(h.responseJSON.err_msg)}else{e.error("An error ocurred :(")}}})}else{e.error("Folder's name is missing")}return false},serialize_new_folder:function(){return{name:$("input[name='Name']").val(),description:$("input[name='Description']").val()}},validate_new_folder:function(f){return f.name!==""},modalBulkImport:function(){var f=$("#folder_table").find(":checked");if(f.length===0){e.info("You have to select some datasets first")}else{this.refreshUserHistoriesList(function(g){var h=g.templateBulkImportInModal();g.modal=Galaxy.modal;g.modal.show({closing_events:true,title:"Import into History",body:h({histories:g.histories.models}),buttons:{Import:function(){g.importAllIntoHistory()},Close:function(){Galaxy.modal.hide()}}})})}},refreshUserHistoriesList:function(g){var f=this;this.histories=new c.GalaxyHistories();this.histories.fetch({success:function(){g(f)},error:function(i,h){if(typeof h.responseJSON!=="undefined"){e.error(h.responseJSON.err_msg)}else{e.error("An error ocurred :(")}}})},importAllIntoHistory:function(){this.modal.disableButton("Import");this.options.chain_call_control.total_number=0;this.options.chain_call_control.failed_number=0;var j=$("select[name=dataset_import_bulk] option:selected").val();this.options.last_used_history_id=j;var m=$("select[name=dataset_import_bulk] option:selected").text();var o=[];$("#folder_table").find(":checked").each(function(){if(this.parentElement.parentElement.id!==""){o.push(this.parentElement.parentElement.id)}});var n=this.templateImportIntoHistoryProgressBar();this.modal.$el.find(".modal-body").html(n({history_name:m}));var k=100/o.length;this.initProgress(k);var f=[];for(var g=o.length-1;g>=0;g--){var h=o[g];var l=new c.HistoryItem();l.url=l.urlRoot+j+"/contents";l.content=h;l.source="library";f.push(l)}this.options.chain_call_control.total_number=f.length;jQuery.getJSON(galaxy_config.root+"history/set_as_current?id="+historyId);this.chainCall(f,m)},chainCall:function(g,j){var f=this;var h=g.pop();if(typeof h==="undefined"){if(this.options.chain_call_control.failed_number===0){e.success("Selected datasets imported into history. Click this to start analysing it.","",{onclick:function(){window.location="/"}})}else{if(this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number){e.error("There was an error and no datasets were imported into history.")}else{if(this.options.chain_call_control.failed_number<this.options.chain_call_control.total_number){e.warning("Some of the datasets could not be imported into history. Click this to see what was imported.","",{onclick:function(){window.location="/"}})}}}Galaxy.modal.hide();return}var i=$.when(h.save({content:h.content,source:h.source}));i.done(function(){f.updateProgress();f.chainCall(g,j)}).fail(function(){f.options.chain_call_control.failed_number+=1;f.updateProgress();f.chainCall(g,j)})},initProgress:function(f){this.progress=0;this.progressStep=f},updateProgress:function(){this.progress+=this.progressStep;$(".progress-bar-import").width(Math.round(this.progress)+"%");txt_representation=Math.round(this.progress)+"% Complete";$(".completion_span").text(txt_representation)},download:function(f,j){var h=[];$("#folder_table").find(":checked").each(function(){if(this.parentElement.parentElement.id!==""){h.push(this.parentElement.parentElement.id)}});var g="/api/libraries/datasets/download/"+j;var i={ldda_ids:h};this.processDownload(g,i,"get")},processDownload:function(g,h,i){if(g&&h){h=typeof h==="string"?h:$.param(h);var f="";$.each(h.split("&"),function(){var j=this.split("=");f+='<input type="hidden" name="'+j[0]+'" value="'+j[1]+'" />'});$('<form action="'+g+'" method="'+(i||"post")+'">'+f+"</form>").appendTo("body").submit().remove();e.info("Your download will begin soon")}},addFilesToFolderModal:function(){this.refreshUserHistoriesList(function(f){f.modal=Galaxy.modal;var g=f.templateAddFilesInModal();var h=f.options.full_path[f.options.full_path.length-1][1];f.modal.show({closing_events:true,title:"Add datasets from history to "+h,body:g({histories:f.histories.models}),buttons:{Add:function(){f.addAllDatasetsFromHistory()},Close:function(){Galaxy.modal.hide()}}});if(f.histories.models.length>0){f.fetchAndDisplayHistoryContents(f.histories.models[0].id);$("#dataset_add_bulk").change(function(i){f.fetchAndDisplayHistoryContents(i.target.value)})}else{e.error("An error ocurred :(")}})},fetchAndDisplayHistoryContents:function(h){var g=new c.HistoryContents({id:h});var f=this;g.fetch({success:function(j){var i=f.templateHistoryContents();f.histories.get(h).set({contents:j});f.modal.$el.find("#selected_history_content").html(i({history_contents:j.models.reverse()}))},error:function(j,i){if(typeof i.responseJSON!=="undefined"){e.error(i.responseJSON.err_msg)}else{e.error("An error ocurred :(")}}})},addAllDatasetsFromHistory:function(){this.modal.disableButton("Add");this.options.chain_call_control.total_number=0;this.options.chain_call_control.failed_number=0;var f=[];this.modal.$el.find("#selected_history_content").find(":checked").each(function(){var i=$(this.parentElement).data("id");if(i){f.push(i)}});var l=this.options.folder_name;var k=this.templateAddingDatasetsProgressBar();this.modal.$el.find(".modal-body").html(k({folder_name:l}));this.progressStep=100/f.length;this.progress=0;var j=[];for(var h=f.length-1;h>=0;h--){history_dataset_id=f[h];var g=new c.Item();g.url="/api/folders/"+this.options.id+"/contents";g.set({from_hda_id:history_dataset_id});j.push(g)}this.options.chain_call_control.total_number=j.length;this.chainCallAddingHdas(j)},chainCallAddingHdas:function(g){var f=this;this.added_hdas=new c.Folder();var h=g.pop();if(typeof h==="undefined"){if(this.options.chain_call_control.failed_number===0){e.success("Selected datasets from history added to the folder")}else{if(this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number){e.error("There was an error and no datasets were added to the folder.")}else{if(this.options.chain_call_control.failed_number<this.options.chain_call_control.total_number){e.warning("Some of the datasets could not be added to the folder")}}}Galaxy.modal.hide();return this.added_hdas}var i=$.when(h.save({from_hda_id:h.get("from_hda_id")}));i.done(function(j){Galaxy.libraries.folderListView.collection.add(j);f.updateProgress();f.chainCallAddingHdas(g)}).fail(function(){f.options.chain_call_control.failed_number+=1;f.updateProgress();f.chainCallAddingHdas(g)})},checkIncludeDeleted:function(f){if(f.target.checked){Galaxy.libraries.folderListView.fetchFolder({include_deleted:true})}else{Galaxy.libraries.folderListView.fetchFolder({include_deleted:false})}},deleteSelectedDatasets:function(){var f=$("#folder_table").find(":checked");if(f.length===0){e.info("You have to select some datasets first")}else{var j=this.templateDeletingDatasetsProgressBar();this.modal=Galaxy.modal;this.modal.show({closing_events:true,title:"Deleting selected datasets",body:j({}),buttons:{Close:function(){Galaxy.modal.hide()}}});this.options.chain_call_control.total_number=0;this.options.chain_call_control.failed_number=0;var g=[];f.each(function(){if(this.parentElement.parentElement.id!==""){g.push(this.parentElement.parentElement.id)}});this.progressStep=100/g.length;this.progress=0;var l=[];for(var h=g.length-1;h>=0;h--){var k=new c.Item({id:g[h]});l.push(k)}this.options.chain_call_control.total_number=g.length;this.chainCallDeletingHdas(l)}},chainCallDeletingHdas:function(g){var f=this;this.deleted_lddas=new c.Folder();var h=g.pop();if(typeof h==="undefined"){if(this.options.chain_call_control.failed_number===0){e.success("Selected datasets deleted")}else{if(this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number){e.error("There was an error and no datasets were deleted.")}else{if(this.options.chain_call_control.failed_number<this.options.chain_call_control.total_number){e.warning("Some of the datasets could not be deleted")}}}Galaxy.modal.hide();return this.deleted_lddas}var i=$.when(h.destroy());i.done(function(k){Galaxy.libraries.folderListView.collection.remove(h.id);f.updateProgress();if(Galaxy.libraries.folderListView.options.include_deleted){var j=new c.Item(k);Galaxy.libraries.folderListView.collection.add(j)}f.chainCallDeletingHdas(g)}).fail(function(){f.options.chain_call_control.failed_number+=1;f.updateProgress();f.chainCallDeletingHdas(g)})},showLibInfo:function(){var g=Galaxy.libraries.folderListView.folderContainer.attributes.metadata.parent_library_id;var f=null;var h=this;if(Galaxy.libraries.libraryListView!==null){f=Galaxy.libraries.libraryListView.collection.get(g)}else{f=new c.Library({id:g});f.fetch({success:function(){var i=h.templateLibInfoInModal();h.modal=Galaxy.modal;h.modal.show({closing_events:true,title:"Library Information",body:i({library:f}),buttons:{Close:function(){Galaxy.modal.hide()}}})},error:function(j,i){if(typeof i.responseJSON!=="undefined"){e.error(i.responseJSON.err_msg)}else{e.error("An error ocurred :(")}}})}},templateToolBar:function(){tmpl_array=[];tmpl_array.push('<div class="library_style_container">');tmpl_array.push(' <div id="library_toolbar">');tmpl_array.push("       <span><strong>DATA LIBRARIES</strong></span>");tmpl_array.push('   <span data-toggle="tooltip" data-placement="top" class="logged-dataset-manipulation" title="Include deleted datasets" style="display:none;"> | <input id="include_deleted_datasets_chk" style="margin: 0;" type="checkbox"> include deleted | </input></span>');tmpl_array.push('   <div class="btn-group add-library-items" style="display:none;">');tmpl_array.push('     <button data-toggle="tooltip" data-placement="top" title="Create New Folder" id="toolbtn_create_folder" class="btn btn-default primary-button" type="button"><span class="fa fa-plus"></span><span class="fa fa-folder"></span></button>');tmpl_array.push('     <button data-toggle="tooltip" data-placement="top" title="Add Datasets to Current Folder" id="toolbtn_add_files" class="btn btn-default toolbtn_add_files primary-button" type="button"><span class="fa fa-plus"></span><span class="fa fa-file"></span></span></button>');tmpl_array.push("   </div>");tmpl_array.push('   <button data-toggle="tooltip" data-placement="top" title="Import selected datasets into history" id="toolbtn_bulk_import" class="primary-button dataset-manipulation" style="margin-left: 0.5em; display:none;" type="button"><span class="fa fa-book"></span> to History</button>');tmpl_array.push('   <div id="toolbtn_dl" class="btn-group dataset-manipulation" style="margin-left: 0.5em; display:none; ">');tmpl_array.push('     <button title="Download selected datasets as archive" id="drop_toggle" type="button" class="primary-button dropdown-toggle" data-toggle="dropdown">');tmpl_array.push('     <span class="fa fa-download"></span> Download <span class="caret"></span>');tmpl_array.push("     </button>");tmpl_array.push('     <ul class="dropdown-menu" role="menu">');tmpl_array.push('        <li id="download_archive"><a href="#/folders/<%= id %>/download/tgz">.tar.gz</a></li>');tmpl_array.push('        <li id="download_archive"><a href="#/folders/<%= id %>/download/tbz">.tar.bz</a></li>');tmpl_array.push('        <li id="download_archive"><a href="#/folders/<%= id %>/download/zip">.zip</a></li>');tmpl_array.push("     </ul>");tmpl_array.push("   </div>");tmpl_array.push('   <button data-toggle="tooltip" data-placement="top" title="Mark selected datasets deleted" id="toolbtn_bulk_delete" class="primary-button logged-dataset-manipulation" style="margin-left: 0.5em; display:none; " type="button"><span class="fa fa-times"></span> Delete</button>');tmpl_array.push('   <button data-id="<%- id %>" data-toggle="tooltip" data-placement="top" title="Show library information" id="toolbtn_show_libinfo" class="primary-button" style="margin-left: 0.5em;" type="button"><span class="fa fa-info-circle"></span> Library Info</button>');tmpl_array.push('   <span class="help-button" data-toggle="tooltip" data-placement="top" title="Visit Libraries Wiki"><a href="https://wiki.galaxyproject.org/DataLibraries/screen/FolderContents" target="_blank"><button class="primary-button btn-xs" type="button"><span class="fa fa-question-circle"></span> Help</button></a></span>');tmpl_array.push(" </div>");tmpl_array.push(' <div id="folder_items_element">');tmpl_array.push(" </div>");tmpl_array.push("</div>");return _.template(tmpl_array.join(""))},templateLibInfoInModal:function(){tmpl_array=[];tmpl_array.push('<div id="lif_info_modal">');tmpl_array.push("<h2>Library name:</h2>");tmpl_array.push('<p><%- library.get("name") %></p>');tmpl_array.push("<h3>Library description:</h3>");tmpl_array.push('<p><%- library.get("description") %></p>');tmpl_array.push("<h3>Library synopsis:</h3>");tmpl_array.push('<p><%- library.get("synopsis") %></p>');tmpl_array.push("</div>");return _.template(tmpl_array.join(""))},templateNewFolderInModal:function(){tmpl_array=[];tmpl_array.push('<div id="new_folder_modal">');tmpl_array.push("<form>");tmpl_array.push('<input type="text" name="Name" value="" placeholder="Name">');tmpl_array.push('<input type="text" name="Description" value="" placeholder="Description">');tmpl_array.push("</form>");tmpl_array.push("</div>");return _.template(tmpl_array.join(""))},templateBulkImportInModal:function(){var f=[];f.push('<span id="history_modal_combo_bulk" style="width:90%; margin-left: 1em; margin-right: 1em; ">');f.push("Select history: ");f.push('<select id="dataset_import_bulk" name="dataset_import_bulk" style="width:50%; margin-bottom: 1em; "> ');f.push("   <% _.each(histories, function(history) { %>");f.push('       <option value="<%= _.escape(history.get("id")) %>"><%= _.escape(history.get("name")) %></option>');f.push("   <% }); %>");f.push("</select>");f.push("</span>");return _.template(f.join(""))},templateImportIntoHistoryProgressBar:function(){var f=[];f.push('<div class="import_text">');f.push("Importing selected datasets to history <b><%= _.escape(history_name) %></b>");f.push("</div>");f.push('<div class="progress">');f.push('   <div class="progress-bar progress-bar-import" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100" style="width: 00%;">');f.push('       <span class="completion_span">0% Complete</span>');f.push("   </div>");f.push("</div>");f.push("");return _.template(f.join(""))},templateAddingDatasetsProgressBar:function(){var f=[];f.push('<div class="import_text">');f.push("Adding selected datasets from history to library folder <b><%= _.escape(folder_name) %></b>");f.push("</div>");f.push('<div class="progress">');f.push('   <div class="progress-bar progress-bar-import" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100" style="width: 00%;">');f.push('       <span class="completion_span">0% Complete</span>');f.push("   </div>");f.push("</div>");f.push("");return _.template(f.join(""))},templateDeletingDatasetsProgressBar:function(){var f=[];f.push('<div class="import_text">');f.push("</div>");f.push('<div class="progress">');f.push('   <div class="progress-bar progress-bar-delete" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100" style="width: 00%;">');f.push('       <span class="completion_span">0% Complete</span>');f.push("   </div>");f.push("</div>");f.push("");return _.template(f.join(""))},templateAddFilesInModal:function(){var f=[];f.push('<div id="add_files_modal">');f.push('<div id="history_modal_combo_bulk">');f.push("Select history:  ");f.push('<select id="dataset_add_bulk" name="dataset_add_bulk" style="width:66%; "> ');f.push("   <% _.each(histories, function(history) { %>");f.push('       <option value="<%= _.escape(history.get("id")) %>"><%= _.escape(history.get("name")) %></option>');f.push("   <% }); %>");f.push("</select>");f.push("</div>");f.push('<div id="selected_history_content">');f.push("</div>");f.push("</div>");return _.template(f.join(""))},templateHistoryContents:function(){var f=[];f.push("Choose the datasets to import:");f.push("<ul>");f.push(" <% _.each(history_contents, function(history_item) { %>");f.push(' <li data-id="<%= _.escape(history_item.get("id")) %>">');f.push('   <input style="margin: 0;" type="checkbox"><%= _.escape(history_item.get("hid")) %>: <%= _.escape(history_item.get("name")) %>');f.push(" </li>");f.push(" <% }); %>");f.push("</ul>");return _.template(f.join(""))}});return{FolderToolbarView:a}});
\ No newline at end of file

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