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commit/galaxy-central: 2 new changesets
by commits-noreply＠bitbucket.org 26 Feb '14

26 Feb '14

2 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/7f7da7248d4d/ Changeset: 7f7da7248d4d Branch: stable User: greg Date: 2014-02-26 21:09:43 Summary: Fixes for handling complex repository dependency definitions in tool dependency recipes. Affected #: 2 files diff -r 66aa6798e55303abc40fbb585c75e8c77638cca3 -r 7f7da7248d4de5d9f039639db77721d0b22fa6c5 lib/tool_shed/util/commit_util.py --- a/lib/tool_shed/util/commit_util.py +++ b/lib/tool_shed/util/commit_util.py @@ -274,7 +274,11 @@ return False, None, error_message def handle_repository_dependency_elem( trans, elem, unpopulate=False ): + """Populate or unpopulate repository tags.""" # <repository name="molecule_datatypes" owner="test" changeset_revision="1a070566e9c6" /> + # <repository changeset_revision="xxx" name="package_xorg_macros_1_17_1" owner="test" toolshed="yyy"> + # <package name="xorg_macros" version="1.17.1" /> + # </repository> error_message = '' name = elem.get( 'name' ) owner = elem.get( 'owner' ) @@ -285,6 +289,23 @@ revised = False toolshed = elem.get( 'toolshed' ) changeset_revision = elem.get( 'changeset_revision' ) + sub_elems = elem.findall( './/' ) + if sub_elems: + # At this point, a <repository> tag will point only to a package. + # <package name="xorg_macros" version="1.17.1" /> + # Coerce the list to an odict(). + sub_elements = odict() + packages = [] + for sub_elem in sub_elems: + sub_elem_type = sub_elem.tag + sub_elem_name = sub_elem.get( 'name' ) + sub_elem_version = sub_elem.get( 'version' ) + if sub_elem_type and sub_elem_name and sub_elem_version: + packages.append( ( sub_elem_name, sub_elem_version ) ) + sub_elements[ 'packages' ] = packages + else: + # Set to None. + sub_elements = None if unpopulate: # We're exporting the repository, so eliminate all toolshed and changeset_revision attributes from the <repository> tag. if toolshed or changeset_revision: @@ -292,7 +313,7 @@ attributes[ 'name' ] = name attributes[ 'owner' ] = owner attributes[ 'prior_installation_required' ] = elem.get( 'prior_installation_required', 'False' ) - elem = xml_util.create_element( 'repository', attributes=attributes, sub_elements=None ) + elem = xml_util.create_element( 'repository', attributes=attributes, sub_elements=sub_elements ) revised = True return revised, elem, error_message # From here on we're populating the toolshed and changeset_revisions if necessary. @@ -321,10 +342,12 @@ return revised, elem, error_message def handle_repository_dependency_sub_elem( trans, package_altered, altered, actions_elem, action_index, action_elem, unpopulate=False ): - # This method populates the toolshed and changeset_revision attributes for each of the following. - # <action type="set_environment_for_install"> - # <action type="setup_r_environment"> - # <action type="setup_ruby_environment"> + """ + Populate or unpopulate the toolshed and changeset_revision attributes for each of the following tag sets. + <action type="set_environment_for_install"> + <action type="setup_r_environment"> + <action type="setup_ruby_environment"> + """ error_message = '' for repo_index, repo_elem in enumerate( action_elem ): # Make sure to skip comments and tags that are not <repository>. @@ -343,7 +366,8 @@ def handle_tool_dependencies_definition( trans, tool_dependencies_config, unpopulate=False ): """ - Populate or unpopulate the tooshed and changeset_revision attributes of each <repository> tag defined within a tool_dependencies.xml file. + Populate or unpopulate the tooshed and changeset_revision attributes of each <repository> + tag defined within a tool_dependencies.xml file. """ altered = False error_message = '' diff -r 66aa6798e55303abc40fbb585c75e8c77638cca3 -r 7f7da7248d4de5d9f039639db77721d0b22fa6c5 lib/tool_shed/util/xml_util.py --- a/lib/tool_shed/util/xml_util.py +++ b/lib/tool_shed/util/xml_util.py @@ -47,7 +47,7 @@ def create_element( tag, attributes=None, sub_elements=None ): """ Create a new element whose tag is the value of the received tag, and whose attributes are all - key / value pairs in the received the attributes and sub_elements. + key / value pairs in the received attributes and sub_elements. """ if tag: elem = XmlET.Element( tag ) @@ -56,14 +56,22 @@ for k, v in attributes.items(): elem.set( k, v ) if sub_elements: - # The received attributes is an odict as well. These handle information that tends to be + # The received attributes is an odict. These handle information that tends to be # long text including paragraphs (e.g., description and long_description. for k, v in sub_elements.items(): # Don't include fields that are blank. if v: - sub_elem = XmlET.SubElement( elem, k ) - if isinstance( v, list ): - # If the sub_elem is a list, then it must be a list of tuples where the first + if k == 'packages': + # The received sub_elements is an odict whose key is 'packages' and whose + # value is a list of ( name, version ) tuples. + for v_tuple in v: + sub_elem = XmlET.SubElement( elem, 'package' ) + sub_elem_name, sub_elem_version = v_tuple + sub_elem.set( 'name', sub_elem_name ) + sub_elem.set( 'version', sub_elem_version ) + elif isinstance( v, list ): + sub_elem = XmlET.SubElement( elem, k ) + # If v is a list, then it must be a list of tuples where the first # item is the tag and the second item is the text value. for v_tuple in v: if len( v_tuple ) == 2: @@ -74,6 +82,7 @@ v_elem = XmlET.SubElement( sub_elem, v_tag ) v_elem.text = v_text else: + sub_elem = XmlET.SubElement( elem, k ) sub_elem.text = v return elem return None https://bitbucket.org/galaxy/galaxy-central/commits/ce7e90f9576b/ Changeset: ce7e90f9576b User: davebgx Date: 2014-02-26 21:11:47 Summary: Merge stable. Affected #: 0 files Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: greg: Fixes for handling complex repository dependency definitions in tool dependency recipes.
by commits-noreply＠bitbucket.org 26 Feb '14

26 Feb '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/11cde97a48eb/ Changeset: 11cde97a48eb User: greg Date: 2014-02-26 21:09:43 Summary: Fixes for handling complex repository dependency definitions in tool dependency recipes. Affected #: 2 files diff -r 7225183f34d12b1ed3d879a85054ee98a7750729 -r 11cde97a48eb4a7b2934bef3a507d1a2c5ea3379 lib/tool_shed/util/commit_util.py --- a/lib/tool_shed/util/commit_util.py +++ b/lib/tool_shed/util/commit_util.py @@ -274,7 +274,11 @@ return False, None, error_message def handle_repository_dependency_elem( trans, elem, unpopulate=False ): + """Populate or unpopulate repository tags.""" # <repository name="molecule_datatypes" owner="test" changeset_revision="1a070566e9c6" /> + # <repository changeset_revision="xxx" name="package_xorg_macros_1_17_1" owner="test" toolshed="yyy"> + # <package name="xorg_macros" version="1.17.1" /> + # </repository> error_message = '' name = elem.get( 'name' ) owner = elem.get( 'owner' ) @@ -285,6 +289,23 @@ revised = False toolshed = elem.get( 'toolshed' ) changeset_revision = elem.get( 'changeset_revision' ) + sub_elems = elem.findall( './/' ) + if sub_elems: + # At this point, a <repository> tag will point only to a package. + # <package name="xorg_macros" version="1.17.1" /> + # Coerce the list to an odict(). + sub_elements = odict() + packages = [] + for sub_elem in sub_elems: + sub_elem_type = sub_elem.tag + sub_elem_name = sub_elem.get( 'name' ) + sub_elem_version = sub_elem.get( 'version' ) + if sub_elem_type and sub_elem_name and sub_elem_version: + packages.append( ( sub_elem_name, sub_elem_version ) ) + sub_elements[ 'packages' ] = packages + else: + # Set to None. + sub_elements = None if unpopulate: # We're exporting the repository, so eliminate all toolshed and changeset_revision attributes from the <repository> tag. if toolshed or changeset_revision: @@ -292,7 +313,7 @@ attributes[ 'name' ] = name attributes[ 'owner' ] = owner attributes[ 'prior_installation_required' ] = elem.get( 'prior_installation_required', 'False' ) - elem = xml_util.create_element( 'repository', attributes=attributes, sub_elements=None ) + elem = xml_util.create_element( 'repository', attributes=attributes, sub_elements=sub_elements ) revised = True return revised, elem, error_message # From here on we're populating the toolshed and changeset_revisions if necessary. @@ -321,10 +342,12 @@ return revised, elem, error_message def handle_repository_dependency_sub_elem( trans, package_altered, altered, actions_elem, action_index, action_elem, unpopulate=False ): - # This method populates the toolshed and changeset_revision attributes for each of the following. - # <action type="set_environment_for_install"> - # <action type="setup_r_environment"> - # <action type="setup_ruby_environment"> + """ + Populate or unpopulate the toolshed and changeset_revision attributes for each of the following tag sets. + <action type="set_environment_for_install"> + <action type="setup_r_environment"> + <action type="setup_ruby_environment"> + """ error_message = '' for repo_index, repo_elem in enumerate( action_elem ): # Make sure to skip comments and tags that are not <repository>. @@ -343,7 +366,8 @@ def handle_tool_dependencies_definition( trans, tool_dependencies_config, unpopulate=False ): """ - Populate or unpopulate the tooshed and changeset_revision attributes of each <repository> tag defined within a tool_dependencies.xml file. + Populate or unpopulate the tooshed and changeset_revision attributes of each <repository> + tag defined within a tool_dependencies.xml file. """ altered = False error_message = '' diff -r 7225183f34d12b1ed3d879a85054ee98a7750729 -r 11cde97a48eb4a7b2934bef3a507d1a2c5ea3379 lib/tool_shed/util/xml_util.py --- a/lib/tool_shed/util/xml_util.py +++ b/lib/tool_shed/util/xml_util.py @@ -47,7 +47,7 @@ def create_element( tag, attributes=None, sub_elements=None ): """ Create a new element whose tag is the value of the received tag, and whose attributes are all - key / value pairs in the received the attributes and sub_elements. + key / value pairs in the received attributes and sub_elements. """ if tag: elem = XmlET.Element( tag ) @@ -56,14 +56,22 @@ for k, v in attributes.items(): elem.set( k, v ) if sub_elements: - # The received attributes is an odict as well. These handle information that tends to be + # The received attributes is an odict. These handle information that tends to be # long text including paragraphs (e.g., description and long_description. for k, v in sub_elements.items(): # Don't include fields that are blank. if v: - sub_elem = XmlET.SubElement( elem, k ) - if isinstance( v, list ): - # If the sub_elem is a list, then it must be a list of tuples where the first + if k == 'packages': + # The received sub_elements is an odict whose key is 'packages' and whose + # value is a list of ( name, version ) tuples. + for v_tuple in v: + sub_elem = XmlET.SubElement( elem, 'package' ) + sub_elem_name, sub_elem_version = v_tuple + sub_elem.set( 'name', sub_elem_name ) + sub_elem.set( 'version', sub_elem_version ) + elif isinstance( v, list ): + sub_elem = XmlET.SubElement( elem, k ) + # If v is a list, then it must be a list of tuples where the first # item is the tag and the second item is the text value. for v_tuple in v: if len( v_tuple ) == 2: @@ -74,6 +82,7 @@ v_elem = XmlET.SubElement( sub_elem, v_tag ) v_elem.text = v_text else: + sub_elem = XmlET.SubElement( elem, k ) sub_elem.text = v return elem return None Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: 2 new changesets
by commits-noreply＠bitbucket.org 26 Feb '14

26 Feb '14

2 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/66aa6798e553/ Changeset: 66aa6798e553 Branch: stable User: jeremy goecks Date: 2014-02-26 20:05:50 Summary: Trackster: location parsing/interpretation fix. Affected #: 2 files diff -r 9c915a92142d3b796b0df82b8d097e5a5aae678f -r 66aa6798e55303abc40fbb585c75e8c77638cca3 static/scripts/packed/viz/trackster/tracks.js --- a/static/scripts/packed/viz/trackster/tracks.js +++ b/static/scripts/packed/viz/trackster/tracks.js @@ -1,1 +1,1 @@ -define(["libs/underscore","viz/visualization","viz/trackster/util","viz/trackster/slotting","viz/trackster/painters","viz/trackster/filters","mvc/data","mvc/tools"],function(ab,y,l,u,L,i,X,R){var q=ab.extend;var n={};var k=function(ac,ad){n[ac.attr("id")]=ad};var m=function(ac,ad,af,ae){af=".group";n[ac.attr("id")]=ae;ac.bind("drag",{handle:"."+ad,relative:true},function(an,ao){var am=$(this),ar=$(this).parent(),aj=ar.children(".track,.group"),al=n[$(this).attr("id")],ai,ah,ap,ag,ak;ah=$(this).parents(af);if(ah.length!==0){ap=ah.position().top;ag=ap+ah.outerHeight();var aq=n[ah.attr("id")];if(ao.offsetY<ap){$(this).insertBefore(ah);aq.remove_drawable(al);aq.container.add_drawable_before(al,aq);return}else{if(ao.offsetY>ag){$(this).insertAfter(ah);aq.remove_drawable(al);aq.container.add_drawable(al);return}}}ah=null;for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));ap=ai.position().top;ag=ap+ai.outerHeight();if(ai.is(af)&&this!==ai.get(0)&&ao.offsetY>=ap&&ao.offsetY<=ag){if(ao.offsetY-ap<ag-ao.offsetY){ai.find(".content-div").prepend(this)}else{ai.find(".content-div").append(this)}if(al.container){al.container.remove_drawable(al)}n[ai.attr("id")].add_drawable(al);return}}for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));if(ao.offsetY<ai.position().top&&!(ai.hasClass("reference-track")||ai.hasClass("intro"))){break}}if(ak===aj.length){if(this!==aj.get(ak-1)){ar.append(this);n[ar.attr("id")].move_drawable(al,ak)}}else{if(this!==aj.get(ak)){$(this).insertBefore(aj.get(ak));n[ar.attr("id")].move_drawable(al,(ao.deltaY>0?ak-1:ak))}}}).bind("dragstart",function(){$(this).addClass("dragging")}).bind("dragend",function(){$(this).removeClass("dragging")})};var F=20,B=100,I=12000,S=400,K=5000,x=100,o="Cannot display dataset due to an error. ",J="A converter for this dataset is not installed. Please check your datatypes_conf.xml file.",G="No data for this chrom/contig.",w="Preparing data. This can take a while for a large dataset. 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ae=this.drawables.length;if(ae===0){this.action_icons.composite_icon.hide();this.action_icons.filters_icon.hide()}else{if(ae===1){if(this.drawables[0] instanceof f){this.action_icons.composite_icon.show()}this.action_icons.filters_icon.hide()}else{var al,ak,ai,ao=true,ag=this.drawables[0].get_type(),ac=0;for(al=0;al<ae;al++){ai=this.drawables[al];if(ai.get_type()!==ag){can_composite=false;break}if(ai instanceof d){ac++}}if(ao||ac===1){this.action_icons.composite_icon.show()}else{this.action_icons.composite_icon.hide();$(".tooltip").remove()}if(ac>1&&ac===this.drawables.length){var ap={},ad;ai=this.drawables[0];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];ap[ad.name]=[ad]}for(al=1;al<this.drawables.length;al++){ai=this.drawables[al];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];if(ad.name in ap){ap[ad.name].push(ad)}}}this.filters_manager.remove_all();var af,ah,aj,am;for(var an in ap){af=ap[an];if(af.length===ac){ah=new i.NumberFilter({name:af[0].name,index:af[0].index});this.filters_manager.add_filter(ah)}}if(this.filters_manager.filters.length>0){this.action_icons.filters_icon.show()}else{this.action_icons.filters_icon.hide()}}else{this.action_icons.filters_icon.hide()}}}},_restore_filter_managers:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].filters_manager=this.saved_filters_managers[ac]}this.saved_filters_managers=[]},setup_multitrack_filtering:function(){if(this.filters_manager.filters.length>0){this.saved_filters_managers=[];for(var ac=0;ac<this.drawables.length;ac++){drawable=this.drawables[ac];this.saved_filters_managers.push(drawable.filters_manager);drawable.filters_manager=this.filters_manager}}this.filters_manager.init_filters()},show_composite_track:function(){var ad=new f(this.view,this.view,{name:this.prefs.name,drawables:this.drawables});var ac=this.container.replace_drawable(this,ad,true);ad.request_draw()},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);this.update_icons()},remove_drawable:function(ac){A.prototype.remove_drawable.call(this,ac);this.update_icons()},to_dict:function(){if(this.filters_manager.visible()){this._restore_filter_managers()}var ac=q(A.prototype.to_dict.call(this),{filters:this.filters_manager.to_dict()});if(this.filters_manager.visible()){this.setup_multitrack_filtering()}return ac},request_draw:function(ac){ab.each(this.drawables,function(ad){ad.request_draw(ac)})}});var Y=Backbone.View.extend({initialize:function(ac){q(ac,{obj_type:"View"});A.call(this,"View",ac.container,ac);this.chrom=null;this.vis_id=ac.vis_id;this.dbkey=ac.dbkey;this.label_tracks=[];this.tracks_to_be_redrawn=[];this.max_low=0;this.max_high=0;this.zoom_factor=3;this.min_separation=30;this.has_changes=false;this.load_chroms_deferred=null;this.render();this.canvas_manager=new y.CanvasManager(this.container.get(0).ownerDocument);this.reset();this.config=new j({track:this,params:[{key:"a_color",label:"A Color",type:"color",default_value:"#FF0000"},{key:"c_color",label:"C Color",type:"color",default_value:"#00FF00"},{key:"g_color",label:"G Color",type:"color",default_value:"#0000FF"},{key:"t_color",label:"T Color",type:"color",default_value:"#FF00FF"},{key:"n_color",label:"N Color",type:"color",default_value:"#AAAAAA"}],saved_values:ac.prefs,onchange:function(){track.request_redraw({clear_tile_cache:true})}})},render:function(){this.requested_redraw=false;var ae=this.container,ac=this;this.top_container=$("<div/>").addClass("top-container").appendTo(ae);this.browser_content_div=$("<div/>").addClass("content").appendTo(ae);this.bottom_container=$("<div/>").addClass("bottom-container").appendTo(ae);this.top_labeltrack=$("<div/>").addClass("top-labeltrack").appendTo(this.top_container);this.viewport_container=$("<div/>").addClass("viewport-container").attr("id","viewport-container").appendTo(this.browser_content_div);this.content_div=this.viewport_container;k(this.viewport_container,ac);this.intro_div=$("<div/>").addClass("intro").appendTo(this.viewport_container).hide();var af=$("<div/>").text("Add Datasets to Visualization").addClass("action-button").appendTo(this.intro_div).click(function(){y.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":ac.dbkey},function(ag){ab.each(ag,function(ah){ac.add_drawable(p(ah,ac,ac))})})});this.nav_labeltrack=$("<div/>").addClass("nav-labeltrack").appendTo(this.bottom_container);this.nav_container=$("<div/>").addClass("trackster-nav-container").prependTo(this.top_container);this.nav=$("<div/>").addClass("trackster-nav").appendTo(this.nav_container);this.overview=$("<div/>").addClass("overview").appendTo(this.bottom_container);this.overview_viewport=$("<div/>").addClass("overview-viewport").appendTo(this.overview);this.overview_close=$("<a/>").attr("title","Close overview").addClass("icon-button overview-close tooltip").hide().appendTo(this.overview_viewport);this.overview_highlight=$("<div/>").addClass("overview-highlight").hide().appendTo(this.overview_viewport);this.overview_box_background=$("<div/>").addClass("overview-boxback").appendTo(this.overview_viewport);this.overview_box=$("<div/>").addClass("overview-box").appendTo(this.overview_viewport);this.default_overview_height=this.overview_box.height();this.nav_controls=$("<div/>").addClass("nav-controls").appendTo(this.nav);this.chrom_select=$("<select/>").attr({name:"chrom"}).addClass("chrom-nav").append("<option value=''>Loading</option>").appendTo(this.nav_controls);var ad=function(ag){if(ag.type==="focusout"||(ag.keyCode||ag.which)===13||(ag.keyCode||ag.which)===27){if((ag.keyCode||ag.which)!==27){ac.go_to($(this).val())}$(this).hide();$(this).val("");ac.location_span.show();ac.chrom_select.show()}ag.stopPropagation()};this.nav_input=$("<input/>").addClass("nav-input").hide().bind("keyup focusout",ad).appendTo(this.nav_controls);this.location_span=$("<span/>").addClass("location").attr("title","Click to change location").tooltip({placement:"bottom"}).appendTo(this.nav_controls);this.location_span.click(function(){ac.location_span.hide();ac.chrom_select.hide();ac.nav_input.val(ac.chrom+":"+ac.low+"-"+ac.high);ac.nav_input.css("display","inline-block");ac.nav_input.select();ac.nav_input.focus();ac.nav_input.autocomplete({source:function(ai,ag){var aj=[],ah=$.map(ac.get_tracks(d),function(ak){return ak.data_manager.search_features(ai.term).success(function(al){aj=aj.concat(al)})});$.when.apply($,ah).done(function(){ag($.map(aj,function(ak){return{label:ak[0],value:ak[1]}}))})}})});if(this.vis_id!==undefined){this.hidden_input=$("<input/>").attr("type","hidden").val(this.vis_id).appendTo(this.nav_controls)}this.zo_link=$("<a/>").attr("id","zoom-out").attr("title","Zoom out").tooltip({placement:"bottom"}).click(function(){ac.zoom_out()}).appendTo(this.nav_controls);this.zi_link=$("<a/>").attr("id","zoom-in").attr("title","Zoom in").tooltip({placement:"bottom"}).click(function(){ac.zoom_in()}).appendTo(this.nav_controls);this.load_chroms_deferred=this.load_chroms({low:0});this.chrom_select.bind("change",function(){ac.change_chrom(ac.chrom_select.val())});this.browser_content_div.click(function(ag){$(this).find("input").trigger("blur")});this.browser_content_div.bind("dblclick",function(ag){ac.zoom_in(ag.pageX,this.viewport_container)});this.overview_box.bind("dragstart",function(ag,ah){this.current_x=ah.offsetX}).bind("drag",function(ag,ai){var aj=ai.offsetX-this.current_x;this.current_x=ai.offsetX;var ah=Math.round(aj/ac.viewport_container.width()*(ac.max_high-ac.max_low));ac.move_delta(-ah)});this.overview_close.click(function(){ac.reset_overview()});this.viewport_container.bind("draginit",function(ag,ah){if(ag.clientX>ac.viewport_container.width()-16){return false}}).bind("dragstart",function(ag,ah){ah.original_low=ac.low;ah.current_height=ag.clientY;ah.current_x=ah.offsetX}).bind("drag",function(ai,ak){var ag=$(this);var al=ak.offsetX-ak.current_x;var ah=ag.scrollTop()-(ai.clientY-ak.current_height);ag.scrollTop(ah);ak.current_height=ai.clientY;ak.current_x=ak.offsetX;var aj=Math.round(al/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}).bind("mousewheel",function(ai,ak,ah,ag){if(ah){ah*=50;var aj=Math.round(-ah/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}});this.top_labeltrack.bind("dragstart",function(ag,ah){return $("<div/>").addClass("zoom-area").css("height",ac.browser_content_div.height()+ac.top_labeltrack.height()+ac.nav_labeltrack.height()+1).appendTo($(this))}).bind("drag",function(ak,al){$(al.proxy).css({left:Math.min(ak.pageX,al.startX)-ac.container.offset().left,width:Math.abs(ak.pageX-al.startX)});var ah=Math.min(ak.pageX,al.startX)-ac.container.offset().left,ag=Math.max(ak.pageX,al.startX)-ac.container.offset().left,aj=(ac.high-ac.low),ai=ac.viewport_container.width();ac.update_location(Math.round(ah/ai*aj)+ac.low,Math.round(ag/ai*aj)+ac.low)}).bind("dragend",function(al,am){var ah=Math.min(al.pageX,am.startX),ag=Math.max(al.pageX,am.startX),aj=(ac.high-ac.low),ai=ac.viewport_container.width(),ak=ac.low;ac.low=Math.round(ah/ai*aj)+ak;ac.high=Math.round(ag/ai*aj)+ak;$(am.proxy).remove();ac.request_redraw()});this.add_label_track(new W(this,{content_div:this.top_labeltrack}));this.add_label_track(new W(this,{content_div:this.nav_labeltrack}));$(window).bind("resize",function(){if(this.resize_timer){clearTimeout(this.resize_timer)}this.resize_timer=setTimeout(function(){ac.resize_window()},500)});$(document).bind("redraw",function(){ac.redraw()});this.reset();$(window).trigger("resize")},get_base_color:function(ac){return this.config.get("values")[ac.toLowerCase()+"_color"]||this.config.get("values").n_color}});q(Y.prototype,A.prototype,{changed:function(){this.has_changes=true},update_intro_div:function(){if(this.drawables.length===0){this.intro_div.show()}else{this.intro_div.hide()}},trigger_navigate:function(ad,af,ac,ag){if(this.timer){clearTimeout(this.timer)}if(ag){var ae=this;this.timer=setTimeout(function(){ae.trigger("navigate",ad+":"+af+"-"+ac)},500)}else{view.trigger("navigate",ad+":"+af+"-"+ac)}},update_location:function(ac,ae){this.location_span.text(commatize(ac)+" - "+commatize(ae));this.nav_input.val(this.chrom+":"+commatize(ac)+"-"+commatize(ae));var ad=view.chrom_select.val();if(ad!==""){this.trigger_navigate(ad,view.low,view.high,true)}},load_chroms:function(ae){ae.num=x;var ac=this,ad=$.Deferred();$.ajax({url:galaxy_config.root+"api/genomes/"+this.dbkey,data:ae,dataType:"json",success:function(ag){if(ag.chrom_info.length===0){return}if(ag.reference){var ah=new D(ac);ac.add_label_track(ah);ac.reference_track=ah}ac.chrom_data=ag.chrom_info;var ak='<option value="">Select Chrom/Contig</option>';for(var aj=0,af=ac.chrom_data.length;aj<af;aj++){var ai=ac.chrom_data[aj].chrom;ak+='<option value="'+ai+'">'+ai+"</option>"}if(ag.prev_chroms){ak+='<option value="previous">Previous '+x+"</option>"}if(ag.next_chroms){ak+='<option value="next">Next '+x+"</option>"}ac.chrom_select.html(ak);ac.chrom_start_index=ag.start_index;ad.resolve(ag.chrom_info)},error:function(){alert("Could not load chroms for this dbkey: "+ac.dbkey)}});return ad},change_chrom:function(ah,ad,aj){var ae=this;if(!ae.chrom_data){ae.load_chroms_deferred.then(function(){ae.change_chrom(ah,ad,aj)});return}if(!ah||ah==="None"){return}if(ah==="previous"){ae.load_chroms({low:this.chrom_start_index-x});return}if(ah==="next"){ae.load_chroms({low:this.chrom_start_index+x});return}var ai=$.grep(ae.chrom_data,function(ak,al){return ak.chrom===ah})[0];if(ai===undefined){ae.load_chroms({chrom:ah},function(){ae.change_chrom(ah,ad,aj)});return}else{if(ah!==ae.chrom){ae.chrom=ah;ae.chrom_select.val(ae.chrom);ae.max_high=ai.len-1;ae.reset();for(var ag=0,ac=ae.drawables.length;ag<ac;ag++){var af=ae.drawables[ag];if(af.init){af.init()}}if(ae.reference_track){ae.reference_track.init()}}if(ad!==undefined&&aj!==undefined){ae.low=Math.max(ad,0);ae.high=Math.min(aj,ae.max_high)}else{ae.low=0;ae.high=ae.max_high}ae.reset_overview();ae.request_redraw()}},go_to:function(ag){ag=ag.replace(/,/g,"");ag=ag.replace(/:|\-/g," ");var ad=ag.split(/\s+/),af=ad[0],ae=(ad[1]?parseInt(ad[1],10):null),ac=(ad[2]?parseInt(ad[2],10):null);if(!ac){ae=ae-15;ac=ae+15}this.change_chrom(af,ae,ac)},move_fraction:function(ae){var ac=this;var ad=ac.high-ac.low;this.move_delta(ae*ad)},move_delta:function(af){var ac=this;var ae=ac.high-ac.low;if(ac.low-af<ac.max_low){ac.low=ac.max_low;ac.high=ac.max_low+ae}else{if(ac.high-af>ac.max_high){ac.high=ac.max_high;ac.low=ac.max_high-ae}else{ac.high-=af;ac.low-=af}}ac.request_redraw({data_fetch:false});if(this.redraw_on_move_fn){clearTimeout(this.redraw_on_move_fn)}this.redraw_on_move_fn=setTimeout(function(){ac.request_redraw()},200);var ad=ac.chrom_select.val();this.trigger_navigate(ad,ac.low,ac.high,true)},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);ac.init();this.changed();this.update_intro_div()},add_label_track:function(ac){ac.view=this;ac.init();this.label_tracks.push(ac)},remove_drawable:function(ae,ad){A.prototype.remove_drawable.call(this,ae);if(ad){var ac=this;ae.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})}},reset:function(){this.low=this.max_low;this.high=this.max_high;this.viewport_container.find(".yaxislabel").remove()},request_redraw:function(ad,ae){var ac=this,af=(ae?[ae]:ac.drawables);ab.each(af,function(ag){var ah=ab.find(ac.tracks_to_be_redrawn,function(ai){return ai[0]===ag});if(ah){ah[1]=ad}else{ac.tracks_to_be_redrawn.push([ag,ad])}});if(!this.requested_redraw){requestAnimationFrame(function(){ac._redraw()});this.requested_redraw=true}},_redraw:function(){this.requested_redraw=false;var ac=this.low,ag=this.high;if(ac<this.max_low){ac=this.max_low}if(ag>this.max_high){ag=this.max_high}var ad=this.high-this.low;if(this.high!==0&&ad<this.min_separation){ag=ac+this.min_separation}this.low=Math.floor(ac);this.high=Math.ceil(ag);this.update_location(this.low,this.high);this.resolution_px_b=this.viewport_container.width()/(this.high-this.low);var af=(this.low/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ah=((this.high-this.low)/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ae=13;this.overview_box.css({left:af,width:Math.max(ae,ah)}).show();if(ah<ae){this.overview_box.css("left",af-(ae-ah)/2)}if(this.overview_highlight){this.overview_highlight.css({left:af,width:ah})}ab.each(this.tracks_to_be_redrawn,function(ak){var ai=ak[0],aj=ak[1];if(ai){ai._draw(aj)}});this.tracks_to_be_redrawn=[];ab.each(this.label_tracks,function(ai){ai._draw()})},zoom_in:function(ad,ae){if(this.max_high===0||this.high-this.low<=this.min_separation){return}var af=this.high-this.low,ag=af/2+this.low,ac=(af/this.zoom_factor)/2;if(ad){ag=ad/this.viewport_container.width()*(this.high-this.low)+this.low}this.low=Math.round(ag-ac);this.high=Math.round(ag+ac);this.changed();this.request_redraw()},zoom_out:function(){if(this.max_high===0){return}var ad=this.high-this.low,ae=ad/2+this.low,ac=(ad*this.zoom_factor)/2;this.low=Math.round(ae-ac);this.high=Math.round(ae+ac);this.changed();this.request_redraw()},resize_window:function(){this.viewport_container.height(this.container.height()-this.top_container.height()-this.bottom_container.height());this.request_redraw()},set_overview:function(ae){if(this.overview_drawable){if(this.overview_drawable.dataset.id===ae.dataset.id){return}this.overview_viewport.find(".track").remove()}var ad=ae.copy({content_div:this.overview_viewport}),ac=this;ad.header_div.hide();ad.is_overview=true;ac.overview_drawable=ad;this.overview_drawable.postdraw_actions=function(){ac.overview_highlight.show().height(ac.overview_drawable.content_div.height());ac.overview_viewport.height(ac.overview_drawable.content_div.height()+ac.overview_box.outerHeight());ac.overview_close.show();ac.resize_window()};ac.overview_drawable.request_draw();this.changed()},reset_overview:function(){$(".tooltip").remove();this.overview_viewport.find(".track-tile").remove();this.overview_viewport.height(this.default_overview_height);this.overview_box.height(this.default_overview_height);this.overview_close.hide();this.overview_highlight.hide();view.resize_window();view.overview_drawable=null}});var s=R.Tool.extend({defaults:{track:null},initialize:function(ac){R.Tool.prototype.initialize.call(this,ac);var ad=true;if(ac.tool_state!==undefined&&ac.tool_state.hidden!==undefined){ad=ac.tool_state.hidden}this.set("hidden",ad);this.remove_inputs(["data","hidden_data","conditional"])},state_dict:function(ac){return ab.extend(this.get_inputs_dict(),{hidden:!this.is_visible()})}});var v=Backbone.View.extend({events:{"change input":"update_value"},render:function(){var ae=this.$el.addClass("param-row"),af=this.model;var ac=$("<div>").addClass("param-label").text(af.get("label")).appendTo(ae);var ad=$("<div/>").addClass("param-input").html(af.get("html")).appendTo(ae);ad.find(":input").val(af.get("value"));$("<div style='clear: both;'/>").appendTo(ae)},update_value:function(ac){this.model.set_value($(ac.target).val())}});var aa=Backbone.View.extend({initialize:function(ac){this.model.on("change:hidden",this.set_visible,this)},render:function(){var ad=this;tool=this.model,parent_div=this.$el.addClass("dynamic-tool").hide();parent_div.bind("drag",function(ah){ah.stopPropagation()}).click(function(ah){ah.stopPropagation()}).bind("dblclick",function(ah){ah.stopPropagation()}).keydown(function(ah){ah.stopPropagation()});var ae=$("<div class='tool-name'>").appendTo(parent_div).text(tool.get("name"));tool.get("inputs").each(function(ai){var ah=new v({model:ai});ah.render();parent_div.append(ah.$el)});parent_div.find("input").click(function(){$(this).select()});var af=$("<div>").addClass("param-row").appendTo(parent_div);var ag=$("<input type='submit'>").attr("value","Run on complete dataset").appendTo(af);var ac=$("<input type='submit'>").attr("value","Run on visible region").appendTo(af);ac.click(function(){ad.run_on_region()});ag.click(function(){ad.run_on_dataset()});if(tool.is_visible()){this.$el.show()}},set_visible:function(){if(this.model.is_visible()){this.$el.show()}else{this.$el.hide()}},update_params:function(){for(var ac=0;ac<this.params.length;ac++){this.params[ac].update_value()}},run_on_dataset:function(){var ac=this.model;this.run({target_dataset_id:this.model.get("track").dataset.id,action:"rerun",tool_id:ac.id},null,function(ad){Galaxy.modal.show({title:ac.get("name")+" is Running",body:ac.get("name")+" is running on the complete dataset. Tool outputs are in dataset's history.",buttons:{Close:function(){Galaxy.modal.hide()}}})})},run_on_region:function(){var ad=this.model.get("track"),ag=this.model,ai=new y.GenomeRegion({chrom:ad.view.chrom,start:ad.view.low,end:ad.view.high}),aj={target_dataset_id:ad.dataset.id,action:"rerun",tool_id:ag.id,regions:[ai.toJSON()]},ah=ad,al=ag.get("name")+ah.tool_region_and_parameters_str(ai),ac;if(ah.container===view){var ak=new P(view,view,{name:ad.prefs.name});var af=ah.container.replace_drawable(ah,ak,false);ak.container_div.insertBefore(ah.view.content_div.children()[af]);ak.add_drawable(ah);ah.container_div.appendTo(ak.content_div);ac=ak}else{ac=ah.container}var ae=new ah.constructor(view,ac,{name:al,hda_ldda:"hda"});ae.init_for_tool_data();ae.change_mode(ah.mode);ae.set_filters_manager(ah.filters_manager.copy(ae));ae.update_icons();ac.add_drawable(ae);ae.tiles_div.text("Starting job.");this.run(aj,ae,function(am){ae.set_dataset(new X.Dataset(am));ae.tiles_div.text("Running job.");ae.init()})},run:function(ac,ae,af){ac.inputs=this.model.get_inputs_dict();var ad=new l.ServerStateDeferred({ajax_settings:{url:galaxy_config.root+"api/tools",data:JSON.stringify(ac),dataType:"json",contentType:"application/json",type:"POST"},interval:2000,success_fn:function(ag){return ag!=="pending"}});$.when(ad.go()).then(function(ag){if(ag==="no converter"){ae.container_div.addClass("error");ae.content_div.text(J)}else{if(ag.error){ae.container_div.addClass("error");ae.content_div.text(z+ag.message)}else{af(ag)}}})}});var E=function(ac,ad){L.Scaler.call(this,ad);this.filter=ac};E.prototype.gen_val=function(ac){if(this.filter.high===Number.MAX_VALUE||this.filter.low===-Number.MAX_VALUE||this.filter.low===this.filter.high){return this.default_val}return((parseFloat(ac[this.filter.index])-this.filter.low)/(this.filter.high-this.filter.low))};var j=Backbone.Model.extend({initialize:function(ad){var ac={};ab.each(ad.params,function(ae){ac[ae.key]=(ae.type==="color"&&!ae.default_value?l.get_random_color():ae.default_value)});if(ad.saved_values){ab.each(this.get("params"),function(ae){if(ae.key in ad.saved_values){ac[ae.key]=ad.saved_values[ae.key]}})}this.set("values",ac)},set_param_default_value:function(ad,ac){var ae=ab.find(this.get("params"),function(af){return af.key===ad});if(ae){ae.default_value=ac}},set_param_value:function(ac,ad){var ae=ab.find(this.get("params"),function(af){return af.key===ac});if(ae){if(typeof ad==="string"||ad instanceof String){if(ad.trim()===""){ad=ae.default_value}else{if(ae.type==="float"){ad=parseFloat(ad)}else{if(ae.type==="int"){ad=parseInt(ad,10)}}}}}if(this.get("values")[ac]!==ad){this.get("values")[ac]=ad;this.trigger("change:values");return true}else{return false}}});var a=Backbone.View.extend({render:function(){var aj=this.model;var ac=$("<div/>").keydown(function(ak){ak.stopPropagation()});var ai;function ah(ao,ak){for(var at=0;at<ao.length;at++){ai=ao[at];if(ai.hidden){continue}var am="param_"+at;var ax=aj.get("values")[ai.key];var az=$("<div class='form-row' />").appendTo(ak);az.append($("<label />").attr("for",am).text(ai.label+":"));if(ai.type==="bool"){az.append($('<input type="checkbox" />').attr("id",am).attr("name",am).attr("checked",ax))}else{if(ai.type==="text"){az.append($('<input type="text"/>').attr("id",am).val(ax).click(function(){$(this).select()}))}else{if(ai.type==="select"){var av=$("<select />").attr("id",am);for(var aq=0;aq<ai.options.length;aq++){$("<option/>").text(ai.options[aq].label).attr("value",ai.options[aq].value).appendTo(av)}av.val(ax);az.append(av)}else{if(ai.type==="color"){var ay=$("<div/>").appendTo(az),au=$("<input/>").attr({id:am,name:am}).val(ax).addClass("color-input").appendTo(ay).click(function(aB){$(".tooltip").removeClass("in");var aA=$(this).siblings(".tooltip").addClass("in");aA.css({left:$(this).position().left+$(this).width()+5,top:$(this).position().top+Galaxy.modal.scrollTop()-($(aA).height()/2)+($(this).height()/2)}).show();aA.click(function(aC){aC.stopPropagation()});$(document).bind("click.color-picker",function(){aA.hide();$(document).unbind("click.color-picker")});aB.stopPropagation()}),ar=$("<a href='javascript:void(0)'/>").addClass("icon-button arrow-circle").appendTo(ay).attr("title","Set new random color").tooltip(),aw=$("<div class='tooltip right' style='position: absolute;' />").appendTo(ay).hide(),an=$("<div class='tooltip-inner' style='text-align: inherit'></div>").appendTo(aw),al=$("<div class='tooltip-arrow'></div>").appendTo(aw),ap=$.farbtastic(an,{width:100,height:100,callback:au,color:ax});ay.append($("<div/>").css("clear","both"));(function(aA){ar.click(function(){aA.setColor(l.get_random_color())})})(ap)}else{az.append($("<input />").attr("id",am).attr("name",am).val(ax))}}}}if(ai.help){az.append($("<div class='help'/>").text(ai.help))}}}ah(aj.get("params"),ac);var ad=this,ag=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ae=function(){ad.update_from_form($(Galaxy.modal.el));Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},af=function(ak){if((ak.keyCode||ak.which)===27){ag()}else{if((ak.keyCode||ak.which)===13){ae()}}};$(window).bind("keypress.check_enter_esc",af);Galaxy.modal.show({title:"Configure",body:ac,buttons:{Cancel:ag,Ok:ae}})},update_from_form:function(ac){var ad=this.model;var ae=false;ab.each(ad.get("params"),function(ah,af){if(!ah.hidden){var ai="param_"+af;var ag=ac.find("#"+ai).val();if(ah.type==="bool"){ag=ac.find("#"+ai).is(":checked")}ae=ad.set_param_value(ah.key,ag)||ae}})}});var c=function(ac,af,ag,ad,ae){this.track=ac;this.region=af;this.low=af.get("start");this.high=af.get("end");this.w_scale=ag;this.canvas=ad;this.html_elt=$("<div class='track-tile'/>").append(ad);this.data=ae;this.stale=false};c.prototype.predisplay_actions=function(){};var M=function(ac,af,ag,ad,ae){c.call(this,ac,af,ag,ad,ae)};M.prototype.predisplay_actions=function(){};var O=function(af,am,ao,ae,ah,ai,ap,ad,al){c.call(this,af,am,ao,ae,ah);this.mode=ai;this.all_slotted=ad;this.feature_mapper=al;this.has_icons=false;if(ap){this.has_icons=true;var aj=this;ae=this.html_elt.children()[0],message_div=$("<div/>").addClass("tile-message").css({height:F,width:ae.width}).prependTo(this.html_elt);var ak=new y.GenomeRegion({chrom:af.view.chrom,start:this.low,end:this.high}),an=ah.length,ag=$("<a/>").addClass("icon more-down").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data including depth").tooltip().appendTo(message_div),ac=$("<a/>").addClass("icon more-across").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data excluding depth").tooltip().appendTo(message_div);ag.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.DEEP_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()});ac.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.BROAD_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()})}};q(O.prototype,c.prototype);O.prototype.predisplay_actions=function(){var ad=this,ac={};if(ad.mode!=="Pack"){return}$(this.html_elt).hover(function(){this.hovered=true;$(this).mousemove()},function(){this.hovered=false;$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()}).mousemove(function(ao){if(!this.hovered){return}var aj=$(this).offset(),an=ao.pageX-aj.left,am=ao.pageY-aj.top,at=ad.feature_mapper.get_feature_data(an,am),ak=(at?at[0]:null);$(this).parents(".track-content").children(".overlay").children(".feature-popup").each(function(){if(!ak||$(this).attr("id")!==ak.toString()){$(this).remove()}});if(at){var af=ac[ak];if(!af){var ap={name:at[3],start:at[1],end:at[2],strand:at[4]},ai=ad.track.filters_manager.filters,ah;for(var al=0;al<ai.length;al++){ah=ai[al];ap[ah.name]=at[ah.index]}af=$("<div/>").attr("id",ak).addClass("feature-popup");var au=$("<table/>"),ar,aq,av;for(ar in ap){aq=ap[ar];av=$("<tr/>").appendTo(au);$("<th/>").appendTo(av).text(ar);$("<td/>").attr("align","left").appendTo(av).text(typeof(aq)==="number"?V(aq,2):aq)}af.append($("<div class='feature-popup-inner'>").append(au));ac[ak]=af}af.appendTo($(this).parents(".track-content").children(".overlay"));var ag=an+parseInt(ad.html_elt.css("left"),10)-af.width()/2,ae=am+parseInt(ad.html_elt.css("top"),10)+7;af.css("left",ag+"px").css("top",ae+"px")}else{if(!ao.isPropagationStopped()){ao.stopPropagation();$(this).siblings().each(function(){$(this).trigger(ao)})}}}).mouseleave(function(){$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()})};var g=function(ad,ac,ae){q(ae,{drag_handle_class:"draghandle"});r.call(this,ad,ac,ae);this.dataset=null;if(ae.dataset){this.dataset=(ae.dataset instanceof Backbone.Model?ae.dataset:new X.Dataset(ae.dataset))}this.dataset_check_type="converted_datasets_state";this.data_url_extra_params={};this.data_query_wait=("data_query_wait" in ae?ae.data_query_wait:K);this.data_manager=("data_manager" in ae?ae.data_manager:new y.GenomeDataManager({dataset:this.dataset,genome:new y.Genome({key:ad.dbkey,chroms_info:{chrom_info:ad.chrom_data}}),data_mode_compatible:this.data_and_mode_compatible,can_subset:this.can_subset}));this.min_height_px=16;this.max_height_px=800;this.visible_height_px=this.prefs.height;this.content_div=$("<div class='track-content'>").appendTo(this.container_div);if(this.container){this.container.content_div.append(this.container_div);if(!("resize" in ae)||ae.resize){this.add_resize_handle()}}};q(g.prototype,r.prototype,{action_icons_def:[{name:"mode_icon",title:"Set display mode",css_class:"chevron-expand",on_click_fn:function(){}},r.prototype.action_icons_def[0],{name:"overview_icon",title:"Set as overview",css_class:"application-dock-270",on_click_fn:function(ac){ac.view.set_overview(ac)}},r.prototype.action_icons_def[1],{name:"filters_icon",title:"Filters",css_class:"ui-slider-050",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters()}else{ac.filters_manager.init_filters()}ac.filters_manager.toggle()}},{name:"tools_icon",title:"Tool",css_class:"hammer",on_click_fn:function(ac){ac.tool.toggle();if(ac.tool.is_visible()){ac.set_name(ac.prefs.name+ac.tool_region_and_parameters_str())}else{ac.revert_name()}$(".tooltip").remove()}},{name:"param_space_viz_icon",title:"Tool parameter space visualization",css_class:"arrow-split",on_click_fn:function(ac){var af='<strong>Tool</strong>: <%= track.tool.get("name") %><br/><strong>Dataset</strong>: <%= track.prefs.name %><br/><strong>Region(s)</strong>: <select name="regions"><option value="cur">current viewing area</option><option value="bookmarks">bookmarks</option><option value="both">current viewing area and bookmarks</option></select>',ae=ab.template(af,{track:ac});var ah=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ad=function(){var aj=$('select[name="regions"] option:selected').val(),al,ai=new y.GenomeRegion({chrom:view.chrom,start:view.low,end:view.high}),ak=ab.map($(".bookmark"),function(am){return new y.GenomeRegion({from_str:$(am).children(".position").text()})});if(aj==="cur"){al=[ai]}else{if(aj==="bookmarks"){al=ak}else{al=[ai].concat(ak)}}Galaxy.modal.hide();window.location.href=galaxy_config.root+"visualization/sweepster?"+$.param({dataset_id:ac.dataset.id,hda_ldda:ac.dataset.get("hda_ldda"),regions:JSON.stringify(new Backbone.Collection(al).toJSON())})},ag=function(ai){if((ai.keyCode||ai.which)===27){ah()}else{if((ai.keyCode||ai.which)===13){ad()}}};Galaxy.modal.show({title:"Visualize tool parameter space and output from different parameter settings?",body:ae,buttons:{No:ah,Yes:ad}})}},r.prototype.action_icons_def[2]],can_draw:function(){return this.dataset&&r.prototype.can_draw.call(this)},build_container_div:function(){return $("<div/>").addClass("track").attr("id","track_"+this.id)},build_header_div:function(){var ac=$("<div class='track-header'/>");if(this.view.editor){this.drag_div=$("<div/>").addClass(this.drag_handle_class).appendTo(ac)}this.name_div=$("<div/>").addClass("track-name").appendTo(ac).text(this.prefs.name).attr("id",this.prefs.name.replace(/\s+/g,"-").replace(/[^a-zA-Z0-9\-]/g,"").toLowerCase());return ac},set_dataset:function(ac){this.dataset=ac;this.data_manager.set("dataset",ac)},on_resize:function(){this.request_draw({clear_tile_cache:true})},add_resize_handle:function(){var ac=this;var af=false;var ae=false;var ad=$("<div class='track-resize'>");$(ac.container_div).hover(function(){if(ac.prefs.content_visible){af=true;ad.show()}},function(){af=false;if(!ae){ad.hide()}});ad.hide().bind("dragstart",function(ag,ah){ae=true;ah.original_height=$(ac.content_div).height()}).bind("drag",function(ah,ai){var ag=Math.min(Math.max(ai.original_height+ai.deltaY,ac.min_height_px),ac.max_height_px);$(ac.tiles_div).css("height",ag);ac.visible_height_px=(ac.max_height_px===ag?0:ag);ac.on_resize()}).bind("dragend",function(ag,ah){ac.tile_cache.clear();ae=false;if(!af){ad.hide()}ac.config.get("values").height=ac.visible_height_px;ac.changed()}).appendTo(ac.container_div)},set_display_modes:function(af,ai){this.display_modes=af;this.mode=(ai?ai:(this.config&&this.config.get("values").mode?this.config.get("values").mode:this.display_modes[0]));this.action_icons.mode_icon.attr("title","Set display mode (now: "+this.mode+")");var ad=this,ag={};for(var ae=0,ac=ad.display_modes.length;ae<ac;ae++){var ah=ad.display_modes[ae];ag[ah]=function(aj){return function(){ad.change_mode(aj);ad.icons_div.show();ad.container_div.mouseleave(function(){ad.icons_div.hide()})}}(ah)}make_popupmenu(this.action_icons.mode_icon,ag)},build_action_icons:function(){r.prototype.build_action_icons.call(this,this.action_icons_def);if(this.display_modes!==undefined){this.set_display_modes(this.display_modes)}},hide_contents:function(){this.tiles_div.hide();this.container_div.find(".yaxislabel, .track-resize").hide()},show_contents:function(){this.tiles_div.show();this.container_div.find(".yaxislabel, .track-resize").show();this.request_draw()},get_type:function(){if(this instanceof W){return"LabelTrack"}else{if(this instanceof D){return"ReferenceTrack"}else{if(this instanceof h){return"LineTrack"}else{if(this instanceof T){return"ReadTrack"}else{if(this instanceof Z){return"VariantTrack"}else{if(this instanceof f){return"CompositeTrack"}else{if(this instanceof d){return"FeatureTrack"}}}}}}}return""},show_message:function(ac){this.tiles_div.remove();return $("<span/>").addClass("message").html(ac).appendTo(this.content_div)},init:function(ae){var ad=this;ad.enabled=false;ad.tile_cache.clear();ad.data_manager.clear();ad.content_div.children().remove();ad.container_div.removeClass("nodata error pending");ad.tiles_div=$("<div/>").addClass("tiles").appendTo(ad.content_div);if(!ad.dataset.id){return}var ac=$.Deferred(),af={hda_ldda:ad.dataset.get("hda_ldda"),data_type:this.dataset_check_type,chrom:ad.view.chrom,retry:ae};$.getJSON(this.dataset.url(),af,function(ag){if(!ag||ag==="error"||ag.kind==="error"){ad.container_div.addClass("error");var ah=ad.show_message(o);if(ag.message){ah.append($("<a href='javascript:void(0);'></a>").text("View error").click(function(){Galaxy.modal.show({title:"Trackster Error",body:"<pre>"+ag.message+"</pre>",buttons:{Close:function(){Galaxy.modal.hide()}}})}));ah.append($("<span/>").text(" "));ah.append($("<a href='javascript:void(0);'></a>").text("Try again").click(function(){ad.init(true)}))}}else{if(ag==="no converter"){ad.container_div.addClass("error");ad.show_message(J)}else{if(ag==="no data"||(ag.data!==undefined&&(ag.data===null||ag.data.length===0))){ad.container_div.addClass("nodata");ad.show_message(G)}else{if(ag==="pending"){ad.container_div.addClass("pending");ad.show_message(w);setTimeout(function(){ad.init()},ad.data_query_wait)}else{if(ag==="data"||ag.status==="data"){if(ag.valid_chroms){ad.valid_chroms=ag.valid_chroms;ad.update_icons()}ad.tiles_div.text(U);if(ad.view.chrom){ad.tiles_div.text("");ad.tiles_div.css("height",ad.visible_height_px+"px");ad.enabled=true;$.when.apply($,ad.predraw_init()).done(function(){ac.resolve();ad.container_div.removeClass("nodata error pending");ad.request_draw()})}else{ac.resolve()}}}}}}});this.update_icons();return ac},predraw_init:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(af&&af.min&&af.max){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.config.set_param_default_value("min_value",ae);ac.config.set_param_default_value("max_value",ag);ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},get_drawables:function(){return this}});var N=function(ae,ad,ag){g.call(this,ae,ad,ag);var ac=this;m(ac.container_div,ac.drag_handle_class,".group",ac);this.filters_manager=new i.FiltersManager(this,("filters" in ag?ag.filters:null));this.data_manager.set("filters_manager",this.filters_manager);this.filters_available=false;this.tool=(ag.tool?new s(ab.extend(ag.tool,{track:this,tool_state:ag.tool_state})):null);this.tile_cache=new y.Cache(Q);this.left_offset=0;if(this.header_div){this.set_filters_manager(this.filters_manager);if(this.tool){var af=new aa({model:this.tool});af.render();this.dynamic_tool_div=af.$el;this.header_div.after(this.dynamic_tool_div)}}this.tiles_div=$("<div/>").addClass("tiles").appendTo(this.content_div);if(!this.prefs.content_visible){this.tiles_div.hide()}this.overlay_div=$("<div/>").addClass("overlay").appendTo(this.content_div);if(ag.mode){this.change_mode(ag.mode)}};q(N.prototype,r.prototype,g.prototype,{action_icons_def:g.prototype.action_icons_def.concat([{name:"show_more_rows_icon",title:"To minimize track height, not all feature rows are displayed. Click to display more rows.",css_class:"exclamation",on_click_fn:function(ac){$(".tooltip").remove();ac.slotters[ac.view.resolution_px_b].max_rows*=2;ac.request_draw({clear_tile_cache:true})},hide:true}]),copy:function(ac){var ad=this.to_dict();q(ad,{data_manager:this.data_manager});var ae=new this.constructor(this.view,ac,ad);ae.change_mode(this.mode);ae.enabled=this.enabled;return ae},set_filters_manager:function(ac){this.filters_manager=ac;this.header_div.after(this.filters_manager.parent_div)},to_dict:function(){return{track_type:this.get_type(),dataset:{id:this.dataset.id,hda_ldda:this.dataset.get("hda_ldda")},prefs:this.prefs,mode:this.mode,filters:this.filters_manager.to_dict(),tool_state:(this.tool?this.tool.state_dict():{})}},set_min_max:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(isNaN(parseFloat(ac.prefs.min_value))||isNaN(parseFloat(ac.prefs.max_value))){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},change_mode:function(ad){var ac=this;ac.mode=ad;ac.config.get("values").mode=ad;if(ad==="Auto"){this.data_manager.clear()}ac.request_draw({clear_tile_cache:true});this.action_icons.mode_icon.attr("title","Set display mode (now: "+ac.mode+")");return ac},update_icons:function(){var ac=this;if(ac.filters_available){ac.action_icons.filters_icon.show()}else{ac.action_icons.filters_icon.hide()}if(ac.tool){ac.action_icons.tools_icon.show();ac.action_icons.param_space_viz_icon.show()}else{ac.action_icons.tools_icon.hide();ac.action_icons.param_space_viz_icon.hide()}},_gen_tile_cache_key:function(ad,ac){return ad+"_"+ac},request_draw:function(ac){if(ac&&ac.clear_tile_cache){this.tile_cache.clear()}this.view.request_redraw(ac,this)},before_draw:function(){this.max_height_px=0},_draw:function(aq){if(!this.can_draw()){return}var an=aq&&aq.clear_after,al=this.view.low,ag=this.view.high,aj=ag-al,ad=this.view.container.width(),ap=this.view.resolution_px_b,af=1/ap;if(this.is_overview){al=this.view.max_low;ag=this.view.max_high;ap=ad/(view.max_high-view.max_low);af=1/ap}this.before_draw();this.tiles_div.children().addClass("remove");var ac=Math.floor(al/(af*S)),ak,am,ah,ai=[],ao=[];while((ac*S*af)<ag){ak=Math.floor(ac*S*af);am=new y.GenomeRegion({chrom:this.view.chrom,start:ak,end:Math.min(ak+Math.ceil(S*af),this.view.max_high)});ah=this.draw_helper(am,ap,aq);ai.push(ah);$.when(ah).then(function(ar){ao.push(ar)});ac+=1}if(!an){this.tiles_div.children(".remove").removeClass("remove").remove()}var ae=this;$.when.apply($,ai).then(function(){ae.tiles_div.children(".remove").remove();ao=ab.filter(ao,function(ar){return ar!==null});if(ao.length!==0){ae.postdraw_actions(ao,ad,ap,an)}})},_add_yaxis_label:function(af,ah){var ad=this,ag=(af==="max"?"top":"bottom"),ai=(af==="max"?"max":"min"),ac=(af==="max"?"max_value":"min_value"),ae=this.container_div.find(".yaxislabel."+ag);ah=ah||function(){ad.request_draw({clear_tile_cache:true})};if(ae.length!==0){ae.text(ad.prefs[ac])}else{ae=$("<div/>").text(ad.prefs[ac]).make_text_editable({num_cols:12,on_finish:function(aj){$(".tooltip").remove();ad.config.set_param_value(ac,aj);ah()},help_text:"Set "+ai+" value"}).addClass("yaxislabel "+ag).css("color",this.prefs.label_color);this.container_div.prepend(ae)}},postdraw_actions:function(af,ag,ai,ac){var ae=ab.filter(af,function(aj){return(aj instanceof M)});if(ae.length>0){this.max_height_px=0;var ad=this;ab.each(af,function(aj){if(!(aj instanceof M)){aj.html_elt.remove();ad.draw_helper(aj.region,ai,{force:true,mode:"Coverage"})}});ad._add_yaxis_label("max")}else{this.container_div.find(".yaxislabel").remove();var ah=ab.find(af,function(aj){return aj.has_icons});if(ah){ab.each(af,function(aj){if(!aj.has_icons){aj.html_elt.css("padding-top",F)}})}}},get_mode:function(ac){return this.mode},update_auto_mode:function(ac){},_get_drawables:function(){return[this]},draw_helper:function(al,an,ao){if(!ao){ao={}}var ad=ao.force,ai=ao.mode||this.mode,af=1/an,ae=this,ag=this._get_drawables(),am=this._gen_tile_cache_key(an,al),ah=function(ap){return(ap&&"track" in ap)};var aj=(ad?undefined:ae.tile_cache.get_elt(am));if(aj){if(ah(aj)){ae.show_tile(aj,an)}return aj}if(ao.data_fetch===false){return null}var ak=function(){var ap=(ab.find(C,function(ar){return ar===ai})?"Coverage":ai);var aq=ab.map(ag,function(ar){return ar.data_manager.get_data(al,ap,af,ae.data_url_extra_params)});if(view.reference_track){aq.push(view.reference_track.data_manager.get_data(al,ai,af,view.reference_track.data_url_extra_params))}return aq};var ac=$.Deferred();ae.tile_cache.set_elt(am,ac);$.when.apply($,ak()).then(function(){var ap=ak(),av=ap,aB;if(view.reference_track){aB=view.reference_track.data_manager.subset_entry(ap.pop(),al)}var aw=[],at=[];ab.each(ag,function(aG,aD){var aF=aG.mode,aE=av[aD];if(aF==="Auto"){aF=aG.get_mode(aE);aG.update_auto_mode(aF)}aw.push(aF);at.push(aG.get_canvas_height(aE,aF,an,aq))});var au=ae.view.canvas_manager.new_canvas(),ax=al.get("start"),aC=al.get("end"),ar=0,aq=Math.ceil((aC-ax)*an)+ae.left_offset,az=ab.max(at),ay;au.width=aq;au.height=(ao.height||az);var aA=au.getContext("2d");aA.translate(ae.left_offset,0);if(ag.length>1){aA.globalAlpha=0.5;aA.globalCompositeOperation="source-over"}ab.each(ag,function(aE,aD){ay=aE.draw_tile(av[aD],aA,aw[aD],al,an,aB)});if(ay!==undefined){ae.tile_cache.set_elt(am,ay);ae.show_tile(ay,an)}ac.resolve(ay)});return ac},get_canvas_height:function(ac,ae,af,ad){return this.visible_height_px},_draw_line_track_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.LinePainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new M(this,ag,ai,af,ac.data)},draw_tile:function(ac,ad,ag,af,ah,ae){},show_tile:function(ae,ah){var ad=this,ac=ae.html_elt;ae.predisplay_actions();var ag=(ae.low-(this.is_overview?this.view.max_low:this.view.low))*ah;if(this.left_offset){ag-=this.left_offset}ac.css("left",ag);if(ac.hasClass("remove")){ac.removeClass("remove")}else{this.tiles_div.append(ac)}ac.css("height","auto");this.max_height_px=Math.max(this.max_height_px,ac.height()-2);ac.parent().children().css("height",this.max_height_px+"px");var af=this.max_height_px;if(this.visible_height_px!==0){af=Math.min(this.max_height_px,this.visible_height_px)}this.tiles_div.css("height",af+"px")},tool_region_and_parameters_str:function(af){var ac=this,ae=(af!==undefined?af.toString():"all"),ad=ab.values(ac.tool.get_inputs_dict()).join(", ");return" - region=["+ae+"], parameters=["+ad+"]"},data_and_mode_compatible:function(ac,ad){if(ad==="Auto"){return true}else{if(ad==="Coverage"){return ac.dataset_type==="bigwig"}else{if(ac.dataset_type==="bigwig"||ac.extra_info==="no_detail"){return false}else{return true}}}},can_subset:function(ac){if(ac.message||ac.extra_info==="no_detail"){return false}else{if(ac.dataset_type==="bigwig"){return(ac.data[1][0]-ac.data[0][0]===1)}}return true},init_for_tool_data:function(){this.data_manager.set("data_type","raw_data");this.data_query_wait=1000;this.dataset_check_type="state"}});var W=function(ad,ac){var ae={resize:false};g.call(this,ad,ac,ae);this.container_div.addClass("label-track")};q(W.prototype,g.prototype,{build_header_div:function(){},init:function(){this.enabled=true},predraw_init:function(){},_draw:function(ag){var ae=this.view,af=ae.high-ae.low,aj=Math.floor(Math.pow(10,Math.floor(Math.log(af)/Math.log(10)))),ac=Math.floor(ae.low/aj)*aj,ah=this.view.container.width(),ad=$("<div/>").addClass("label-container");while(ac<ae.high){var ai=(ac-ae.low)/af*ah;ad.append($("<div/>").addClass("label").text(commatize(ac)).css({left:ai}));ac+=aj}this.content_div.children(":first").remove();this.content_div.append(ad)}});var f=function(ad,ac,ag){N.call(this,ad,ac,ag);this.drawables=[];if("drawables" in ag){var af;for(var ae=0;ae<ag.drawables.length;ae++){af=ag.drawables[ae];this.drawables[ae]=p(af,ad,null);if(af.left_offset>this.left_offset){this.left_offset=af.left_offset}}this.enabled=true}ab.each(this.drawables,function(ah){if(ah instanceof d||ah instanceof T){ah.change_mode("Coverage")}});this.update_icons();this.obj_type="CompositeTrack"};q(f.prototype,N.prototype,{display_modes:C,action_icons_def:[{name:"composite_icon",title:"Show individual tracks",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_group()}}].concat(N.prototype.action_icons_def),to_dict:A.prototype.to_dict,add_drawable:A.prototype.add_drawable,unpack_drawables:A.prototype.unpack_drawables,change_mode:function(ac){N.prototype.change_mode.call(this,ac);for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad].change_mode(ac)}},init:function(){var ae=[];for(var ad=0;ad<this.drawables.length;ad++){ae.push(this.drawables[ad].init())}var ac=this;$.when.apply($,ae).then(function(){ac.enabled=true;ac.request_draw()})},update_icons:function(){this.action_icons.filters_icon.hide();this.action_icons.tools_icon.hide();this.action_icons.param_space_viz_icon.hide()},can_draw:r.prototype.can_draw,_get_drawables:function(){return this.drawables},show_group:function(){var af=new P(this.view,this.container,{name:this.prefs.name}),ac;for(var ae=0;ae<this.drawables.length;ae++){ac=this.drawables[ae];ac.update_icons();af.add_drawable(ac);ac.container=af;af.content_div.append(ac.container_div)}var ad=this.container.replace_drawable(this,af,true);af.request_draw({clear_tile_cache:true})},before_draw:function(){N.prototype.before_draw.call(this);var ad=ab.min(ab.map(this.drawables,function(ae){return ae.prefs.min_value})),ac=ab.max(ab.map(this.drawables,function(ae){return ae.prefs.max_value}));this.prefs.min_value=ad;this.prefs.max_value=ac;ab.each(this.drawables,function(ae){ae.prefs.min_value=ad;ae.prefs.max_value=ac})},update_all_min_max:function(){var ac=this;ab.each(this.drawables,function(ad){ad.prefs.min_value=ac.prefs.min_value;ad.prefs.max_value=ac.prefs.max_value});this.request_draw({clear_tile_cache:true})},postdraw_actions:function(ai,ac,al,ah){N.prototype.postdraw_actions.call(this,ai,ac,al,ah);var ag=-1,ae;for(ae=0;ae<ai.length;ae++){var aj=ai[ae].html_elt.find("canvas").height();if(aj>ag){ag=aj}}for(ae=0;ae<ai.length;ae++){var af=ai[ae];if(af.html_elt.find("canvas").height()!==ag){this.draw_helper(af.region,al,{force:true,height:ag});af.html_elt.remove()}}var ad=this,ak=function(){ad.update_all_min_max()};this._add_yaxis_label("min",ak);this._add_yaxis_label("max",ak)}});var D=function(ac){N.call(this,ac,{content_div:ac.top_labeltrack},{resize:false});this.left_offset=ac.canvas_manager.char_width_px;this.container_div.addClass("reference-track");this.data_url=galaxy_config.root+"api/genomes/"+this.view.dbkey;this.data_url_extra_params={reference:true};this.data_manager=new y.GenomeReferenceDataManager({data_url:this.data_url,can_subset:this.can_subset});this.hide_contents()};q(D.prototype,r.prototype,N.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"height",type:"int",default_value:13,hidden:true}]),build_header_div:function(){},init:function(){this.data_manager.clear();this.enabled=true},predraw_init:function(){},can_draw:r.prototype.can_draw,draw_helper:function(ad,ae,ac){if(ae>this.view.canvas_manager.char_width_px){this.tiles_div.show();return N.prototype.draw_helper.call(this,ad,ae,ac)}else{this.tiles_div.hide();return null}},can_subset:function(ac){return true},draw_tile:function(ae,ak,af,ah,al){var ad=this.data_manager.subset_entry(ae,ah),aj=ad.data;var ac=ak.canvas;ak.font=ak.canvas.manager.default_font;ak.textAlign="center";for(var ag=0,ai=aj.length;ag<ai;ag++){ak.fillStyle=this.view.get_base_color(aj[ag]);ak.fillText(aj[ag],Math.floor(ag*al),10)}return new c(this,ah,al,ac,ad)}});var h=function(ad,ac,ae){this.mode="Histogram";N.call(this,ad,ac,ae)};q(h.prototype,r.prototype,N.prototype,{display_modes:C,config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Color",type:"color"},{key:"min_value",label:"Min Value",type:"float",default_value:undefined},{key:"max_value",label:"Max Value",type:"float",default_value:undefined},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:30,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},before_draw:function(){},draw_tile:function(ac,ad,af,ae,ag){return this._draw_line_track_tile(ac,ad,af,ae,ag)},can_subset:function(ac){return(ac.data[1][0]-ac.data[0][0]===1)},postdraw_actions:function(ad,ae,af,ac){this._add_yaxis_label("max");this._add_yaxis_label("min")}});var t=function(ad,ac,ae){this.mode="Heatmap";N.call(this,ad,ac,ae)};q(t.prototype,r.prototype,N.prototype,{display_modes:["Heatmap"],config_params:ab.union(r.prototype.config_params,[{key:"pos_color",label:"Positive Color",type:"color",default_value:"#FF8C00"},{key:"neg_color",label:"Negative Color",type:"color",default_value:"#4169E1"},{key:"min_value",label:"Min Value",type:"float",default_value:-1},{key:"max_value",label:"Max Value",type:"float",default_value:1},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:500,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.DiagonalHeatmapPainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new c(this,ag,ai,af,ac.data)}});var d=function(ad,ac,ae){N.call(this,ad,ac,ae);this.container_div.addClass("feature-track");this.summary_draw_height=30;this.slotters={};this.start_end_dct={};this.left_offset=200;this.set_painter_from_config()};q(d.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true,help:"Show the number of items in each bin when drawing summary histogram"},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"connector_style",label:"Connector style",type:"select",default_value:"fishbones",options:[{label:"Line with arrows",value:"fishbone"},{label:"Arcs",value:"arcs"}]},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.set_painter_from_config();this.request_draw({clear_tile_cache:true})},set_painter_from_config:function(){if(this.config.get("values").connector_style==="arcs"){this.painter=L.ArcLinkedFeaturePainter}else{this.painter=L.LinkedFeaturePainter}},postdraw_actions:function(am,ae,an,al){N.prototype.postdraw_actions.call(this,am,ae,an,al);var ag=this,ah;if(ag.filters_manager){var af=ag.filters_manager.filters,aj;for(aj=0;aj<af.length;aj++){af[aj].update_ui_elt()}var ai=false,ak,ad;for(ah=0;ah<am.length;ah++){if(am[ah].data.length){ak=am[ah].data[0];for(aj=0;aj<af.length;aj++){ad=af[aj];if(ad.applies_to(ak)&&ad.min!==ad.max){ai=true;break}}}}if(ag.filters_available!==ai){ag.filters_available=ai;if(!ag.filters_available){ag.filters_manager.hide()}ag.update_icons()}}if(am[0] instanceof O){var ac=true;for(ah=0;ah<am.length;ah++){if(!am[ah].all_slotted){ac=false;break}}if(!ac){this.action_icons.show_more_rows_icon.show()}else{this.action_icons.show_more_rows_icon.hide()}}else{this.action_icons.show_more_rows_icon.hide()}},update_auto_mode:function(ac){if(this.mode==="Auto"){if(ac==="no_detail"){ac="feature spans"}this.action_icons.mode_icon.attr("title","Set display mode (now: Auto/"+ac+")")}},incremental_slots:function(ag,ac,af){var ad=this.view.canvas_manager.dummy_context,ae=this.slotters[ag];if(!ae||(ae.mode!==af)){ae=new (u.FeatureSlotter)(ag,af,B,function(ah){return ad.measureText(ah)});this.slotters[ag]=ae}return ae.slot_features(ac)},get_mode:function(ac){if(ac.extra_info==="no_detail"||this.is_overview){mode="no_detail"}else{if(this.view.high-this.view.low>I){mode="Squish"}else{mode="Pack"}}return mode},get_canvas_height:function(ac,ag,ah,ad){if(ag==="Coverage"||ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var af=this.incremental_slots(ah,ac.data,ag);var ae=new (this.painter)(null,null,null,this.prefs,ag);return Math.max(this.min_height_px,ae.get_required_height(af,ad))}},draw_tile:function(am,aq,ao,af,aj,ae){var ap=this,ad=aq.canvas,ax=af.get("start"),ac=af.get("end"),ag=this.left_offset;if(am.dataset_type==="bigwig"){return this._draw_line_track_tile(am,aq,ao,af,aj)}var ai=[],an=this.slotters[aj].slots;all_slotted=true;if(am.data){var ak=this.filters_manager.filters;for(var ar=0,au=am.data.length;ar<au;ar++){var ah=am.data[ar];var at=false;var al;for(var aw=0,aB=ak.length;aw<aB;aw++){al=ak[aw];al.update_attrs(ah);if(!al.keep(ah)){at=true;break}}if(!at){ai.push(ah);if(!(ah[0] in an)){all_slotted=false}}}}var aA=(this.filters_manager.alpha_filter?new E(this.filters_manager.alpha_filter):null),ay=(this.filters_manager.height_filter?new E(this.filters_manager.height_filter):null),az=new (this.painter)(ai,ax,ac,this.prefs,ao,aA,ay,ae,function(aC){return ap.view.get_base_color(aC)});var av=null;aq.fillStyle=this.prefs.block_color;aq.font=aq.canvas.manager.default_font;aq.textAlign="right";if(am.data){av=az.draw(aq,ad.width,ad.height,aj,an);av.translation=-ag}return new O(ap,af,aj,ad,am.data,ao,am.message,all_slotted,av)}});var Z=function(ad,ac,ae){N.call(this,ad,ac,ae);this.painter=L.VariantPainter;this.summary_draw_height=30;this.left_offset=30};q(Z.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Histogram color",type:"color"},{key:"show_sample_data",label:"Show sample data",type:"bool",default_value:true},{key:"show_labels",label:"Show summary and sample labels",type:"bool",default_value:true},{key:"summary_height",label:"Locus summary height",type:"float",default_value:20},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,af,ah,ag,ai){if(ac.dataset_type==="bigwig"){return this._draw_line_track_tile(ac,af,"Histogram",ag,ai)}else{var ae=this.view,ad=new (this.painter)(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah,function(aj){return ae.get_base_color(aj)});ad.draw(af,af.canvas.width,af.canvas.height,ai);return new c(this,ag,ai,af.canvas,ac.data)}},get_canvas_height:function(ac,ag,ah,ae){if(ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var ad=(this.dataset.get_metadata("sample_names")?this.dataset.get_metadata("sample_names").length:0);if(ad===0&&ac.data.length!==0){ad=ac.data[0][7].match(/,/g);if(ad===null){ad=1}else{ad=ad.length+1}}var af=new (this.painter)(null,null,null,this.prefs,ag);return af.get_required_height(ad)}},predraw_init:function(){var ac=[g.prototype.predraw_init.call(this)];if(!this.dataset.get_metadata("sample_names")){ac.push(this.dataset.fetch())}return ac},postdraw_actions:function(ag,ah,aj,ad){N.prototype.postdraw_actions.call(this,ag,ah,aj,ad);var af=ab.filter(ag,function(ak){return(ak instanceof M)});var ae=this.dataset.get_metadata("sample_names");if(af.length===0&&this.prefs.show_labels&&ae&&ae.length>1){var ac;if(this.container_div.find(".yaxislabel.variant").length===0){ac=this.prefs.summary_height/2;this.tiles_div.prepend($("<div/>").text("Summary").addClass("yaxislabel variant top").css({"font-size":ac+"px",top:(this.prefs.summary_height-ac)/2+"px"}));if(this.prefs.show_sample_data){var ai=ae.join("<br/>");this.tiles_div.prepend($("<div/>").html(ai).addClass("yaxislabel variant top sample").css({top:this.prefs.summary_height,}))}}ac=(this.mode==="Squish"?5:10)+"px";$(this.tiles_div).find(".sample").css({"font-size":ac,"line-height":ac});$(this.tiles_div).find(".yaxislabel").css("color",this.prefs.label_color)}else{this.container_div.find(".yaxislabel.variant").remove()}}});var T=function(ad,ac,ae){d.call(this,ad,ac,ae);this.painter=(ad.reference_track?L.RefBasedReadPainter:L.ReadPainter);this.update_icons()};q(T.prototype,r.prototype,N.prototype,d.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block and sense strand color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_insertions",label:"Show insertions",type:"bool",default_value:false},{key:"show_differences",label:"Show differences only",type:"bool",default_value:true},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})}});var e={CompositeTrack:f,DrawableGroup:P,DiagonalHeatmapTrack:t,FeatureTrack:d,LineTrack:h,ReadTrack:T,VariantTrack:Z,VcfTrack:Z};var p=function(ae,ad,ac){if("copy" in ae){return ae.copy(ac)}else{var af=ae.obj_type;if(!af){af=ae.track_type}return new e[af](ad,ac,ae)}};return{TracksterView:Y,DrawableGroup:P,LineTrack:h,FeatureTrack:d,DiagonalHeatmapTrack:t,ReadTrack:T,VariantTrack:Z,CompositeTrack:f,object_from_template:p}}); \ No newline at end of file +define(["libs/underscore","viz/visualization","viz/trackster/util","viz/trackster/slotting","viz/trackster/painters","viz/trackster/filters","mvc/data","mvc/tools"],function(ab,y,l,u,L,i,X,R){var q=ab.extend;var n={};var k=function(ac,ad){n[ac.attr("id")]=ad};var m=function(ac,ad,af,ae){af=".group";n[ac.attr("id")]=ae;ac.bind("drag",{handle:"."+ad,relative:true},function(an,ao){var am=$(this),ar=$(this).parent(),aj=ar.children(".track,.group"),al=n[$(this).attr("id")],ai,ah,ap,ag,ak;ah=$(this).parents(af);if(ah.length!==0){ap=ah.position().top;ag=ap+ah.outerHeight();var aq=n[ah.attr("id")];if(ao.offsetY<ap){$(this).insertBefore(ah);aq.remove_drawable(al);aq.container.add_drawable_before(al,aq);return}else{if(ao.offsetY>ag){$(this).insertAfter(ah);aq.remove_drawable(al);aq.container.add_drawable(al);return}}}ah=null;for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));ap=ai.position().top;ag=ap+ai.outerHeight();if(ai.is(af)&&this!==ai.get(0)&&ao.offsetY>=ap&&ao.offsetY<=ag){if(ao.offsetY-ap<ag-ao.offsetY){ai.find(".content-div").prepend(this)}else{ai.find(".content-div").append(this)}if(al.container){al.container.remove_drawable(al)}n[ai.attr("id")].add_drawable(al);return}}for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));if(ao.offsetY<ai.position().top&&!(ai.hasClass("reference-track")||ai.hasClass("intro"))){break}}if(ak===aj.length){if(this!==aj.get(ak-1)){ar.append(this);n[ar.attr("id")].move_drawable(al,ak)}}else{if(this!==aj.get(ak)){$(this).insertBefore(aj.get(ak));n[ar.attr("id")].move_drawable(al,(ao.deltaY>0?ak-1:ak))}}}).bind("dragstart",function(){$(this).addClass("dragging")}).bind("dragend",function(){$(this).removeClass("dragging")})};var F=20,B=100,I=12000,S=400,K=5000,x=100,o="Cannot display dataset due to an error. ",J="A converter for this dataset is not installed. Please check your datatypes_conf.xml file.",G="No data for this chrom/contig.",w="Preparing data. This can take a while for a large dataset. If the visualization is saved and closed, preparation will continue in the background.",z="Tool cannot be rerun: ",b="Loading data...",U="Ready for display",Q=10,H=20,C=["Histogram","Line","Filled","Intensity"];function V(ad,ac){if(!ac){ac=0}var ae=Math.pow(10,ac);return Math.round(ad*ae)/ae}var r=function(ad,ac,af){if(!r.id_counter){r.id_counter=0}this.id=r.id_counter++;this.view=ad;this.container=ac;this.drag_handle_class=af.drag_handle_class;this.is_overview=false;this.action_icons={};this.config=new j({params:this.config_params,onchange:this.config_onchange,saved_values:af.prefs});this.prefs=this.config.get("values");if(!this.prefs.name){this.prefs.name=af.name}if(this.config_onchange){this.config.on("change:values",this.config_onchange,this)}this.container_div=this.build_container_div();this.header_div=this.build_header_div();if(this.header_div){this.container_div.append(this.header_div);this.icons_div=$("<div/>").addClass("track-icons").hide().appendTo(this.header_div);this.build_action_icons(this.action_icons_def);this.header_div.append($("<div style='clear: both'/>"));this.header_div.dblclick(function(ag){ag.stopPropagation()});var ae=this;this.container_div.hover(function(){ae.icons_div.show()},function(){ae.icons_div.hide()});$("<div style='clear: both'/>").appendTo(this.container_div)}};r.prototype.action_icons_def=[{name:"toggle_icon",title:"Hide/show content",css_class:"toggle",on_click_fn:function(ac){if(ac.prefs.content_visible){ac.action_icons.toggle_icon.addClass("toggle-expand").removeClass("toggle");ac.hide_contents();ac.prefs.content_visible=false}else{ac.action_icons.toggle_icon.addClass("toggle").removeClass("toggle-expand");ac.prefs.content_visible=true;ac.show_contents()}}},{name:"settings_icon",title:"Edit settings",css_class:"gear",on_click_fn:function(ad){var ac=new a({model:ad.config});ac.render()}},{name:"remove_icon",title:"Remove",css_class:"remove-icon",on_click_fn:function(ac){$(".tooltip").remove();ac.remove()}}];q(r.prototype,{config_params:[{key:"name",label:"Name",type:"text",default_value:""},{key:"content_visible",type:"bool",default_value:true,hidden:true}],config_onchange:function(){this.track.set_name(this.track.config.get("values").name)},init:function(){},changed:function(){this.view.changed()},can_draw:function(){if(this.enabled&&this.prefs.content_visible){return true}return false},request_draw:function(){},_draw:function(ac){},to_dict:function(){},set_name:function(ac){this.old_name=this.prefs.name;this.prefs.name=ac;this.name_div.text(this.prefs.name)},revert_name:function(){if(this.old_name){this.prefs.name=this.old_name;this.name_div.text(this.prefs.name)}},remove:function(){this.changed();this.container.remove_drawable(this);var ac=this.view;this.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})},build_container_div:function(){},build_header_div:function(){},add_action_icon:function(ad,ai,ah,ag,ac,af){var ae=this;this.action_icons[ad]=$("<a/>").attr("title",ai).addClass("icon-button").addClass(ah).tooltip().click(function(){ag(ae)}).appendTo(this.icons_div);if(af){this.action_icons[ad].hide()}},build_action_icons:function(ac){var ae;for(var ad=0;ad<ac.length;ad++){ae=ac[ad];this.add_action_icon(ae.name,ae.title,ae.css_class,ae.on_click_fn,ae.prepend,ae.hide)}},update_icons:function(){},hide_contents:function(){},show_contents:function(){},get_drawables:function(){}});var A=function(ad,ac,ae){r.call(this,ad,ac,ae);this.obj_type=ae.obj_type;this.drawables=[]};q(A.prototype,r.prototype,{unpack_drawables:function(ae){this.drawables=[];var ad;for(var ac=0;ac<ae.length;ac++){ad=p(ae[ac],this.view,this);this.add_drawable(ad)}},init:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].init()}},_draw:function(ac){for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad]._draw(ac)}},to_dict:function(){var ad=[];for(var ac=0;ac<this.drawables.length;ac++){ad.push(this.drawables[ac].to_dict())}return{prefs:this.prefs,obj_type:this.obj_type,drawables:ad}},add_drawable:function(ac){this.drawables.push(ac);ac.container=this;this.changed()},add_drawable_before:function(ae,ac){this.changed();var ad=this.drawables.indexOf(ac);if(ad!==-1){this.drawables.splice(ad,0,ae);return true}return false},replace_drawable:function(ae,ac,ad){var af=this.drawables.indexOf(ae);if(af!==-1){this.drawables[af]=ac;if(ad){ae.container_div.replaceWith(ac.container_div)}this.changed()}return af},remove_drawable:function(ad){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);ad.container=null;this.changed();return true}return false},move_drawable:function(ad,ae){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);this.drawables.splice(ae,0,ad);this.changed();return true}return false},get_drawables:function(){return this.drawables},get_tracks:function(af){var ac=this.drawables.slice(0),ad=[],ae;while(ac.length!==0){ae=ac.shift();if(ae instanceof af){ad.push(ae)}else{if(ae.drawables){ac=ac.concat(ae.drawables)}}}return ad}});var P=function(ad,ac,af){q(af,{obj_type:"DrawableGroup",drag_handle_class:"group-handle"});A.call(this,ad,ac,af);this.content_div=$("<div/>").addClass("content-div").attr("id","group_"+this.id+"_content_div").appendTo(this.container_div);k(this.container_div,this);k(this.content_div,this);m(this.container_div,this.drag_handle_class,".group",this);this.filters_manager=new i.FiltersManager(this);this.header_div.after(this.filters_manager.parent_div);this.saved_filters_managers=[];if("drawables" in af){this.unpack_drawables(af.drawables)}if("filters" in af){var ae=this.filters_manager;this.filters_manager=new i.FiltersManager(this,af.filters);ae.parent_div.replaceWith(this.filters_manager.parent_div);if(af.filters.visible){this.setup_multitrack_filtering()}}};q(P.prototype,r.prototype,A.prototype,{action_icons_def:[r.prototype.action_icons_def[0],r.prototype.action_icons_def[1],{name:"composite_icon",title:"Show composite track",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_composite_track()}},{name:"filters_icon",title:"Filters",css_class:"filters-icon",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters();ac._restore_filter_managers()}else{ac.setup_multitrack_filtering();ac.request_draw({clear_tile_cache:true})}ac.filters_manager.toggle()}},r.prototype.action_icons_def[2]],build_container_div:function(){var ac=$("<div/>").addClass("group").attr("id","group_"+this.id);if(this.container){this.container.content_div.append(ac)}return ac},build_header_div:function(){var ac=$("<div/>").addClass("track-header");ac.append($("<div/>").addClass(this.drag_handle_class));this.name_div=$("<div/>").addClass("track-name").text(this.prefs.name).appendTo(ac);return ac},hide_contents:function(){this.tiles_div.hide()},show_contents:function(){this.tiles_div.show();this.request_draw()},update_icons:function(){var ae=this.drawables.length;if(ae===0){this.action_icons.composite_icon.hide();this.action_icons.filters_icon.hide()}else{if(ae===1){if(this.drawables[0] instanceof f){this.action_icons.composite_icon.show()}this.action_icons.filters_icon.hide()}else{var al,ak,ai,ao=true,ag=this.drawables[0].get_type(),ac=0;for(al=0;al<ae;al++){ai=this.drawables[al];if(ai.get_type()!==ag){can_composite=false;break}if(ai instanceof d){ac++}}if(ao||ac===1){this.action_icons.composite_icon.show()}else{this.action_icons.composite_icon.hide();$(".tooltip").remove()}if(ac>1&&ac===this.drawables.length){var ap={},ad;ai=this.drawables[0];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];ap[ad.name]=[ad]}for(al=1;al<this.drawables.length;al++){ai=this.drawables[al];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];if(ad.name in ap){ap[ad.name].push(ad)}}}this.filters_manager.remove_all();var af,ah,aj,am;for(var an in ap){af=ap[an];if(af.length===ac){ah=new i.NumberFilter({name:af[0].name,index:af[0].index});this.filters_manager.add_filter(ah)}}if(this.filters_manager.filters.length>0){this.action_icons.filters_icon.show()}else{this.action_icons.filters_icon.hide()}}else{this.action_icons.filters_icon.hide()}}}},_restore_filter_managers:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].filters_manager=this.saved_filters_managers[ac]}this.saved_filters_managers=[]},setup_multitrack_filtering:function(){if(this.filters_manager.filters.length>0){this.saved_filters_managers=[];for(var ac=0;ac<this.drawables.length;ac++){drawable=this.drawables[ac];this.saved_filters_managers.push(drawable.filters_manager);drawable.filters_manager=this.filters_manager}}this.filters_manager.init_filters()},show_composite_track:function(){var ad=new f(this.view,this.view,{name:this.prefs.name,drawables:this.drawables});var ac=this.container.replace_drawable(this,ad,true);ad.request_draw()},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);this.update_icons()},remove_drawable:function(ac){A.prototype.remove_drawable.call(this,ac);this.update_icons()},to_dict:function(){if(this.filters_manager.visible()){this._restore_filter_managers()}var ac=q(A.prototype.to_dict.call(this),{filters:this.filters_manager.to_dict()});if(this.filters_manager.visible()){this.setup_multitrack_filtering()}return ac},request_draw:function(ac){ab.each(this.drawables,function(ad){ad.request_draw(ac)})}});var Y=Backbone.View.extend({initialize:function(ac){q(ac,{obj_type:"View"});A.call(this,"View",ac.container,ac);this.chrom=null;this.vis_id=ac.vis_id;this.dbkey=ac.dbkey;this.label_tracks=[];this.tracks_to_be_redrawn=[];this.max_low=0;this.max_high=0;this.zoom_factor=3;this.min_separation=30;this.has_changes=false;this.load_chroms_deferred=null;this.render();this.canvas_manager=new y.CanvasManager(this.container.get(0).ownerDocument);this.reset();this.config=new j({track:this,params:[{key:"a_color",label:"A Color",type:"color",default_value:"#FF0000"},{key:"c_color",label:"C Color",type:"color",default_value:"#00FF00"},{key:"g_color",label:"G Color",type:"color",default_value:"#0000FF"},{key:"t_color",label:"T Color",type:"color",default_value:"#FF00FF"},{key:"n_color",label:"N Color",type:"color",default_value:"#AAAAAA"}],saved_values:ac.prefs,onchange:function(){track.request_redraw({clear_tile_cache:true})}})},render:function(){this.requested_redraw=false;var ae=this.container,ac=this;this.top_container=$("<div/>").addClass("top-container").appendTo(ae);this.browser_content_div=$("<div/>").addClass("content").appendTo(ae);this.bottom_container=$("<div/>").addClass("bottom-container").appendTo(ae);this.top_labeltrack=$("<div/>").addClass("top-labeltrack").appendTo(this.top_container);this.viewport_container=$("<div/>").addClass("viewport-container").attr("id","viewport-container").appendTo(this.browser_content_div);this.content_div=this.viewport_container;k(this.viewport_container,ac);this.intro_div=$("<div/>").addClass("intro").appendTo(this.viewport_container).hide();var af=$("<div/>").text("Add Datasets to Visualization").addClass("action-button").appendTo(this.intro_div).click(function(){y.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":ac.dbkey},function(ag){ab.each(ag,function(ah){ac.add_drawable(p(ah,ac,ac))})})});this.nav_labeltrack=$("<div/>").addClass("nav-labeltrack").appendTo(this.bottom_container);this.nav_container=$("<div/>").addClass("trackster-nav-container").prependTo(this.top_container);this.nav=$("<div/>").addClass("trackster-nav").appendTo(this.nav_container);this.overview=$("<div/>").addClass("overview").appendTo(this.bottom_container);this.overview_viewport=$("<div/>").addClass("overview-viewport").appendTo(this.overview);this.overview_close=$("<a/>").attr("title","Close overview").addClass("icon-button overview-close tooltip").hide().appendTo(this.overview_viewport);this.overview_highlight=$("<div/>").addClass("overview-highlight").hide().appendTo(this.overview_viewport);this.overview_box_background=$("<div/>").addClass("overview-boxback").appendTo(this.overview_viewport);this.overview_box=$("<div/>").addClass("overview-box").appendTo(this.overview_viewport);this.default_overview_height=this.overview_box.height();this.nav_controls=$("<div/>").addClass("nav-controls").appendTo(this.nav);this.chrom_select=$("<select/>").attr({name:"chrom"}).addClass("chrom-nav").append("<option value=''>Loading</option>").appendTo(this.nav_controls);var ad=function(ag){if(ag.type==="focusout"||(ag.keyCode||ag.which)===13||(ag.keyCode||ag.which)===27){if((ag.keyCode||ag.which)!==27){ac.go_to($(this).val())}$(this).hide();$(this).val("");ac.location_span.show();ac.chrom_select.show()}ag.stopPropagation()};this.nav_input=$("<input/>").addClass("nav-input").hide().bind("keyup focusout",ad).appendTo(this.nav_controls);this.location_span=$("<span/>").addClass("location").attr("title","Click to change location").tooltip({placement:"bottom"}).appendTo(this.nav_controls);this.location_span.click(function(){ac.location_span.hide();ac.chrom_select.hide();ac.nav_input.val(ac.chrom+":"+ac.low+"-"+ac.high);ac.nav_input.css("display","inline-block");ac.nav_input.select();ac.nav_input.focus();ac.nav_input.autocomplete({source:function(ai,ag){var aj=[],ah=$.map(ac.get_tracks(d),function(ak){return ak.data_manager.search_features(ai.term).success(function(al){aj=aj.concat(al)})});$.when.apply($,ah).done(function(){ag($.map(aj,function(ak){return{label:ak[0],value:ak[1]}}))})}})});if(this.vis_id!==undefined){this.hidden_input=$("<input/>").attr("type","hidden").val(this.vis_id).appendTo(this.nav_controls)}this.zo_link=$("<a/>").attr("id","zoom-out").attr("title","Zoom out").tooltip({placement:"bottom"}).click(function(){ac.zoom_out()}).appendTo(this.nav_controls);this.zi_link=$("<a/>").attr("id","zoom-in").attr("title","Zoom in").tooltip({placement:"bottom"}).click(function(){ac.zoom_in()}).appendTo(this.nav_controls);this.load_chroms_deferred=this.load_chroms({low:0});this.chrom_select.bind("change",function(){ac.change_chrom(ac.chrom_select.val())});this.browser_content_div.click(function(ag){$(this).find("input").trigger("blur")});this.browser_content_div.bind("dblclick",function(ag){ac.zoom_in(ag.pageX,this.viewport_container)});this.overview_box.bind("dragstart",function(ag,ah){this.current_x=ah.offsetX}).bind("drag",function(ag,ai){var aj=ai.offsetX-this.current_x;this.current_x=ai.offsetX;var ah=Math.round(aj/ac.viewport_container.width()*(ac.max_high-ac.max_low));ac.move_delta(-ah)});this.overview_close.click(function(){ac.reset_overview()});this.viewport_container.bind("draginit",function(ag,ah){if(ag.clientX>ac.viewport_container.width()-16){return false}}).bind("dragstart",function(ag,ah){ah.original_low=ac.low;ah.current_height=ag.clientY;ah.current_x=ah.offsetX}).bind("drag",function(ai,ak){var ag=$(this);var al=ak.offsetX-ak.current_x;var ah=ag.scrollTop()-(ai.clientY-ak.current_height);ag.scrollTop(ah);ak.current_height=ai.clientY;ak.current_x=ak.offsetX;var aj=Math.round(al/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}).bind("mousewheel",function(ai,ak,ah,ag){if(ah){ah*=50;var aj=Math.round(-ah/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}});this.top_labeltrack.bind("dragstart",function(ag,ah){return $("<div/>").addClass("zoom-area").css("height",ac.browser_content_div.height()+ac.top_labeltrack.height()+ac.nav_labeltrack.height()+1).appendTo($(this))}).bind("drag",function(ak,al){$(al.proxy).css({left:Math.min(ak.pageX,al.startX)-ac.container.offset().left,width:Math.abs(ak.pageX-al.startX)});var ah=Math.min(ak.pageX,al.startX)-ac.container.offset().left,ag=Math.max(ak.pageX,al.startX)-ac.container.offset().left,aj=(ac.high-ac.low),ai=ac.viewport_container.width();ac.update_location(Math.round(ah/ai*aj)+ac.low,Math.round(ag/ai*aj)+ac.low)}).bind("dragend",function(al,am){var ah=Math.min(al.pageX,am.startX),ag=Math.max(al.pageX,am.startX),aj=(ac.high-ac.low),ai=ac.viewport_container.width(),ak=ac.low;ac.low=Math.round(ah/ai*aj)+ak;ac.high=Math.round(ag/ai*aj)+ak;$(am.proxy).remove();ac.request_redraw()});this.add_label_track(new W(this,{content_div:this.top_labeltrack}));this.add_label_track(new W(this,{content_div:this.nav_labeltrack}));$(window).bind("resize",function(){if(this.resize_timer){clearTimeout(this.resize_timer)}this.resize_timer=setTimeout(function(){ac.resize_window()},500)});$(document).bind("redraw",function(){ac.redraw()});this.reset();$(window).trigger("resize")},get_base_color:function(ac){return this.config.get("values")[ac.toLowerCase()+"_color"]||this.config.get("values").n_color}});q(Y.prototype,A.prototype,{changed:function(){this.has_changes=true},update_intro_div:function(){if(this.drawables.length===0){this.intro_div.show()}else{this.intro_div.hide()}},trigger_navigate:function(ad,af,ac,ag){if(this.timer){clearTimeout(this.timer)}if(ag){var ae=this;this.timer=setTimeout(function(){ae.trigger("navigate",ad+":"+af+"-"+ac)},500)}else{view.trigger("navigate",ad+":"+af+"-"+ac)}},update_location:function(ac,ae){this.location_span.text(commatize(ac)+" - "+commatize(ae));this.nav_input.val(this.chrom+":"+commatize(ac)+"-"+commatize(ae));var ad=view.chrom_select.val();if(ad!==""){this.trigger_navigate(ad,view.low,view.high,true)}},load_chroms:function(ae){ae.num=x;var ac=this,ad=$.Deferred();$.ajax({url:galaxy_config.root+"api/genomes/"+this.dbkey,data:ae,dataType:"json",success:function(ag){if(ag.chrom_info.length===0){return}if(ag.reference){var ah=new D(ac);ac.add_label_track(ah);ac.reference_track=ah}ac.chrom_data=ag.chrom_info;var ak='<option value="">Select Chrom/Contig</option>';for(var aj=0,af=ac.chrom_data.length;aj<af;aj++){var ai=ac.chrom_data[aj].chrom;ak+='<option value="'+ai+'">'+ai+"</option>"}if(ag.prev_chroms){ak+='<option value="previous">Previous '+x+"</option>"}if(ag.next_chroms){ak+='<option value="next">Next '+x+"</option>"}ac.chrom_select.html(ak);ac.chrom_start_index=ag.start_index;ad.resolve(ag.chrom_info)},error:function(){alert("Could not load chroms for this dbkey: "+ac.dbkey)}});return ad},change_chrom:function(ah,ad,aj){var ae=this;if(!ae.chrom_data){ae.load_chroms_deferred.then(function(){ae.change_chrom(ah,ad,aj)});return}if(!ah||ah==="None"){return}if(ah==="previous"){ae.load_chroms({low:this.chrom_start_index-x});return}if(ah==="next"){ae.load_chroms({low:this.chrom_start_index+x});return}var ai=$.grep(ae.chrom_data,function(ak,al){return ak.chrom===ah})[0];if(ai===undefined){ae.load_chroms({chrom:ah},function(){ae.change_chrom(ah,ad,aj)});return}else{if(ah!==ae.chrom){ae.chrom=ah;ae.chrom_select.val(ae.chrom);ae.max_high=ai.len-1;ae.reset();for(var ag=0,ac=ae.drawables.length;ag<ac;ag++){var af=ae.drawables[ag];if(af.init){af.init()}}if(ae.reference_track){ae.reference_track.init()}}if(ad===undefined&&aj===undefined){ae.low=0;ae.high=ae.max_high}else{ae.low=(ad!==undefined?Math.max(ad,0):0);if(aj===undefined){ae.low=Math.max(ae.low-15,0);ae.high=ae.low+30}else{ae.high=Math.min(aj,ae.max_high)}}ae.reset_overview();ae.request_redraw()}},go_to:function(ag){ag=ag.replace(/,/g,"");ag=ag.replace(/:|\-/g," ");var ad=ag.split(/\s+/),af=ad[0],ae=(ad[1]?parseInt(ad[1],10):undefined),ac=(ad[2]?parseInt(ad[2],10):undefined);this.change_chrom(af,ae,ac)},move_fraction:function(ae){var ac=this;var ad=ac.high-ac.low;this.move_delta(ae*ad)},move_delta:function(af){var ac=this;var ae=ac.high-ac.low;if(ac.low-af<ac.max_low){ac.low=ac.max_low;ac.high=ac.max_low+ae}else{if(ac.high-af>ac.max_high){ac.high=ac.max_high;ac.low=ac.max_high-ae}else{ac.high-=af;ac.low-=af}}ac.request_redraw({data_fetch:false});if(this.redraw_on_move_fn){clearTimeout(this.redraw_on_move_fn)}this.redraw_on_move_fn=setTimeout(function(){ac.request_redraw()},200);var ad=ac.chrom_select.val();this.trigger_navigate(ad,ac.low,ac.high,true)},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);ac.init();this.changed();this.update_intro_div()},add_label_track:function(ac){ac.view=this;ac.init();this.label_tracks.push(ac)},remove_drawable:function(ae,ad){A.prototype.remove_drawable.call(this,ae);if(ad){var ac=this;ae.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})}},reset:function(){this.low=this.max_low;this.high=this.max_high;this.viewport_container.find(".yaxislabel").remove()},request_redraw:function(ad,ae){var ac=this,af=(ae?[ae]:ac.drawables);ab.each(af,function(ag){var ah=ab.find(ac.tracks_to_be_redrawn,function(ai){return ai[0]===ag});if(ah){ah[1]=ad}else{ac.tracks_to_be_redrawn.push([ag,ad])}});if(!this.requested_redraw){requestAnimationFrame(function(){ac._redraw()});this.requested_redraw=true}},_redraw:function(){this.requested_redraw=false;var ac=this.low,ag=this.high;if(ac<this.max_low){ac=this.max_low}if(ag>this.max_high){ag=this.max_high}var ad=this.high-this.low;if(this.high!==0&&ad<this.min_separation){ag=ac+this.min_separation}this.low=Math.floor(ac);this.high=Math.ceil(ag);this.update_location(this.low,this.high);this.resolution_px_b=this.viewport_container.width()/(this.high-this.low);var af=(this.low/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ah=((this.high-this.low)/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ae=13;this.overview_box.css({left:af,width:Math.max(ae,ah)}).show();if(ah<ae){this.overview_box.css("left",af-(ae-ah)/2)}if(this.overview_highlight){this.overview_highlight.css({left:af,width:ah})}ab.each(this.tracks_to_be_redrawn,function(ak){var ai=ak[0],aj=ak[1];if(ai){ai._draw(aj)}});this.tracks_to_be_redrawn=[];ab.each(this.label_tracks,function(ai){ai._draw()})},zoom_in:function(ad,ae){if(this.max_high===0||this.high-this.low<=this.min_separation){return}var af=this.high-this.low,ag=af/2+this.low,ac=(af/this.zoom_factor)/2;if(ad){ag=ad/this.viewport_container.width()*(this.high-this.low)+this.low}this.low=Math.round(ag-ac);this.high=Math.round(ag+ac);this.changed();this.request_redraw()},zoom_out:function(){if(this.max_high===0){return}var ad=this.high-this.low,ae=ad/2+this.low,ac=(ad*this.zoom_factor)/2;this.low=Math.round(ae-ac);this.high=Math.round(ae+ac);this.changed();this.request_redraw()},resize_window:function(){this.viewport_container.height(this.container.height()-this.top_container.height()-this.bottom_container.height());this.request_redraw()},set_overview:function(ae){if(this.overview_drawable){if(this.overview_drawable.dataset.id===ae.dataset.id){return}this.overview_viewport.find(".track").remove()}var ad=ae.copy({content_div:this.overview_viewport}),ac=this;ad.header_div.hide();ad.is_overview=true;ac.overview_drawable=ad;this.overview_drawable.postdraw_actions=function(){ac.overview_highlight.show().height(ac.overview_drawable.content_div.height());ac.overview_viewport.height(ac.overview_drawable.content_div.height()+ac.overview_box.outerHeight());ac.overview_close.show();ac.resize_window()};ac.overview_drawable.request_draw();this.changed()},reset_overview:function(){$(".tooltip").remove();this.overview_viewport.find(".track-tile").remove();this.overview_viewport.height(this.default_overview_height);this.overview_box.height(this.default_overview_height);this.overview_close.hide();this.overview_highlight.hide();view.resize_window();view.overview_drawable=null}});var s=R.Tool.extend({defaults:{track:null},initialize:function(ac){R.Tool.prototype.initialize.call(this,ac);var ad=true;if(ac.tool_state!==undefined&&ac.tool_state.hidden!==undefined){ad=ac.tool_state.hidden}this.set("hidden",ad);this.remove_inputs(["data","hidden_data","conditional"])},state_dict:function(ac){return ab.extend(this.get_inputs_dict(),{hidden:!this.is_visible()})}});var v=Backbone.View.extend({events:{"change input":"update_value"},render:function(){var ae=this.$el.addClass("param-row"),af=this.model;var ac=$("<div>").addClass("param-label").text(af.get("label")).appendTo(ae);var ad=$("<div/>").addClass("param-input").html(af.get("html")).appendTo(ae);ad.find(":input").val(af.get("value"));$("<div style='clear: both;'/>").appendTo(ae)},update_value:function(ac){this.model.set_value($(ac.target).val())}});var aa=Backbone.View.extend({initialize:function(ac){this.model.on("change:hidden",this.set_visible,this)},render:function(){var ad=this;tool=this.model,parent_div=this.$el.addClass("dynamic-tool").hide();parent_div.bind("drag",function(ah){ah.stopPropagation()}).click(function(ah){ah.stopPropagation()}).bind("dblclick",function(ah){ah.stopPropagation()}).keydown(function(ah){ah.stopPropagation()});var ae=$("<div class='tool-name'>").appendTo(parent_div).text(tool.get("name"));tool.get("inputs").each(function(ai){var ah=new v({model:ai});ah.render();parent_div.append(ah.$el)});parent_div.find("input").click(function(){$(this).select()});var af=$("<div>").addClass("param-row").appendTo(parent_div);var ag=$("<input type='submit'>").attr("value","Run on complete dataset").appendTo(af);var ac=$("<input type='submit'>").attr("value","Run on visible region").appendTo(af);ac.click(function(){ad.run_on_region()});ag.click(function(){ad.run_on_dataset()});if(tool.is_visible()){this.$el.show()}},set_visible:function(){if(this.model.is_visible()){this.$el.show()}else{this.$el.hide()}},update_params:function(){for(var ac=0;ac<this.params.length;ac++){this.params[ac].update_value()}},run_on_dataset:function(){var ac=this.model;this.run({target_dataset_id:this.model.get("track").dataset.id,action:"rerun",tool_id:ac.id},null,function(ad){Galaxy.modal.show({title:ac.get("name")+" is Running",body:ac.get("name")+" is running on the complete dataset. Tool outputs are in dataset's history.",buttons:{Close:function(){Galaxy.modal.hide()}}})})},run_on_region:function(){var ad=this.model.get("track"),ag=this.model,ai=new y.GenomeRegion({chrom:ad.view.chrom,start:ad.view.low,end:ad.view.high}),aj={target_dataset_id:ad.dataset.id,action:"rerun",tool_id:ag.id,regions:[ai.toJSON()]},ah=ad,al=ag.get("name")+ah.tool_region_and_parameters_str(ai),ac;if(ah.container===view){var ak=new P(view,view,{name:ad.prefs.name});var af=ah.container.replace_drawable(ah,ak,false);ak.container_div.insertBefore(ah.view.content_div.children()[af]);ak.add_drawable(ah);ah.container_div.appendTo(ak.content_div);ac=ak}else{ac=ah.container}var ae=new ah.constructor(view,ac,{name:al,hda_ldda:"hda"});ae.init_for_tool_data();ae.change_mode(ah.mode);ae.set_filters_manager(ah.filters_manager.copy(ae));ae.update_icons();ac.add_drawable(ae);ae.tiles_div.text("Starting job.");this.run(aj,ae,function(am){ae.set_dataset(new X.Dataset(am));ae.tiles_div.text("Running job.");ae.init()})},run:function(ac,ae,af){ac.inputs=this.model.get_inputs_dict();var ad=new l.ServerStateDeferred({ajax_settings:{url:galaxy_config.root+"api/tools",data:JSON.stringify(ac),dataType:"json",contentType:"application/json",type:"POST"},interval:2000,success_fn:function(ag){return ag!=="pending"}});$.when(ad.go()).then(function(ag){if(ag==="no converter"){ae.container_div.addClass("error");ae.content_div.text(J)}else{if(ag.error){ae.container_div.addClass("error");ae.content_div.text(z+ag.message)}else{af(ag)}}})}});var E=function(ac,ad){L.Scaler.call(this,ad);this.filter=ac};E.prototype.gen_val=function(ac){if(this.filter.high===Number.MAX_VALUE||this.filter.low===-Number.MAX_VALUE||this.filter.low===this.filter.high){return this.default_val}return((parseFloat(ac[this.filter.index])-this.filter.low)/(this.filter.high-this.filter.low))};var j=Backbone.Model.extend({initialize:function(ad){var ac={};ab.each(ad.params,function(ae){ac[ae.key]=(ae.type==="color"&&!ae.default_value?l.get_random_color():ae.default_value)});if(ad.saved_values){ab.each(this.get("params"),function(ae){if(ae.key in ad.saved_values){ac[ae.key]=ad.saved_values[ae.key]}})}this.set("values",ac)},set_param_default_value:function(ad,ac){var ae=ab.find(this.get("params"),function(af){return af.key===ad});if(ae){ae.default_value=ac}},set_param_value:function(ac,ad){var ae=ab.find(this.get("params"),function(af){return af.key===ac});if(ae){if(typeof ad==="string"||ad instanceof String){if(ad.trim()===""){ad=ae.default_value}else{if(ae.type==="float"){ad=parseFloat(ad)}else{if(ae.type==="int"){ad=parseInt(ad,10)}}}}}if(this.get("values")[ac]!==ad){this.get("values")[ac]=ad;this.trigger("change:values");return true}else{return false}}});var a=Backbone.View.extend({render:function(){var aj=this.model;var ac=$("<div/>").keydown(function(ak){ak.stopPropagation()});var ai;function ah(ao,ak){for(var at=0;at<ao.length;at++){ai=ao[at];if(ai.hidden){continue}var am="param_"+at;var ax=aj.get("values")[ai.key];var az=$("<div class='form-row' />").appendTo(ak);az.append($("<label />").attr("for",am).text(ai.label+":"));if(ai.type==="bool"){az.append($('<input type="checkbox" />').attr("id",am).attr("name",am).attr("checked",ax))}else{if(ai.type==="text"){az.append($('<input type="text"/>').attr("id",am).val(ax).click(function(){$(this).select()}))}else{if(ai.type==="select"){var av=$("<select />").attr("id",am);for(var aq=0;aq<ai.options.length;aq++){$("<option/>").text(ai.options[aq].label).attr("value",ai.options[aq].value).appendTo(av)}av.val(ax);az.append(av)}else{if(ai.type==="color"){var ay=$("<div/>").appendTo(az),au=$("<input/>").attr({id:am,name:am}).val(ax).addClass("color-input").appendTo(ay).click(function(aB){$(".tooltip").removeClass("in");var aA=$(this).siblings(".tooltip").addClass("in");aA.css({left:$(this).position().left+$(this).width()+5,top:$(this).position().top+Galaxy.modal.scrollTop()-($(aA).height()/2)+($(this).height()/2)}).show();aA.click(function(aC){aC.stopPropagation()});$(document).bind("click.color-picker",function(){aA.hide();$(document).unbind("click.color-picker")});aB.stopPropagation()}),ar=$("<a href='javascript:void(0)'/>").addClass("icon-button arrow-circle").appendTo(ay).attr("title","Set new random color").tooltip(),aw=$("<div class='tooltip right' style='position: absolute;' />").appendTo(ay).hide(),an=$("<div class='tooltip-inner' style='text-align: inherit'></div>").appendTo(aw),al=$("<div class='tooltip-arrow'></div>").appendTo(aw),ap=$.farbtastic(an,{width:100,height:100,callback:au,color:ax});ay.append($("<div/>").css("clear","both"));(function(aA){ar.click(function(){aA.setColor(l.get_random_color())})})(ap)}else{az.append($("<input />").attr("id",am).attr("name",am).val(ax))}}}}if(ai.help){az.append($("<div class='help'/>").text(ai.help))}}}ah(aj.get("params"),ac);var ad=this,ag=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ae=function(){ad.update_from_form($(Galaxy.modal.el));Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},af=function(ak){if((ak.keyCode||ak.which)===27){ag()}else{if((ak.keyCode||ak.which)===13){ae()}}};$(window).bind("keypress.check_enter_esc",af);Galaxy.modal.show({title:"Configure",body:ac,buttons:{Cancel:ag,Ok:ae}})},update_from_form:function(ac){var ad=this.model;var ae=false;ab.each(ad.get("params"),function(ah,af){if(!ah.hidden){var ai="param_"+af;var ag=ac.find("#"+ai).val();if(ah.type==="bool"){ag=ac.find("#"+ai).is(":checked")}ae=ad.set_param_value(ah.key,ag)||ae}})}});var c=function(ac,af,ag,ad,ae){this.track=ac;this.region=af;this.low=af.get("start");this.high=af.get("end");this.w_scale=ag;this.canvas=ad;this.html_elt=$("<div class='track-tile'/>").append(ad);this.data=ae;this.stale=false};c.prototype.predisplay_actions=function(){};var M=function(ac,af,ag,ad,ae){c.call(this,ac,af,ag,ad,ae)};M.prototype.predisplay_actions=function(){};var O=function(af,am,ao,ae,ah,ai,ap,ad,al){c.call(this,af,am,ao,ae,ah);this.mode=ai;this.all_slotted=ad;this.feature_mapper=al;this.has_icons=false;if(ap){this.has_icons=true;var aj=this;ae=this.html_elt.children()[0],message_div=$("<div/>").addClass("tile-message").css({height:F,width:ae.width}).prependTo(this.html_elt);var ak=new y.GenomeRegion({chrom:af.view.chrom,start:this.low,end:this.high}),an=ah.length,ag=$("<a/>").addClass("icon more-down").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data including depth").tooltip().appendTo(message_div),ac=$("<a/>").addClass("icon more-across").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data excluding depth").tooltip().appendTo(message_div);ag.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.DEEP_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()});ac.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.BROAD_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()})}};q(O.prototype,c.prototype);O.prototype.predisplay_actions=function(){var ad=this,ac={};if(ad.mode!=="Pack"){return}$(this.html_elt).hover(function(){this.hovered=true;$(this).mousemove()},function(){this.hovered=false;$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()}).mousemove(function(ao){if(!this.hovered){return}var aj=$(this).offset(),an=ao.pageX-aj.left,am=ao.pageY-aj.top,at=ad.feature_mapper.get_feature_data(an,am),ak=(at?at[0]:null);$(this).parents(".track-content").children(".overlay").children(".feature-popup").each(function(){if(!ak||$(this).attr("id")!==ak.toString()){$(this).remove()}});if(at){var af=ac[ak];if(!af){var ap={name:at[3],start:at[1],end:at[2],strand:at[4]},ai=ad.track.filters_manager.filters,ah;for(var al=0;al<ai.length;al++){ah=ai[al];ap[ah.name]=at[ah.index]}af=$("<div/>").attr("id",ak).addClass("feature-popup");var au=$("<table/>"),ar,aq,av;for(ar in ap){aq=ap[ar];av=$("<tr/>").appendTo(au);$("<th/>").appendTo(av).text(ar);$("<td/>").attr("align","left").appendTo(av).text(typeof(aq)==="number"?V(aq,2):aq)}af.append($("<div class='feature-popup-inner'>").append(au));ac[ak]=af}af.appendTo($(this).parents(".track-content").children(".overlay"));var ag=an+parseInt(ad.html_elt.css("left"),10)-af.width()/2,ae=am+parseInt(ad.html_elt.css("top"),10)+7;af.css("left",ag+"px").css("top",ae+"px")}else{if(!ao.isPropagationStopped()){ao.stopPropagation();$(this).siblings().each(function(){$(this).trigger(ao)})}}}).mouseleave(function(){$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()})};var g=function(ad,ac,ae){q(ae,{drag_handle_class:"draghandle"});r.call(this,ad,ac,ae);this.dataset=null;if(ae.dataset){this.dataset=(ae.dataset instanceof Backbone.Model?ae.dataset:new X.Dataset(ae.dataset))}this.dataset_check_type="converted_datasets_state";this.data_url_extra_params={};this.data_query_wait=("data_query_wait" in ae?ae.data_query_wait:K);this.data_manager=("data_manager" in ae?ae.data_manager:new y.GenomeDataManager({dataset:this.dataset,genome:new y.Genome({key:ad.dbkey,chroms_info:{chrom_info:ad.chrom_data}}),data_mode_compatible:this.data_and_mode_compatible,can_subset:this.can_subset}));this.min_height_px=16;this.max_height_px=800;this.visible_height_px=this.prefs.height;this.content_div=$("<div class='track-content'>").appendTo(this.container_div);if(this.container){this.container.content_div.append(this.container_div);if(!("resize" in ae)||ae.resize){this.add_resize_handle()}}};q(g.prototype,r.prototype,{action_icons_def:[{name:"mode_icon",title:"Set display mode",css_class:"chevron-expand",on_click_fn:function(){}},r.prototype.action_icons_def[0],{name:"overview_icon",title:"Set as overview",css_class:"application-dock-270",on_click_fn:function(ac){ac.view.set_overview(ac)}},r.prototype.action_icons_def[1],{name:"filters_icon",title:"Filters",css_class:"ui-slider-050",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters()}else{ac.filters_manager.init_filters()}ac.filters_manager.toggle()}},{name:"tools_icon",title:"Tool",css_class:"hammer",on_click_fn:function(ac){ac.tool.toggle();if(ac.tool.is_visible()){ac.set_name(ac.prefs.name+ac.tool_region_and_parameters_str())}else{ac.revert_name()}$(".tooltip").remove()}},{name:"param_space_viz_icon",title:"Tool parameter space visualization",css_class:"arrow-split",on_click_fn:function(ac){var af='<strong>Tool</strong>: <%= track.tool.get("name") %><br/><strong>Dataset</strong>: <%= track.prefs.name %><br/><strong>Region(s)</strong>: <select name="regions"><option value="cur">current viewing area</option><option value="bookmarks">bookmarks</option><option value="both">current viewing area and bookmarks</option></select>',ae=ab.template(af,{track:ac});var ah=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ad=function(){var aj=$('select[name="regions"] option:selected').val(),al,ai=new y.GenomeRegion({chrom:view.chrom,start:view.low,end:view.high}),ak=ab.map($(".bookmark"),function(am){return new y.GenomeRegion({from_str:$(am).children(".position").text()})});if(aj==="cur"){al=[ai]}else{if(aj==="bookmarks"){al=ak}else{al=[ai].concat(ak)}}Galaxy.modal.hide();window.location.href=galaxy_config.root+"visualization/sweepster?"+$.param({dataset_id:ac.dataset.id,hda_ldda:ac.dataset.get("hda_ldda"),regions:JSON.stringify(new Backbone.Collection(al).toJSON())})},ag=function(ai){if((ai.keyCode||ai.which)===27){ah()}else{if((ai.keyCode||ai.which)===13){ad()}}};Galaxy.modal.show({title:"Visualize tool parameter space and output from different parameter settings?",body:ae,buttons:{No:ah,Yes:ad}})}},r.prototype.action_icons_def[2]],can_draw:function(){return this.dataset&&r.prototype.can_draw.call(this)},build_container_div:function(){return $("<div/>").addClass("track").attr("id","track_"+this.id)},build_header_div:function(){var ac=$("<div class='track-header'/>");if(this.view.editor){this.drag_div=$("<div/>").addClass(this.drag_handle_class).appendTo(ac)}this.name_div=$("<div/>").addClass("track-name").appendTo(ac).text(this.prefs.name).attr("id",this.prefs.name.replace(/\s+/g,"-").replace(/[^a-zA-Z0-9\-]/g,"").toLowerCase());return ac},set_dataset:function(ac){this.dataset=ac;this.data_manager.set("dataset",ac)},on_resize:function(){this.request_draw({clear_tile_cache:true})},add_resize_handle:function(){var ac=this;var af=false;var ae=false;var ad=$("<div class='track-resize'>");$(ac.container_div).hover(function(){if(ac.prefs.content_visible){af=true;ad.show()}},function(){af=false;if(!ae){ad.hide()}});ad.hide().bind("dragstart",function(ag,ah){ae=true;ah.original_height=$(ac.content_div).height()}).bind("drag",function(ah,ai){var ag=Math.min(Math.max(ai.original_height+ai.deltaY,ac.min_height_px),ac.max_height_px);$(ac.tiles_div).css("height",ag);ac.visible_height_px=(ac.max_height_px===ag?0:ag);ac.on_resize()}).bind("dragend",function(ag,ah){ac.tile_cache.clear();ae=false;if(!af){ad.hide()}ac.config.get("values").height=ac.visible_height_px;ac.changed()}).appendTo(ac.container_div)},set_display_modes:function(af,ai){this.display_modes=af;this.mode=(ai?ai:(this.config&&this.config.get("values").mode?this.config.get("values").mode:this.display_modes[0]));this.action_icons.mode_icon.attr("title","Set display mode (now: "+this.mode+")");var ad=this,ag={};for(var ae=0,ac=ad.display_modes.length;ae<ac;ae++){var ah=ad.display_modes[ae];ag[ah]=function(aj){return function(){ad.change_mode(aj);ad.icons_div.show();ad.container_div.mouseleave(function(){ad.icons_div.hide()})}}(ah)}make_popupmenu(this.action_icons.mode_icon,ag)},build_action_icons:function(){r.prototype.build_action_icons.call(this,this.action_icons_def);if(this.display_modes!==undefined){this.set_display_modes(this.display_modes)}},hide_contents:function(){this.tiles_div.hide();this.container_div.find(".yaxislabel, .track-resize").hide()},show_contents:function(){this.tiles_div.show();this.container_div.find(".yaxislabel, .track-resize").show();this.request_draw()},get_type:function(){if(this instanceof W){return"LabelTrack"}else{if(this instanceof D){return"ReferenceTrack"}else{if(this instanceof h){return"LineTrack"}else{if(this instanceof T){return"ReadTrack"}else{if(this instanceof Z){return"VariantTrack"}else{if(this instanceof f){return"CompositeTrack"}else{if(this instanceof d){return"FeatureTrack"}}}}}}}return""},show_message:function(ac){this.tiles_div.remove();return $("<span/>").addClass("message").html(ac).appendTo(this.content_div)},init:function(ae){var ad=this;ad.enabled=false;ad.tile_cache.clear();ad.data_manager.clear();ad.content_div.children().remove();ad.container_div.removeClass("nodata error pending");ad.tiles_div=$("<div/>").addClass("tiles").appendTo(ad.content_div);if(!ad.dataset.id){return}var ac=$.Deferred(),af={hda_ldda:ad.dataset.get("hda_ldda"),data_type:this.dataset_check_type,chrom:ad.view.chrom,retry:ae};$.getJSON(this.dataset.url(),af,function(ag){if(!ag||ag==="error"||ag.kind==="error"){ad.container_div.addClass("error");var ah=ad.show_message(o);if(ag.message){ah.append($("<a href='javascript:void(0);'></a>").text("View error").click(function(){Galaxy.modal.show({title:"Trackster Error",body:"<pre>"+ag.message+"</pre>",buttons:{Close:function(){Galaxy.modal.hide()}}})}));ah.append($("<span/>").text(" "));ah.append($("<a href='javascript:void(0);'></a>").text("Try again").click(function(){ad.init(true)}))}}else{if(ag==="no converter"){ad.container_div.addClass("error");ad.show_message(J)}else{if(ag==="no data"||(ag.data!==undefined&&(ag.data===null||ag.data.length===0))){ad.container_div.addClass("nodata");ad.show_message(G)}else{if(ag==="pending"){ad.container_div.addClass("pending");ad.show_message(w);setTimeout(function(){ad.init()},ad.data_query_wait)}else{if(ag==="data"||ag.status==="data"){if(ag.valid_chroms){ad.valid_chroms=ag.valid_chroms;ad.update_icons()}ad.tiles_div.text(U);if(ad.view.chrom){ad.tiles_div.text("");ad.tiles_div.css("height",ad.visible_height_px+"px");ad.enabled=true;$.when.apply($,ad.predraw_init()).done(function(){ac.resolve();ad.container_div.removeClass("nodata error pending");ad.request_draw()})}else{ac.resolve()}}}}}}});this.update_icons();return ac},predraw_init:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(af&&af.min&&af.max){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.config.set_param_default_value("min_value",ae);ac.config.set_param_default_value("max_value",ag);ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},get_drawables:function(){return this}});var N=function(ae,ad,ag){g.call(this,ae,ad,ag);var ac=this;m(ac.container_div,ac.drag_handle_class,".group",ac);this.filters_manager=new i.FiltersManager(this,("filters" in ag?ag.filters:null));this.data_manager.set("filters_manager",this.filters_manager);this.filters_available=false;this.tool=(ag.tool?new s(ab.extend(ag.tool,{track:this,tool_state:ag.tool_state})):null);this.tile_cache=new y.Cache(Q);this.left_offset=0;if(this.header_div){this.set_filters_manager(this.filters_manager);if(this.tool){var af=new aa({model:this.tool});af.render();this.dynamic_tool_div=af.$el;this.header_div.after(this.dynamic_tool_div)}}this.tiles_div=$("<div/>").addClass("tiles").appendTo(this.content_div);if(!this.prefs.content_visible){this.tiles_div.hide()}this.overlay_div=$("<div/>").addClass("overlay").appendTo(this.content_div);if(ag.mode){this.change_mode(ag.mode)}};q(N.prototype,r.prototype,g.prototype,{action_icons_def:g.prototype.action_icons_def.concat([{name:"show_more_rows_icon",title:"To minimize track height, not all feature rows are displayed. Click to display more rows.",css_class:"exclamation",on_click_fn:function(ac){$(".tooltip").remove();ac.slotters[ac.view.resolution_px_b].max_rows*=2;ac.request_draw({clear_tile_cache:true})},hide:true}]),copy:function(ac){var ad=this.to_dict();q(ad,{data_manager:this.data_manager});var ae=new this.constructor(this.view,ac,ad);ae.change_mode(this.mode);ae.enabled=this.enabled;return ae},set_filters_manager:function(ac){this.filters_manager=ac;this.header_div.after(this.filters_manager.parent_div)},to_dict:function(){return{track_type:this.get_type(),dataset:{id:this.dataset.id,hda_ldda:this.dataset.get("hda_ldda")},prefs:this.prefs,mode:this.mode,filters:this.filters_manager.to_dict(),tool_state:(this.tool?this.tool.state_dict():{})}},set_min_max:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(isNaN(parseFloat(ac.prefs.min_value))||isNaN(parseFloat(ac.prefs.max_value))){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},change_mode:function(ad){var ac=this;ac.mode=ad;ac.config.get("values").mode=ad;if(ad==="Auto"){this.data_manager.clear()}ac.request_draw({clear_tile_cache:true});this.action_icons.mode_icon.attr("title","Set display mode (now: "+ac.mode+")");return ac},update_icons:function(){var ac=this;if(ac.filters_available){ac.action_icons.filters_icon.show()}else{ac.action_icons.filters_icon.hide()}if(ac.tool){ac.action_icons.tools_icon.show();ac.action_icons.param_space_viz_icon.show()}else{ac.action_icons.tools_icon.hide();ac.action_icons.param_space_viz_icon.hide()}},_gen_tile_cache_key:function(ad,ac){return ad+"_"+ac},request_draw:function(ac){if(ac&&ac.clear_tile_cache){this.tile_cache.clear()}this.view.request_redraw(ac,this)},before_draw:function(){this.max_height_px=0},_draw:function(aq){if(!this.can_draw()){return}var an=aq&&aq.clear_after,al=this.view.low,ag=this.view.high,aj=ag-al,ad=this.view.container.width(),ap=this.view.resolution_px_b,af=1/ap;if(this.is_overview){al=this.view.max_low;ag=this.view.max_high;ap=ad/(view.max_high-view.max_low);af=1/ap}this.before_draw();this.tiles_div.children().addClass("remove");var ac=Math.floor(al/(af*S)),ak,am,ah,ai=[],ao=[];while((ac*S*af)<ag){ak=Math.floor(ac*S*af);am=new y.GenomeRegion({chrom:this.view.chrom,start:ak,end:Math.min(ak+Math.ceil(S*af),this.view.max_high)});ah=this.draw_helper(am,ap,aq);ai.push(ah);$.when(ah).then(function(ar){ao.push(ar)});ac+=1}if(!an){this.tiles_div.children(".remove").removeClass("remove").remove()}var ae=this;$.when.apply($,ai).then(function(){ae.tiles_div.children(".remove").remove();ao=ab.filter(ao,function(ar){return ar!==null});if(ao.length!==0){ae.postdraw_actions(ao,ad,ap,an)}})},_add_yaxis_label:function(af,ah){var ad=this,ag=(af==="max"?"top":"bottom"),ai=(af==="max"?"max":"min"),ac=(af==="max"?"max_value":"min_value"),ae=this.container_div.find(".yaxislabel."+ag);ah=ah||function(){ad.request_draw({clear_tile_cache:true})};if(ae.length!==0){ae.text(ad.prefs[ac])}else{ae=$("<div/>").text(ad.prefs[ac]).make_text_editable({num_cols:12,on_finish:function(aj){$(".tooltip").remove();ad.config.set_param_value(ac,aj);ah()},help_text:"Set "+ai+" value"}).addClass("yaxislabel "+ag).css("color",this.prefs.label_color);this.container_div.prepend(ae)}},postdraw_actions:function(af,ag,ai,ac){var ae=ab.filter(af,function(aj){return(aj instanceof M)});if(ae.length>0){this.max_height_px=0;var ad=this;ab.each(af,function(aj){if(!(aj instanceof M)){aj.html_elt.remove();ad.draw_helper(aj.region,ai,{force:true,mode:"Coverage"})}});ad._add_yaxis_label("max")}else{this.container_div.find(".yaxislabel").remove();var ah=ab.find(af,function(aj){return aj.has_icons});if(ah){ab.each(af,function(aj){if(!aj.has_icons){aj.html_elt.css("padding-top",F)}})}}},get_mode:function(ac){return this.mode},update_auto_mode:function(ac){},_get_drawables:function(){return[this]},draw_helper:function(al,an,ao){if(!ao){ao={}}var ad=ao.force,ai=ao.mode||this.mode,af=1/an,ae=this,ag=this._get_drawables(),am=this._gen_tile_cache_key(an,al),ah=function(ap){return(ap&&"track" in ap)};var aj=(ad?undefined:ae.tile_cache.get_elt(am));if(aj){if(ah(aj)){ae.show_tile(aj,an)}return aj}if(ao.data_fetch===false){return null}var ak=function(){var ap=(ab.find(C,function(ar){return ar===ai})?"Coverage":ai);var aq=ab.map(ag,function(ar){return ar.data_manager.get_data(al,ap,af,ae.data_url_extra_params)});if(view.reference_track){aq.push(view.reference_track.data_manager.get_data(al,ai,af,view.reference_track.data_url_extra_params))}return aq};var ac=$.Deferred();ae.tile_cache.set_elt(am,ac);$.when.apply($,ak()).then(function(){var ap=ak(),av=ap,aB;if(view.reference_track){aB=view.reference_track.data_manager.subset_entry(ap.pop(),al)}var aw=[],at=[];ab.each(ag,function(aG,aD){var aF=aG.mode,aE=av[aD];if(aF==="Auto"){aF=aG.get_mode(aE);aG.update_auto_mode(aF)}aw.push(aF);at.push(aG.get_canvas_height(aE,aF,an,aq))});var au=ae.view.canvas_manager.new_canvas(),ax=al.get("start"),aC=al.get("end"),ar=0,aq=Math.ceil((aC-ax)*an)+ae.left_offset,az=ab.max(at),ay;au.width=aq;au.height=(ao.height||az);var aA=au.getContext("2d");aA.translate(ae.left_offset,0);if(ag.length>1){aA.globalAlpha=0.5;aA.globalCompositeOperation="source-over"}ab.each(ag,function(aE,aD){ay=aE.draw_tile(av[aD],aA,aw[aD],al,an,aB)});if(ay!==undefined){ae.tile_cache.set_elt(am,ay);ae.show_tile(ay,an)}ac.resolve(ay)});return ac},get_canvas_height:function(ac,ae,af,ad){return this.visible_height_px},_draw_line_track_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.LinePainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new M(this,ag,ai,af,ac.data)},draw_tile:function(ac,ad,ag,af,ah,ae){},show_tile:function(ae,ah){var ad=this,ac=ae.html_elt;ae.predisplay_actions();var ag=(ae.low-(this.is_overview?this.view.max_low:this.view.low))*ah;if(this.left_offset){ag-=this.left_offset}ac.css("left",ag);if(ac.hasClass("remove")){ac.removeClass("remove")}else{this.tiles_div.append(ac)}ac.css("height","auto");this.max_height_px=Math.max(this.max_height_px,ac.height()-2);ac.parent().children().css("height",this.max_height_px+"px");var af=this.max_height_px;if(this.visible_height_px!==0){af=Math.min(this.max_height_px,this.visible_height_px)}this.tiles_div.css("height",af+"px")},tool_region_and_parameters_str:function(af){var ac=this,ae=(af!==undefined?af.toString():"all"),ad=ab.values(ac.tool.get_inputs_dict()).join(", ");return" - region=["+ae+"], parameters=["+ad+"]"},data_and_mode_compatible:function(ac,ad){if(ad==="Auto"){return true}else{if(ad==="Coverage"){return ac.dataset_type==="bigwig"}else{if(ac.dataset_type==="bigwig"||ac.extra_info==="no_detail"){return false}else{return true}}}},can_subset:function(ac){if(ac.message||ac.extra_info==="no_detail"){return false}else{if(ac.dataset_type==="bigwig"){return(ac.data[1][0]-ac.data[0][0]===1)}}return true},init_for_tool_data:function(){this.data_manager.set("data_type","raw_data");this.data_query_wait=1000;this.dataset_check_type="state"}});var W=function(ad,ac){var ae={resize:false};g.call(this,ad,ac,ae);this.container_div.addClass("label-track")};q(W.prototype,g.prototype,{build_header_div:function(){},init:function(){this.enabled=true},predraw_init:function(){},_draw:function(ag){var ae=this.view,af=ae.high-ae.low,aj=Math.floor(Math.pow(10,Math.floor(Math.log(af)/Math.log(10)))),ac=Math.floor(ae.low/aj)*aj,ah=this.view.container.width(),ad=$("<div/>").addClass("label-container");while(ac<ae.high){var ai=(ac-ae.low)/af*ah;ad.append($("<div/>").addClass("label").text(commatize(ac)).css({left:ai}));ac+=aj}this.content_div.children(":first").remove();this.content_div.append(ad)}});var f=function(ad,ac,ag){N.call(this,ad,ac,ag);this.drawables=[];if("drawables" in ag){var af;for(var ae=0;ae<ag.drawables.length;ae++){af=ag.drawables[ae];this.drawables[ae]=p(af,ad,null);if(af.left_offset>this.left_offset){this.left_offset=af.left_offset}}this.enabled=true}ab.each(this.drawables,function(ah){if(ah instanceof d||ah instanceof T){ah.change_mode("Coverage")}});this.update_icons();this.obj_type="CompositeTrack"};q(f.prototype,N.prototype,{display_modes:C,action_icons_def:[{name:"composite_icon",title:"Show individual tracks",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_group()}}].concat(N.prototype.action_icons_def),to_dict:A.prototype.to_dict,add_drawable:A.prototype.add_drawable,unpack_drawables:A.prototype.unpack_drawables,change_mode:function(ac){N.prototype.change_mode.call(this,ac);for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad].change_mode(ac)}},init:function(){var ae=[];for(var ad=0;ad<this.drawables.length;ad++){ae.push(this.drawables[ad].init())}var ac=this;$.when.apply($,ae).then(function(){ac.enabled=true;ac.request_draw()})},update_icons:function(){this.action_icons.filters_icon.hide();this.action_icons.tools_icon.hide();this.action_icons.param_space_viz_icon.hide()},can_draw:r.prototype.can_draw,_get_drawables:function(){return this.drawables},show_group:function(){var af=new P(this.view,this.container,{name:this.prefs.name}),ac;for(var ae=0;ae<this.drawables.length;ae++){ac=this.drawables[ae];ac.update_icons();af.add_drawable(ac);ac.container=af;af.content_div.append(ac.container_div)}var ad=this.container.replace_drawable(this,af,true);af.request_draw({clear_tile_cache:true})},before_draw:function(){N.prototype.before_draw.call(this);var ad=ab.min(ab.map(this.drawables,function(ae){return ae.prefs.min_value})),ac=ab.max(ab.map(this.drawables,function(ae){return ae.prefs.max_value}));this.prefs.min_value=ad;this.prefs.max_value=ac;ab.each(this.drawables,function(ae){ae.prefs.min_value=ad;ae.prefs.max_value=ac})},update_all_min_max:function(){var ac=this;ab.each(this.drawables,function(ad){ad.prefs.min_value=ac.prefs.min_value;ad.prefs.max_value=ac.prefs.max_value});this.request_draw({clear_tile_cache:true})},postdraw_actions:function(ai,ac,al,ah){N.prototype.postdraw_actions.call(this,ai,ac,al,ah);var ag=-1,ae;for(ae=0;ae<ai.length;ae++){var aj=ai[ae].html_elt.find("canvas").height();if(aj>ag){ag=aj}}for(ae=0;ae<ai.length;ae++){var af=ai[ae];if(af.html_elt.find("canvas").height()!==ag){this.draw_helper(af.region,al,{force:true,height:ag});af.html_elt.remove()}}var ad=this,ak=function(){ad.update_all_min_max()};this._add_yaxis_label("min",ak);this._add_yaxis_label("max",ak)}});var D=function(ac){N.call(this,ac,{content_div:ac.top_labeltrack},{resize:false});this.left_offset=ac.canvas_manager.char_width_px;this.container_div.addClass("reference-track");this.data_url=galaxy_config.root+"api/genomes/"+this.view.dbkey;this.data_url_extra_params={reference:true};this.data_manager=new y.GenomeReferenceDataManager({data_url:this.data_url,can_subset:this.can_subset});this.hide_contents()};q(D.prototype,r.prototype,N.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"height",type:"int",default_value:13,hidden:true}]),build_header_div:function(){},init:function(){this.data_manager.clear();this.enabled=true},predraw_init:function(){},can_draw:r.prototype.can_draw,draw_helper:function(ad,ae,ac){if(ae>this.view.canvas_manager.char_width_px){this.tiles_div.show();return N.prototype.draw_helper.call(this,ad,ae,ac)}else{this.tiles_div.hide();return null}},can_subset:function(ac){return true},draw_tile:function(ae,ak,af,ah,al){var ad=this.data_manager.subset_entry(ae,ah),aj=ad.data;var ac=ak.canvas;ak.font=ak.canvas.manager.default_font;ak.textAlign="center";for(var ag=0,ai=aj.length;ag<ai;ag++){ak.fillStyle=this.view.get_base_color(aj[ag]);ak.fillText(aj[ag],Math.floor(ag*al),10)}return new c(this,ah,al,ac,ad)}});var h=function(ad,ac,ae){this.mode="Histogram";N.call(this,ad,ac,ae)};q(h.prototype,r.prototype,N.prototype,{display_modes:C,config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Color",type:"color"},{key:"min_value",label:"Min Value",type:"float",default_value:undefined},{key:"max_value",label:"Max Value",type:"float",default_value:undefined},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:30,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},before_draw:function(){},draw_tile:function(ac,ad,af,ae,ag){return this._draw_line_track_tile(ac,ad,af,ae,ag)},can_subset:function(ac){return(ac.data[1][0]-ac.data[0][0]===1)},postdraw_actions:function(ad,ae,af,ac){this._add_yaxis_label("max");this._add_yaxis_label("min")}});var t=function(ad,ac,ae){this.mode="Heatmap";N.call(this,ad,ac,ae)};q(t.prototype,r.prototype,N.prototype,{display_modes:["Heatmap"],config_params:ab.union(r.prototype.config_params,[{key:"pos_color",label:"Positive Color",type:"color",default_value:"#FF8C00"},{key:"neg_color",label:"Negative Color",type:"color",default_value:"#4169E1"},{key:"min_value",label:"Min Value",type:"float",default_value:-1},{key:"max_value",label:"Max Value",type:"float",default_value:1},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:500,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.DiagonalHeatmapPainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new c(this,ag,ai,af,ac.data)}});var d=function(ad,ac,ae){N.call(this,ad,ac,ae);this.container_div.addClass("feature-track");this.summary_draw_height=30;this.slotters={};this.start_end_dct={};this.left_offset=200;this.set_painter_from_config()};q(d.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true,help:"Show the number of items in each bin when drawing summary histogram"},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"connector_style",label:"Connector style",type:"select",default_value:"fishbones",options:[{label:"Line with arrows",value:"fishbone"},{label:"Arcs",value:"arcs"}]},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.set_painter_from_config();this.request_draw({clear_tile_cache:true})},set_painter_from_config:function(){if(this.config.get("values").connector_style==="arcs"){this.painter=L.ArcLinkedFeaturePainter}else{this.painter=L.LinkedFeaturePainter}},postdraw_actions:function(am,ae,an,al){N.prototype.postdraw_actions.call(this,am,ae,an,al);var ag=this,ah;if(ag.filters_manager){var af=ag.filters_manager.filters,aj;for(aj=0;aj<af.length;aj++){af[aj].update_ui_elt()}var ai=false,ak,ad;for(ah=0;ah<am.length;ah++){if(am[ah].data.length){ak=am[ah].data[0];for(aj=0;aj<af.length;aj++){ad=af[aj];if(ad.applies_to(ak)&&ad.min!==ad.max){ai=true;break}}}}if(ag.filters_available!==ai){ag.filters_available=ai;if(!ag.filters_available){ag.filters_manager.hide()}ag.update_icons()}}if(am[0] instanceof O){var ac=true;for(ah=0;ah<am.length;ah++){if(!am[ah].all_slotted){ac=false;break}}if(!ac){this.action_icons.show_more_rows_icon.show()}else{this.action_icons.show_more_rows_icon.hide()}}else{this.action_icons.show_more_rows_icon.hide()}},update_auto_mode:function(ac){if(this.mode==="Auto"){if(ac==="no_detail"){ac="feature spans"}this.action_icons.mode_icon.attr("title","Set display mode (now: Auto/"+ac+")")}},incremental_slots:function(ag,ac,af){var ad=this.view.canvas_manager.dummy_context,ae=this.slotters[ag];if(!ae||(ae.mode!==af)){ae=new (u.FeatureSlotter)(ag,af,B,function(ah){return ad.measureText(ah)});this.slotters[ag]=ae}return ae.slot_features(ac)},get_mode:function(ac){if(ac.extra_info==="no_detail"||this.is_overview){mode="no_detail"}else{if(this.view.high-this.view.low>I){mode="Squish"}else{mode="Pack"}}return mode},get_canvas_height:function(ac,ag,ah,ad){if(ag==="Coverage"||ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var af=this.incremental_slots(ah,ac.data,ag);var ae=new (this.painter)(null,null,null,this.prefs,ag);return Math.max(this.min_height_px,ae.get_required_height(af,ad))}},draw_tile:function(am,aq,ao,af,aj,ae){var ap=this,ad=aq.canvas,ax=af.get("start"),ac=af.get("end"),ag=this.left_offset;if(am.dataset_type==="bigwig"){return this._draw_line_track_tile(am,aq,ao,af,aj)}var ai=[],an=this.slotters[aj].slots;all_slotted=true;if(am.data){var ak=this.filters_manager.filters;for(var ar=0,au=am.data.length;ar<au;ar++){var ah=am.data[ar];var at=false;var al;for(var aw=0,aB=ak.length;aw<aB;aw++){al=ak[aw];al.update_attrs(ah);if(!al.keep(ah)){at=true;break}}if(!at){ai.push(ah);if(!(ah[0] in an)){all_slotted=false}}}}var aA=(this.filters_manager.alpha_filter?new E(this.filters_manager.alpha_filter):null),ay=(this.filters_manager.height_filter?new E(this.filters_manager.height_filter):null),az=new (this.painter)(ai,ax,ac,this.prefs,ao,aA,ay,ae,function(aC){return ap.view.get_base_color(aC)});var av=null;aq.fillStyle=this.prefs.block_color;aq.font=aq.canvas.manager.default_font;aq.textAlign="right";if(am.data){av=az.draw(aq,ad.width,ad.height,aj,an);av.translation=-ag}return new O(ap,af,aj,ad,am.data,ao,am.message,all_slotted,av)}});var Z=function(ad,ac,ae){N.call(this,ad,ac,ae);this.painter=L.VariantPainter;this.summary_draw_height=30;this.left_offset=30};q(Z.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Histogram color",type:"color"},{key:"show_sample_data",label:"Show sample data",type:"bool",default_value:true},{key:"show_labels",label:"Show summary and sample labels",type:"bool",default_value:true},{key:"summary_height",label:"Locus summary height",type:"float",default_value:20},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,af,ah,ag,ai){if(ac.dataset_type==="bigwig"){return this._draw_line_track_tile(ac,af,"Histogram",ag,ai)}else{var ae=this.view,ad=new (this.painter)(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah,function(aj){return ae.get_base_color(aj)});ad.draw(af,af.canvas.width,af.canvas.height,ai);return new c(this,ag,ai,af.canvas,ac.data)}},get_canvas_height:function(ac,ag,ah,ae){if(ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var ad=(this.dataset.get_metadata("sample_names")?this.dataset.get_metadata("sample_names").length:0);if(ad===0&&ac.data.length!==0){ad=ac.data[0][7].match(/,/g);if(ad===null){ad=1}else{ad=ad.length+1}}var af=new (this.painter)(null,null,null,this.prefs,ag);return af.get_required_height(ad)}},predraw_init:function(){var ac=[g.prototype.predraw_init.call(this)];if(!this.dataset.get_metadata("sample_names")){ac.push(this.dataset.fetch())}return ac},postdraw_actions:function(ag,ah,aj,ad){N.prototype.postdraw_actions.call(this,ag,ah,aj,ad);var af=ab.filter(ag,function(ak){return(ak instanceof M)});var ae=this.dataset.get_metadata("sample_names");if(af.length===0&&this.prefs.show_labels&&ae&&ae.length>1){var ac;if(this.container_div.find(".yaxislabel.variant").length===0){ac=this.prefs.summary_height/2;this.tiles_div.prepend($("<div/>").text("Summary").addClass("yaxislabel variant top").css({"font-size":ac+"px",top:(this.prefs.summary_height-ac)/2+"px"}));if(this.prefs.show_sample_data){var ai=ae.join("<br/>");this.tiles_div.prepend($("<div/>").html(ai).addClass("yaxislabel variant top sample").css({top:this.prefs.summary_height,}))}}ac=(this.mode==="Squish"?5:10)+"px";$(this.tiles_div).find(".sample").css({"font-size":ac,"line-height":ac});$(this.tiles_div).find(".yaxislabel").css("color",this.prefs.label_color)}else{this.container_div.find(".yaxislabel.variant").remove()}}});var T=function(ad,ac,ae){d.call(this,ad,ac,ae);this.painter=(ad.reference_track?L.RefBasedReadPainter:L.ReadPainter);this.update_icons()};q(T.prototype,r.prototype,N.prototype,d.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block and sense strand color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_insertions",label:"Show insertions",type:"bool",default_value:false},{key:"show_differences",label:"Show differences only",type:"bool",default_value:true},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})}});var e={CompositeTrack:f,DrawableGroup:P,DiagonalHeatmapTrack:t,FeatureTrack:d,LineTrack:h,ReadTrack:T,VariantTrack:Z,VcfTrack:Z};var p=function(ae,ad,ac){if("copy" in ae){return ae.copy(ac)}else{var af=ae.obj_type;if(!af){af=ae.track_type}return new e[af](ad,ac,ae)}};return{TracksterView:Y,DrawableGroup:P,LineTrack:h,FeatureTrack:d,DiagonalHeatmapTrack:t,ReadTrack:T,VariantTrack:Z,CompositeTrack:f,object_from_template:p}}); \ No newline at end of file diff -r 9c915a92142d3b796b0df82b8d097e5a5aae678f -r 66aa6798e55303abc40fbb585c75e8c77638cca3 static/scripts/viz/trackster/tracks.js --- a/static/scripts/viz/trackster/tracks.js +++ b/static/scripts/viz/trackster/tracks.js @@ -1302,15 +1302,28 @@ view.reference_track.init(); } } - if (low !== undefined && high !== undefined) { - view.low = Math.max(low, 0); - view.high = Math.min(high, view.max_high); - } - else { - // Low and high undefined, so view is whole chome. + + // Resolve low, high. + if (low === undefined && high === undefined) { + // Both are undefined, so view is whole chromosome. view.low = 0; view.high = view.max_high; } + else { + // Low and/or high is defined. + view.low = (low !== undefined ? Math.max(low, 0) : 0); + if (high === undefined) { + // Center visualization around low. + // HACK: max resolution is currently 30 bases. + view.low = Math.max(view.low - 15, 0); + view.high = view.low + 30; + } + else { + // High is defined. + view.high = Math.min(high, view.max_high); + } + } + view.reset_overview(); view.request_redraw(); } @@ -1338,16 +1351,8 @@ // Parse new location. var chrom_pos = str.split(/\s+/), chrom = chrom_pos[0], - new_low = (chrom_pos[1] ? parseInt(chrom_pos[1], 10) : null), - new_high = (chrom_pos[2] ? parseInt(chrom_pos[2], 10) : null); - - // If no new high, new_low is the position of focus, so adjust low, high - // accordingly. - if (!new_high) { - // HACK: max resolution is 30 bases,so adjust low, high accordingly. - new_low = new_low - 15; - new_high = new_low + 15; - } + new_low = (chrom_pos[1] ? parseInt(chrom_pos[1], 10) : undefined), + new_high = (chrom_pos[2] ? parseInt(chrom_pos[2], 10) : undefined); this.change_chrom(chrom, new_low, new_high); }, https://bitbucket.org/galaxy/galaxy-central/commits/7225183f34d1/ Changeset: 7225183f34d1 User: jeremy goecks Date: 2014-02-26 20:06:19 Summary: Automated merge of stable to default. Affected #: 2 files diff -r ead13267cf213e10e76d2478b477b729e6f6129a -r 7225183f34d12b1ed3d879a85054ee98a7750729 static/scripts/packed/viz/trackster/tracks.js --- a/static/scripts/packed/viz/trackster/tracks.js +++ b/static/scripts/packed/viz/trackster/tracks.js @@ -1,1 +1,1 @@ -define(["libs/underscore","viz/visualization","viz/trackster/util","viz/trackster/slotting","viz/trackster/painters","viz/trackster/filters","mvc/data","mvc/tools"],function(ab,y,l,u,L,i,X,R){var q=ab.extend;var n={};var k=function(ac,ad){n[ac.attr("id")]=ad};var m=function(ac,ad,af,ae){af=".group";n[ac.attr("id")]=ae;ac.bind("drag",{handle:"."+ad,relative:true},function(an,ao){var am=$(this),ar=$(this).parent(),aj=ar.children(".track,.group"),al=n[$(this).attr("id")],ai,ah,ap,ag,ak;ah=$(this).parents(af);if(ah.length!==0){ap=ah.position().top;ag=ap+ah.outerHeight();var aq=n[ah.attr("id")];if(ao.offsetY<ap){$(this).insertBefore(ah);aq.remove_drawable(al);aq.container.add_drawable_before(al,aq);return}else{if(ao.offsetY>ag){$(this).insertAfter(ah);aq.remove_drawable(al);aq.container.add_drawable(al);return}}}ah=null;for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));ap=ai.position().top;ag=ap+ai.outerHeight();if(ai.is(af)&&this!==ai.get(0)&&ao.offsetY>=ap&&ao.offsetY<=ag){if(ao.offsetY-ap<ag-ao.offsetY){ai.find(".content-div").prepend(this)}else{ai.find(".content-div").append(this)}if(al.container){al.container.remove_drawable(al)}n[ai.attr("id")].add_drawable(al);return}}for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));if(ao.offsetY<ai.position().top&&!(ai.hasClass("reference-track")||ai.hasClass("intro"))){break}}if(ak===aj.length){if(this!==aj.get(ak-1)){ar.append(this);n[ar.attr("id")].move_drawable(al,ak)}}else{if(this!==aj.get(ak)){$(this).insertBefore(aj.get(ak));n[ar.attr("id")].move_drawable(al,(ao.deltaY>0?ak-1:ak))}}}).bind("dragstart",function(){$(this).addClass("dragging")}).bind("dragend",function(){$(this).removeClass("dragging")})};var F=20,B=100,I=12000,S=400,K=5000,x=100,o="Cannot display dataset due to an error. ",J="A converter for this dataset is not installed. Please check your datatypes_conf.xml file.",G="No data for this chrom/contig.",w="Preparing data. This can take a while for a large dataset. If the visualization is saved and closed, preparation will continue in the background.",z="Tool cannot be rerun: ",b="Loading data...",U="Ready for display",Q=10,H=20,C=["Histogram","Line","Filled","Intensity"];function V(ad,ac){if(!ac){ac=0}var ae=Math.pow(10,ac);return Math.round(ad*ae)/ae}var r=function(ad,ac,af){if(!r.id_counter){r.id_counter=0}this.id=r.id_counter++;this.view=ad;this.container=ac;this.drag_handle_class=af.drag_handle_class;this.is_overview=false;this.action_icons={};this.config=new j({params:this.config_params,onchange:this.config_onchange,saved_values:af.prefs});this.prefs=this.config.get("values");if(!this.prefs.name){this.prefs.name=af.name}if(this.config_onchange){this.config.on("change:values",this.config_onchange,this)}this.container_div=this.build_container_div();this.header_div=this.build_header_div();if(this.header_div){this.container_div.append(this.header_div);this.icons_div=$("<div/>").addClass("track-icons").hide().appendTo(this.header_div);this.build_action_icons(this.action_icons_def);this.header_div.append($("<div style='clear: both'/>"));this.header_div.dblclick(function(ag){ag.stopPropagation()});var ae=this;this.container_div.hover(function(){ae.icons_div.show()},function(){ae.icons_div.hide()});$("<div style='clear: both'/>").appendTo(this.container_div)}};r.prototype.action_icons_def=[{name:"toggle_icon",title:"Hide/show content",css_class:"toggle",on_click_fn:function(ac){if(ac.prefs.content_visible){ac.action_icons.toggle_icon.addClass("toggle-expand").removeClass("toggle");ac.hide_contents();ac.prefs.content_visible=false}else{ac.action_icons.toggle_icon.addClass("toggle").removeClass("toggle-expand");ac.prefs.content_visible=true;ac.show_contents()}}},{name:"settings_icon",title:"Edit settings",css_class:"gear",on_click_fn:function(ad){var ac=new a({model:ad.config});ac.render()}},{name:"remove_icon",title:"Remove",css_class:"remove-icon",on_click_fn:function(ac){$(".tooltip").remove();ac.remove()}}];q(r.prototype,{config_params:[{key:"name",label:"Name",type:"text",default_value:""},{key:"content_visible",type:"bool",default_value:true,hidden:true}],config_onchange:function(){this.track.set_name(this.track.config.get("values").name)},init:function(){},changed:function(){this.view.changed()},can_draw:function(){if(this.enabled&&this.prefs.content_visible){return true}return false},request_draw:function(){},_draw:function(ac){},to_dict:function(){},set_name:function(ac){this.old_name=this.prefs.name;this.prefs.name=ac;this.name_div.text(this.prefs.name)},revert_name:function(){if(this.old_name){this.prefs.name=this.old_name;this.name_div.text(this.prefs.name)}},remove:function(){this.changed();this.container.remove_drawable(this);var ac=this.view;this.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})},build_container_div:function(){},build_header_div:function(){},add_action_icon:function(ad,ai,ah,ag,ac,af){var ae=this;this.action_icons[ad]=$("<a/>").attr("title",ai).addClass("icon-button").addClass(ah).tooltip().click(function(){ag(ae)}).appendTo(this.icons_div);if(af){this.action_icons[ad].hide()}},build_action_icons:function(ac){var ae;for(var ad=0;ad<ac.length;ad++){ae=ac[ad];this.add_action_icon(ae.name,ae.title,ae.css_class,ae.on_click_fn,ae.prepend,ae.hide)}},update_icons:function(){},hide_contents:function(){},show_contents:function(){},get_drawables:function(){}});var A=function(ad,ac,ae){r.call(this,ad,ac,ae);this.obj_type=ae.obj_type;this.drawables=[]};q(A.prototype,r.prototype,{unpack_drawables:function(ae){this.drawables=[];var ad;for(var ac=0;ac<ae.length;ac++){ad=p(ae[ac],this.view,this);this.add_drawable(ad)}},init:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].init()}},_draw:function(ac){for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad]._draw(ac)}},to_dict:function(){var ad=[];for(var ac=0;ac<this.drawables.length;ac++){ad.push(this.drawables[ac].to_dict())}return{prefs:this.prefs,obj_type:this.obj_type,drawables:ad}},add_drawable:function(ac){this.drawables.push(ac);ac.container=this;this.changed()},add_drawable_before:function(ae,ac){this.changed();var ad=this.drawables.indexOf(ac);if(ad!==-1){this.drawables.splice(ad,0,ae);return true}return false},replace_drawable:function(ae,ac,ad){var af=this.drawables.indexOf(ae);if(af!==-1){this.drawables[af]=ac;if(ad){ae.container_div.replaceWith(ac.container_div)}this.changed()}return af},remove_drawable:function(ad){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);ad.container=null;this.changed();return true}return false},move_drawable:function(ad,ae){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);this.drawables.splice(ae,0,ad);this.changed();return true}return false},get_drawables:function(){return this.drawables},get_tracks:function(af){var ac=this.drawables.slice(0),ad=[],ae;while(ac.length!==0){ae=ac.shift();if(ae instanceof af){ad.push(ae)}else{if(ae.drawables){ac=ac.concat(ae.drawables)}}}return ad}});var P=function(ad,ac,af){q(af,{obj_type:"DrawableGroup",drag_handle_class:"group-handle"});A.call(this,ad,ac,af);this.content_div=$("<div/>").addClass("content-div").attr("id","group_"+this.id+"_content_div").appendTo(this.container_div);k(this.container_div,this);k(this.content_div,this);m(this.container_div,this.drag_handle_class,".group",this);this.filters_manager=new i.FiltersManager(this);this.header_div.after(this.filters_manager.parent_div);this.saved_filters_managers=[];if("drawables" in af){this.unpack_drawables(af.drawables)}if("filters" in af){var ae=this.filters_manager;this.filters_manager=new i.FiltersManager(this,af.filters);ae.parent_div.replaceWith(this.filters_manager.parent_div);if(af.filters.visible){this.setup_multitrack_filtering()}}};q(P.prototype,r.prototype,A.prototype,{action_icons_def:[r.prototype.action_icons_def[0],r.prototype.action_icons_def[1],{name:"composite_icon",title:"Show composite track",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_composite_track()}},{name:"filters_icon",title:"Filters",css_class:"filters-icon",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters();ac._restore_filter_managers()}else{ac.setup_multitrack_filtering();ac.request_draw({clear_tile_cache:true})}ac.filters_manager.toggle()}},r.prototype.action_icons_def[2]],build_container_div:function(){var ac=$("<div/>").addClass("group").attr("id","group_"+this.id);if(this.container){this.container.content_div.append(ac)}return ac},build_header_div:function(){var ac=$("<div/>").addClass("track-header");ac.append($("<div/>").addClass(this.drag_handle_class));this.name_div=$("<div/>").addClass("track-name").text(this.prefs.name).appendTo(ac);return ac},hide_contents:function(){this.tiles_div.hide()},show_contents:function(){this.tiles_div.show();this.request_draw()},update_icons:function(){var ae=this.drawables.length;if(ae===0){this.action_icons.composite_icon.hide();this.action_icons.filters_icon.hide()}else{if(ae===1){if(this.drawables[0] instanceof f){this.action_icons.composite_icon.show()}this.action_icons.filters_icon.hide()}else{var al,ak,ai,ao=true,ag=this.drawables[0].get_type(),ac=0;for(al=0;al<ae;al++){ai=this.drawables[al];if(ai.get_type()!==ag){can_composite=false;break}if(ai instanceof d){ac++}}if(ao||ac===1){this.action_icons.composite_icon.show()}else{this.action_icons.composite_icon.hide();$(".tooltip").remove()}if(ac>1&&ac===this.drawables.length){var ap={},ad;ai=this.drawables[0];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];ap[ad.name]=[ad]}for(al=1;al<this.drawables.length;al++){ai=this.drawables[al];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];if(ad.name in ap){ap[ad.name].push(ad)}}}this.filters_manager.remove_all();var af,ah,aj,am;for(var an in ap){af=ap[an];if(af.length===ac){ah=new i.NumberFilter({name:af[0].name,index:af[0].index});this.filters_manager.add_filter(ah)}}if(this.filters_manager.filters.length>0){this.action_icons.filters_icon.show()}else{this.action_icons.filters_icon.hide()}}else{this.action_icons.filters_icon.hide()}}}},_restore_filter_managers:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].filters_manager=this.saved_filters_managers[ac]}this.saved_filters_managers=[]},setup_multitrack_filtering:function(){if(this.filters_manager.filters.length>0){this.saved_filters_managers=[];for(var ac=0;ac<this.drawables.length;ac++){drawable=this.drawables[ac];this.saved_filters_managers.push(drawable.filters_manager);drawable.filters_manager=this.filters_manager}}this.filters_manager.init_filters()},show_composite_track:function(){var ad=new f(this.view,this.view,{name:this.prefs.name,drawables:this.drawables});var ac=this.container.replace_drawable(this,ad,true);ad.request_draw()},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);this.update_icons()},remove_drawable:function(ac){A.prototype.remove_drawable.call(this,ac);this.update_icons()},to_dict:function(){if(this.filters_manager.visible()){this._restore_filter_managers()}var ac=q(A.prototype.to_dict.call(this),{filters:this.filters_manager.to_dict()});if(this.filters_manager.visible()){this.setup_multitrack_filtering()}return ac},request_draw:function(ac){ab.each(this.drawables,function(ad){ad.request_draw(ac)})}});var Y=Backbone.View.extend({initialize:function(ac){q(ac,{obj_type:"View"});A.call(this,"View",ac.container,ac);this.chrom=null;this.vis_id=ac.vis_id;this.dbkey=ac.dbkey;this.label_tracks=[];this.tracks_to_be_redrawn=[];this.max_low=0;this.max_high=0;this.zoom_factor=3;this.min_separation=30;this.has_changes=false;this.load_chroms_deferred=null;this.render();this.canvas_manager=new y.CanvasManager(this.container.get(0).ownerDocument);this.reset();this.config=new j({track:this,params:[{key:"a_color",label:"A Color",type:"color",default_value:"#FF0000"},{key:"c_color",label:"C Color",type:"color",default_value:"#00FF00"},{key:"g_color",label:"G Color",type:"color",default_value:"#0000FF"},{key:"t_color",label:"T Color",type:"color",default_value:"#FF00FF"},{key:"n_color",label:"N Color",type:"color",default_value:"#AAAAAA"}],saved_values:ac.prefs,onchange:function(){track.request_redraw({clear_tile_cache:true})}})},render:function(){this.requested_redraw=false;var ae=this.container,ac=this;this.top_container=$("<div/>").addClass("top-container").appendTo(ae);this.browser_content_div=$("<div/>").addClass("content").appendTo(ae);this.bottom_container=$("<div/>").addClass("bottom-container").appendTo(ae);this.top_labeltrack=$("<div/>").addClass("top-labeltrack").appendTo(this.top_container);this.viewport_container=$("<div/>").addClass("viewport-container").attr("id","viewport-container").appendTo(this.browser_content_div);this.content_div=this.viewport_container;k(this.viewport_container,ac);this.intro_div=$("<div/>").addClass("intro").appendTo(this.viewport_container).hide();var af=$("<div/>").text("Add Datasets to Visualization").addClass("action-button").appendTo(this.intro_div).click(function(){y.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":ac.dbkey},function(ag){ab.each(ag,function(ah){ac.add_drawable(p(ah,ac,ac))})})});this.nav_labeltrack=$("<div/>").addClass("nav-labeltrack").appendTo(this.bottom_container);this.nav_container=$("<div/>").addClass("trackster-nav-container").prependTo(this.top_container);this.nav=$("<div/>").addClass("trackster-nav").appendTo(this.nav_container);this.overview=$("<div/>").addClass("overview").appendTo(this.bottom_container);this.overview_viewport=$("<div/>").addClass("overview-viewport").appendTo(this.overview);this.overview_close=$("<a/>").attr("title","Close overview").addClass("icon-button overview-close tooltip").hide().appendTo(this.overview_viewport);this.overview_highlight=$("<div/>").addClass("overview-highlight").hide().appendTo(this.overview_viewport);this.overview_box_background=$("<div/>").addClass("overview-boxback").appendTo(this.overview_viewport);this.overview_box=$("<div/>").addClass("overview-box").appendTo(this.overview_viewport);this.default_overview_height=this.overview_box.height();this.nav_controls=$("<div/>").addClass("nav-controls").appendTo(this.nav);this.chrom_select=$("<select/>").attr({name:"chrom"}).addClass("chrom-nav").append("<option value=''>Loading</option>").appendTo(this.nav_controls);var ad=function(ag){if(ag.type==="focusout"||(ag.keyCode||ag.which)===13||(ag.keyCode||ag.which)===27){if((ag.keyCode||ag.which)!==27){ac.go_to($(this).val())}$(this).hide();$(this).val("");ac.location_span.show();ac.chrom_select.show()}ag.stopPropagation()};this.nav_input=$("<input/>").addClass("nav-input").hide().bind("keyup focusout",ad).appendTo(this.nav_controls);this.location_span=$("<span/>").addClass("location").attr("title","Click to change location").tooltip({placement:"bottom"}).appendTo(this.nav_controls);this.location_span.click(function(){ac.location_span.hide();ac.chrom_select.hide();ac.nav_input.val(ac.chrom+":"+ac.low+"-"+ac.high);ac.nav_input.css("display","inline-block");ac.nav_input.select();ac.nav_input.focus();ac.nav_input.autocomplete({source:function(ai,ag){var aj=[],ah=$.map(ac.get_tracks(d),function(ak){return ak.data_manager.search_features(ai.term).success(function(al){aj=aj.concat(al)})});$.when.apply($,ah).done(function(){ag($.map(aj,function(ak){return{label:ak[0],value:ak[1]}}))})}})});if(this.vis_id!==undefined){this.hidden_input=$("<input/>").attr("type","hidden").val(this.vis_id).appendTo(this.nav_controls)}this.zo_link=$("<a/>").attr("id","zoom-out").attr("title","Zoom out").tooltip({placement:"bottom"}).click(function(){ac.zoom_out()}).appendTo(this.nav_controls);this.zi_link=$("<a/>").attr("id","zoom-in").attr("title","Zoom in").tooltip({placement:"bottom"}).click(function(){ac.zoom_in()}).appendTo(this.nav_controls);this.load_chroms_deferred=this.load_chroms({low:0});this.chrom_select.bind("change",function(){ac.change_chrom(ac.chrom_select.val())});this.browser_content_div.click(function(ag){$(this).find("input").trigger("blur")});this.browser_content_div.bind("dblclick",function(ag){ac.zoom_in(ag.pageX,this.viewport_container)});this.overview_box.bind("dragstart",function(ag,ah){this.current_x=ah.offsetX}).bind("drag",function(ag,ai){var aj=ai.offsetX-this.current_x;this.current_x=ai.offsetX;var ah=Math.round(aj/ac.viewport_container.width()*(ac.max_high-ac.max_low));ac.move_delta(-ah)});this.overview_close.click(function(){ac.reset_overview()});this.viewport_container.bind("draginit",function(ag,ah){if(ag.clientX>ac.viewport_container.width()-16){return false}}).bind("dragstart",function(ag,ah){ah.original_low=ac.low;ah.current_height=ag.clientY;ah.current_x=ah.offsetX}).bind("drag",function(ai,ak){var ag=$(this);var al=ak.offsetX-ak.current_x;var ah=ag.scrollTop()-(ai.clientY-ak.current_height);ag.scrollTop(ah);ak.current_height=ai.clientY;ak.current_x=ak.offsetX;var aj=Math.round(al/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}).bind("mousewheel",function(ai,ak,ah,ag){if(ah){ah*=50;var aj=Math.round(-ah/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}});this.top_labeltrack.bind("dragstart",function(ag,ah){return $("<div/>").addClass("zoom-area").css("height",ac.browser_content_div.height()+ac.top_labeltrack.height()+ac.nav_labeltrack.height()+1).appendTo($(this))}).bind("drag",function(ak,al){$(al.proxy).css({left:Math.min(ak.pageX,al.startX)-ac.container.offset().left,width:Math.abs(ak.pageX-al.startX)});var ah=Math.min(ak.pageX,al.startX)-ac.container.offset().left,ag=Math.max(ak.pageX,al.startX)-ac.container.offset().left,aj=(ac.high-ac.low),ai=ac.viewport_container.width();ac.update_location(Math.round(ah/ai*aj)+ac.low,Math.round(ag/ai*aj)+ac.low)}).bind("dragend",function(al,am){var ah=Math.min(al.pageX,am.startX),ag=Math.max(al.pageX,am.startX),aj=(ac.high-ac.low),ai=ac.viewport_container.width(),ak=ac.low;ac.low=Math.round(ah/ai*aj)+ak;ac.high=Math.round(ag/ai*aj)+ak;$(am.proxy).remove();ac.request_redraw()});this.add_label_track(new W(this,{content_div:this.top_labeltrack}));this.add_label_track(new W(this,{content_div:this.nav_labeltrack}));$(window).bind("resize",function(){if(this.resize_timer){clearTimeout(this.resize_timer)}this.resize_timer=setTimeout(function(){ac.resize_window()},500)});$(document).bind("redraw",function(){ac.redraw()});this.reset();$(window).trigger("resize")},get_base_color:function(ac){return this.config.get("values")[ac.toLowerCase()+"_color"]||this.config.get("values").n_color}});q(Y.prototype,A.prototype,{changed:function(){this.has_changes=true},update_intro_div:function(){if(this.drawables.length===0){this.intro_div.show()}else{this.intro_div.hide()}},trigger_navigate:function(ad,af,ac,ag){if(this.timer){clearTimeout(this.timer)}if(ag){var ae=this;this.timer=setTimeout(function(){ae.trigger("navigate",ad+":"+af+"-"+ac)},500)}else{view.trigger("navigate",ad+":"+af+"-"+ac)}},update_location:function(ac,ae){this.location_span.text(commatize(ac)+" - "+commatize(ae));this.nav_input.val(this.chrom+":"+commatize(ac)+"-"+commatize(ae));var ad=view.chrom_select.val();if(ad!==""){this.trigger_navigate(ad,view.low,view.high,true)}},load_chroms:function(ae){ae.num=x;var ac=this,ad=$.Deferred();$.ajax({url:galaxy_config.root+"api/genomes/"+this.dbkey,data:ae,dataType:"json",success:function(ag){if(ag.chrom_info.length===0){return}if(ag.reference){var ah=new D(ac);ac.add_label_track(ah);ac.reference_track=ah}ac.chrom_data=ag.chrom_info;var ak='<option value="">Select Chrom/Contig</option>';for(var aj=0,af=ac.chrom_data.length;aj<af;aj++){var ai=ac.chrom_data[aj].chrom;ak+='<option value="'+ai+'">'+ai+"</option>"}if(ag.prev_chroms){ak+='<option value="previous">Previous '+x+"</option>"}if(ag.next_chroms){ak+='<option value="next">Next '+x+"</option>"}ac.chrom_select.html(ak);ac.chrom_start_index=ag.start_index;ad.resolve(ag.chrom_info)},error:function(){alert("Could not load chroms for this dbkey: "+ac.dbkey)}});return ad},change_chrom:function(ah,ad,aj){var ae=this;if(!ae.chrom_data){ae.load_chroms_deferred.then(function(){ae.change_chrom(ah,ad,aj)});return}if(!ah||ah==="None"){return}if(ah==="previous"){ae.load_chroms({low:this.chrom_start_index-x});return}if(ah==="next"){ae.load_chroms({low:this.chrom_start_index+x});return}var ai=$.grep(ae.chrom_data,function(ak,al){return ak.chrom===ah})[0];if(ai===undefined){ae.load_chroms({chrom:ah},function(){ae.change_chrom(ah,ad,aj)});return}else{if(ah!==ae.chrom){ae.chrom=ah;ae.chrom_select.val(ae.chrom);ae.max_high=ai.len-1;ae.reset();for(var ag=0,ac=ae.drawables.length;ag<ac;ag++){var af=ae.drawables[ag];if(af.init){af.init()}}if(ae.reference_track){ae.reference_track.init()}}if(ad!==undefined&&aj!==undefined){ae.low=Math.max(ad,0);ae.high=Math.min(aj,ae.max_high)}else{ae.low=0;ae.high=ae.max_high}ae.reset_overview();ae.request_redraw()}},go_to:function(ag){ag=ag.replace(/,/g,"");ag=ag.replace(/:|\-/g," ");var ad=ag.split(/\s+/),af=ad[0],ae=(ad[1]?parseInt(ad[1],10):null),ac=(ad[2]?parseInt(ad[2],10):null);if(!ac){ae=ae-15;ac=ae+15}this.change_chrom(af,ae,ac)},move_fraction:function(ae){var ac=this;var ad=ac.high-ac.low;this.move_delta(ae*ad)},move_delta:function(af){var ac=this;var ae=ac.high-ac.low;if(ac.low-af<ac.max_low){ac.low=ac.max_low;ac.high=ac.max_low+ae}else{if(ac.high-af>ac.max_high){ac.high=ac.max_high;ac.low=ac.max_high-ae}else{ac.high-=af;ac.low-=af}}ac.request_redraw({data_fetch:false});if(this.redraw_on_move_fn){clearTimeout(this.redraw_on_move_fn)}this.redraw_on_move_fn=setTimeout(function(){ac.request_redraw()},200);var ad=ac.chrom_select.val();this.trigger_navigate(ad,ac.low,ac.high,true)},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);ac.init();this.changed();this.update_intro_div()},add_label_track:function(ac){ac.view=this;ac.init();this.label_tracks.push(ac)},remove_drawable:function(ae,ad){A.prototype.remove_drawable.call(this,ae);if(ad){var ac=this;ae.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})}},reset:function(){this.low=this.max_low;this.high=this.max_high;this.viewport_container.find(".yaxislabel").remove()},request_redraw:function(ad,ae){var ac=this,af=(ae?[ae]:ac.drawables);ab.each(af,function(ag){var ah=ab.find(ac.tracks_to_be_redrawn,function(ai){return ai[0]===ag});if(ah){ah[1]=ad}else{ac.tracks_to_be_redrawn.push([ag,ad])}});if(!this.requested_redraw){requestAnimationFrame(function(){ac._redraw()});this.requested_redraw=true}},_redraw:function(){this.requested_redraw=false;var ac=this.low,ag=this.high;if(ac<this.max_low){ac=this.max_low}if(ag>this.max_high){ag=this.max_high}var ad=this.high-this.low;if(this.high!==0&&ad<this.min_separation){ag=ac+this.min_separation}this.low=Math.floor(ac);this.high=Math.ceil(ag);this.update_location(this.low,this.high);this.resolution_px_b=this.viewport_container.width()/(this.high-this.low);var af=(this.low/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ah=((this.high-this.low)/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ae=13;this.overview_box.css({left:af,width:Math.max(ae,ah)}).show();if(ah<ae){this.overview_box.css("left",af-(ae-ah)/2)}if(this.overview_highlight){this.overview_highlight.css({left:af,width:ah})}ab.each(this.tracks_to_be_redrawn,function(ak){var ai=ak[0],aj=ak[1];if(ai){ai._draw(aj)}});this.tracks_to_be_redrawn=[];ab.each(this.label_tracks,function(ai){ai._draw()})},zoom_in:function(ad,ae){if(this.max_high===0||this.high-this.low<=this.min_separation){return}var af=this.high-this.low,ag=af/2+this.low,ac=(af/this.zoom_factor)/2;if(ad){ag=ad/this.viewport_container.width()*(this.high-this.low)+this.low}this.low=Math.round(ag-ac);this.high=Math.round(ag+ac);this.changed();this.request_redraw()},zoom_out:function(){if(this.max_high===0){return}var ad=this.high-this.low,ae=ad/2+this.low,ac=(ad*this.zoom_factor)/2;this.low=Math.round(ae-ac);this.high=Math.round(ae+ac);this.changed();this.request_redraw()},resize_window:function(){this.viewport_container.height(this.container.height()-this.top_container.height()-this.bottom_container.height());this.request_redraw()},set_overview:function(ae){if(this.overview_drawable){if(this.overview_drawable.dataset.id===ae.dataset.id){return}this.overview_viewport.find(".track").remove()}var ad=ae.copy({content_div:this.overview_viewport}),ac=this;ad.header_div.hide();ad.is_overview=true;ac.overview_drawable=ad;this.overview_drawable.postdraw_actions=function(){ac.overview_highlight.show().height(ac.overview_drawable.content_div.height());ac.overview_viewport.height(ac.overview_drawable.content_div.height()+ac.overview_box.outerHeight());ac.overview_close.show();ac.resize_window()};ac.overview_drawable.request_draw();this.changed()},reset_overview:function(){$(".tooltip").remove();this.overview_viewport.find(".track-tile").remove();this.overview_viewport.height(this.default_overview_height);this.overview_box.height(this.default_overview_height);this.overview_close.hide();this.overview_highlight.hide();view.resize_window();view.overview_drawable=null}});var s=R.Tool.extend({defaults:{track:null},initialize:function(ac){R.Tool.prototype.initialize.call(this,ac);var ad=true;if(ac.tool_state!==undefined&&ac.tool_state.hidden!==undefined){ad=ac.tool_state.hidden}this.set("hidden",ad);this.remove_inputs(["data","hidden_data","conditional"])},state_dict:function(ac){return ab.extend(this.get_inputs_dict(),{hidden:!this.is_visible()})}});var v=Backbone.View.extend({events:{"change input":"update_value"},render:function(){var ae=this.$el.addClass("param-row"),af=this.model;var ac=$("<div>").addClass("param-label").text(af.get("label")).appendTo(ae);var ad=$("<div/>").addClass("param-input").html(af.get("html")).appendTo(ae);ad.find(":input").val(af.get("value"));$("<div style='clear: both;'/>").appendTo(ae)},update_value:function(ac){this.model.set_value($(ac.target).val())}});var aa=Backbone.View.extend({initialize:function(ac){this.model.on("change:hidden",this.set_visible,this)},render:function(){var ad=this;tool=this.model,parent_div=this.$el.addClass("dynamic-tool").hide();parent_div.bind("drag",function(ah){ah.stopPropagation()}).click(function(ah){ah.stopPropagation()}).bind("dblclick",function(ah){ah.stopPropagation()}).keydown(function(ah){ah.stopPropagation()});var ae=$("<div class='tool-name'>").appendTo(parent_div).text(tool.get("name"));tool.get("inputs").each(function(ai){var ah=new v({model:ai});ah.render();parent_div.append(ah.$el)});parent_div.find("input").click(function(){$(this).select()});var af=$("<div>").addClass("param-row").appendTo(parent_div);var ag=$("<input type='submit'>").attr("value","Run on complete dataset").appendTo(af);var ac=$("<input type='submit'>").attr("value","Run on visible region").appendTo(af);ac.click(function(){ad.run_on_region()});ag.click(function(){ad.run_on_dataset()});if(tool.is_visible()){this.$el.show()}},set_visible:function(){if(this.model.is_visible()){this.$el.show()}else{this.$el.hide()}},update_params:function(){for(var ac=0;ac<this.params.length;ac++){this.params[ac].update_value()}},run_on_dataset:function(){var ac=this.model;this.run({target_dataset_id:this.model.get("track").dataset.id,action:"rerun",tool_id:ac.id},null,function(ad){Galaxy.modal.show({title:ac.get("name")+" is Running",body:ac.get("name")+" is running on the complete dataset. Tool outputs are in dataset's history.",buttons:{Close:function(){Galaxy.modal.hide()}}})})},run_on_region:function(){var ad=this.model.get("track"),ag=this.model,ai=new y.GenomeRegion({chrom:ad.view.chrom,start:ad.view.low,end:ad.view.high}),aj={target_dataset_id:ad.dataset.id,action:"rerun",tool_id:ag.id,regions:[ai.toJSON()]},ah=ad,al=ag.get("name")+ah.tool_region_and_parameters_str(ai),ac;if(ah.container===view){var ak=new P(view,view,{name:ad.prefs.name});var af=ah.container.replace_drawable(ah,ak,false);ak.container_div.insertBefore(ah.view.content_div.children()[af]);ak.add_drawable(ah);ah.container_div.appendTo(ak.content_div);ac=ak}else{ac=ah.container}var ae=new ah.constructor(view,ac,{name:al,hda_ldda:"hda"});ae.init_for_tool_data();ae.change_mode(ah.mode);ae.set_filters_manager(ah.filters_manager.copy(ae));ae.update_icons();ac.add_drawable(ae);ae.tiles_div.text("Starting job.");this.run(aj,ae,function(am){ae.set_dataset(new X.Dataset(am));ae.tiles_div.text("Running job.");ae.init()})},run:function(ac,ae,af){ac.inputs=this.model.get_inputs_dict();var ad=new l.ServerStateDeferred({ajax_settings:{url:galaxy_config.root+"api/tools",data:JSON.stringify(ac),dataType:"json",contentType:"application/json",type:"POST"},interval:2000,success_fn:function(ag){return ag!=="pending"}});$.when(ad.go()).then(function(ag){if(ag==="no converter"){ae.container_div.addClass("error");ae.content_div.text(J)}else{if(ag.error){ae.container_div.addClass("error");ae.content_div.text(z+ag.message)}else{af(ag)}}})}});var E=function(ac,ad){L.Scaler.call(this,ad);this.filter=ac};E.prototype.gen_val=function(ac){if(this.filter.high===Number.MAX_VALUE||this.filter.low===-Number.MAX_VALUE||this.filter.low===this.filter.high){return this.default_val}return((parseFloat(ac[this.filter.index])-this.filter.low)/(this.filter.high-this.filter.low))};var j=Backbone.Model.extend({initialize:function(ad){var ac={};ab.each(ad.params,function(ae){ac[ae.key]=(ae.type==="color"&&!ae.default_value?l.get_random_color():ae.default_value)});if(ad.saved_values){ab.each(this.get("params"),function(ae){if(ae.key in ad.saved_values){ac[ae.key]=ad.saved_values[ae.key]}})}this.set("values",ac)},set_param_default_value:function(ad,ac){var ae=ab.find(this.get("params"),function(af){return af.key===ad});if(ae){ae.default_value=ac}},set_param_value:function(ac,ad){var ae=ab.find(this.get("params"),function(af){return af.key===ac});if(ae){if(typeof ad==="string"||ad instanceof String){if(ad.trim()===""){ad=ae.default_value}else{if(ae.type==="float"){ad=parseFloat(ad)}else{if(ae.type==="int"){ad=parseInt(ad,10)}}}}}if(this.get("values")[ac]!==ad){this.get("values")[ac]=ad;this.trigger("change:values");return true}else{return false}}});var a=Backbone.View.extend({render:function(){var aj=this.model;var ac=$("<div/>").keydown(function(ak){ak.stopPropagation()});var ai;function ah(ao,ak){for(var at=0;at<ao.length;at++){ai=ao[at];if(ai.hidden){continue}var am="param_"+at;var ax=aj.get("values")[ai.key];var az=$("<div class='form-row' />").appendTo(ak);az.append($("<label />").attr("for",am).text(ai.label+":"));if(ai.type==="bool"){az.append($('<input type="checkbox" />').attr("id",am).attr("name",am).attr("checked",ax))}else{if(ai.type==="text"){az.append($('<input type="text"/>').attr("id",am).val(ax).click(function(){$(this).select()}))}else{if(ai.type==="select"){var av=$("<select />").attr("id",am);for(var aq=0;aq<ai.options.length;aq++){$("<option/>").text(ai.options[aq].label).attr("value",ai.options[aq].value).appendTo(av)}av.val(ax);az.append(av)}else{if(ai.type==="color"){var ay=$("<div/>").appendTo(az),au=$("<input/>").attr({id:am,name:am}).val(ax).addClass("color-input").appendTo(ay).click(function(aB){$(".tooltip").removeClass("in");var aA=$(this).siblings(".tooltip").addClass("in");aA.css({left:$(this).position().left+$(this).width()+5,top:$(this).position().top+Galaxy.modal.scrollTop()-($(aA).height()/2)+($(this).height()/2)}).show();aA.click(function(aC){aC.stopPropagation()});$(document).bind("click.color-picker",function(){aA.hide();$(document).unbind("click.color-picker")});aB.stopPropagation()}),ar=$("<a href='javascript:void(0)'/>").addClass("icon-button arrow-circle").appendTo(ay).attr("title","Set new random color").tooltip(),aw=$("<div class='tooltip right' style='position: absolute;' />").appendTo(ay).hide(),an=$("<div class='tooltip-inner' style='text-align: inherit'></div>").appendTo(aw),al=$("<div class='tooltip-arrow'></div>").appendTo(aw),ap=$.farbtastic(an,{width:100,height:100,callback:au,color:ax});ay.append($("<div/>").css("clear","both"));(function(aA){ar.click(function(){aA.setColor(l.get_random_color())})})(ap)}else{az.append($("<input />").attr("id",am).attr("name",am).val(ax))}}}}if(ai.help){az.append($("<div class='help'/>").text(ai.help))}}}ah(aj.get("params"),ac);var ad=this,ag=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ae=function(){ad.update_from_form($(Galaxy.modal.el));Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},af=function(ak){if((ak.keyCode||ak.which)===27){ag()}else{if((ak.keyCode||ak.which)===13){ae()}}};$(window).bind("keypress.check_enter_esc",af);Galaxy.modal.show({title:"Configure",body:ac,buttons:{Cancel:ag,Ok:ae}})},update_from_form:function(ac){var ad=this.model;var ae=false;ab.each(ad.get("params"),function(ah,af){if(!ah.hidden){var ai="param_"+af;var ag=ac.find("#"+ai).val();if(ah.type==="bool"){ag=ac.find("#"+ai).is(":checked")}ae=ad.set_param_value(ah.key,ag)||ae}})}});var c=function(ac,af,ag,ad,ae){this.track=ac;this.region=af;this.low=af.get("start");this.high=af.get("end");this.w_scale=ag;this.canvas=ad;this.html_elt=$("<div class='track-tile'/>").append(ad);this.data=ae;this.stale=false};c.prototype.predisplay_actions=function(){};var M=function(ac,af,ag,ad,ae){c.call(this,ac,af,ag,ad,ae)};M.prototype.predisplay_actions=function(){};var O=function(af,am,ao,ae,ah,ai,ap,ad,al){c.call(this,af,am,ao,ae,ah);this.mode=ai;this.all_slotted=ad;this.feature_mapper=al;this.has_icons=false;if(ap){this.has_icons=true;var aj=this;ae=this.html_elt.children()[0],message_div=$("<div/>").addClass("tile-message").css({height:F,width:ae.width}).prependTo(this.html_elt);var ak=new y.GenomeRegion({chrom:af.view.chrom,start:this.low,end:this.high}),an=ah.length,ag=$("<a/>").addClass("icon more-down").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data including depth").tooltip().appendTo(message_div),ac=$("<a/>").addClass("icon more-across").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data excluding depth").tooltip().appendTo(message_div);ag.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.DEEP_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()});ac.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.BROAD_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()})}};q(O.prototype,c.prototype);O.prototype.predisplay_actions=function(){var ad=this,ac={};if(ad.mode!=="Pack"){return}$(this.html_elt).hover(function(){this.hovered=true;$(this).mousemove()},function(){this.hovered=false;$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()}).mousemove(function(ao){if(!this.hovered){return}var aj=$(this).offset(),an=ao.pageX-aj.left,am=ao.pageY-aj.top,at=ad.feature_mapper.get_feature_data(an,am),ak=(at?at[0]:null);$(this).parents(".track-content").children(".overlay").children(".feature-popup").each(function(){if(!ak||$(this).attr("id")!==ak.toString()){$(this).remove()}});if(at){var af=ac[ak];if(!af){var ap={name:at[3],start:at[1],end:at[2],strand:at[4]},ai=ad.track.filters_manager.filters,ah;for(var al=0;al<ai.length;al++){ah=ai[al];ap[ah.name]=at[ah.index]}af=$("<div/>").attr("id",ak).addClass("feature-popup");var au=$("<table/>"),ar,aq,av;for(ar in ap){aq=ap[ar];av=$("<tr/>").appendTo(au);$("<th/>").appendTo(av).text(ar);$("<td/>").attr("align","left").appendTo(av).text(typeof(aq)==="number"?V(aq,2):aq)}af.append($("<div class='feature-popup-inner'>").append(au));ac[ak]=af}af.appendTo($(this).parents(".track-content").children(".overlay"));var ag=an+parseInt(ad.html_elt.css("left"),10)-af.width()/2,ae=am+parseInt(ad.html_elt.css("top"),10)+7;af.css("left",ag+"px").css("top",ae+"px")}else{if(!ao.isPropagationStopped()){ao.stopPropagation();$(this).siblings().each(function(){$(this).trigger(ao)})}}}).mouseleave(function(){$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()})};var g=function(ad,ac,ae){q(ae,{drag_handle_class:"draghandle"});r.call(this,ad,ac,ae);this.dataset=null;if(ae.dataset){this.dataset=(ae.dataset instanceof Backbone.Model?ae.dataset:new X.Dataset(ae.dataset))}this.dataset_check_type="converted_datasets_state";this.data_url_extra_params={};this.data_query_wait=("data_query_wait" in ae?ae.data_query_wait:K);this.data_manager=("data_manager" in ae?ae.data_manager:new y.GenomeDataManager({dataset:this.dataset,genome:new y.Genome({key:ad.dbkey,chroms_info:{chrom_info:ad.chrom_data}}),data_mode_compatible:this.data_and_mode_compatible,can_subset:this.can_subset}));this.min_height_px=16;this.max_height_px=800;this.visible_height_px=this.prefs.height;this.content_div=$("<div class='track-content'>").appendTo(this.container_div);if(this.container){this.container.content_div.append(this.container_div);if(!("resize" in ae)||ae.resize){this.add_resize_handle()}}};q(g.prototype,r.prototype,{action_icons_def:[{name:"mode_icon",title:"Set display mode",css_class:"chevron-expand",on_click_fn:function(){}},r.prototype.action_icons_def[0],{name:"overview_icon",title:"Set as overview",css_class:"application-dock-270",on_click_fn:function(ac){ac.view.set_overview(ac)}},r.prototype.action_icons_def[1],{name:"filters_icon",title:"Filters",css_class:"ui-slider-050",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters()}else{ac.filters_manager.init_filters()}ac.filters_manager.toggle()}},{name:"tools_icon",title:"Tool",css_class:"hammer",on_click_fn:function(ac){ac.tool.toggle();if(ac.tool.is_visible()){ac.set_name(ac.prefs.name+ac.tool_region_and_parameters_str())}else{ac.revert_name()}$(".tooltip").remove()}},{name:"param_space_viz_icon",title:"Tool parameter space visualization",css_class:"arrow-split",on_click_fn:function(ac){var af='<strong>Tool</strong>: <%= track.tool.get("name") %><br/><strong>Dataset</strong>: <%= track.prefs.name %><br/><strong>Region(s)</strong>: <select name="regions"><option value="cur">current viewing area</option><option value="bookmarks">bookmarks</option><option value="both">current viewing area and bookmarks</option></select>',ae=ab.template(af,{track:ac});var ah=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ad=function(){var aj=$('select[name="regions"] option:selected').val(),al,ai=new y.GenomeRegion({chrom:view.chrom,start:view.low,end:view.high}),ak=ab.map($(".bookmark"),function(am){return new y.GenomeRegion({from_str:$(am).children(".position").text()})});if(aj==="cur"){al=[ai]}else{if(aj==="bookmarks"){al=ak}else{al=[ai].concat(ak)}}Galaxy.modal.hide();window.location.href=galaxy_config.root+"visualization/sweepster?"+$.param({dataset_id:ac.dataset.id,hda_ldda:ac.dataset.get("hda_ldda"),regions:JSON.stringify(new Backbone.Collection(al).toJSON())})},ag=function(ai){if((ai.keyCode||ai.which)===27){ah()}else{if((ai.keyCode||ai.which)===13){ad()}}};Galaxy.modal.show({title:"Visualize tool parameter space and output from different parameter settings?",body:ae,buttons:{No:ah,Yes:ad}})}},r.prototype.action_icons_def[2]],can_draw:function(){return this.dataset&&r.prototype.can_draw.call(this)},build_container_div:function(){return $("<div/>").addClass("track").attr("id","track_"+this.id)},build_header_div:function(){var ac=$("<div class='track-header'/>");if(this.view.editor){this.drag_div=$("<div/>").addClass(this.drag_handle_class).appendTo(ac)}this.name_div=$("<div/>").addClass("track-name").appendTo(ac).text(this.prefs.name).attr("id",this.prefs.name.replace(/\s+/g,"-").replace(/[^a-zA-Z0-9\-]/g,"").toLowerCase());return ac},set_dataset:function(ac){this.dataset=ac;this.data_manager.set("dataset",ac)},on_resize:function(){this.request_draw({clear_tile_cache:true})},add_resize_handle:function(){var ac=this;var af=false;var ae=false;var ad=$("<div class='track-resize'>");$(ac.container_div).hover(function(){if(ac.prefs.content_visible){af=true;ad.show()}},function(){af=false;if(!ae){ad.hide()}});ad.hide().bind("dragstart",function(ag,ah){ae=true;ah.original_height=$(ac.content_div).height()}).bind("drag",function(ah,ai){var ag=Math.min(Math.max(ai.original_height+ai.deltaY,ac.min_height_px),ac.max_height_px);$(ac.tiles_div).css("height",ag);ac.visible_height_px=(ac.max_height_px===ag?0:ag);ac.on_resize()}).bind("dragend",function(ag,ah){ac.tile_cache.clear();ae=false;if(!af){ad.hide()}ac.config.get("values").height=ac.visible_height_px;ac.changed()}).appendTo(ac.container_div)},set_display_modes:function(af,ai){this.display_modes=af;this.mode=(ai?ai:(this.config&&this.config.get("values").mode?this.config.get("values").mode:this.display_modes[0]));this.action_icons.mode_icon.attr("title","Set display mode (now: "+this.mode+")");var ad=this,ag={};for(var ae=0,ac=ad.display_modes.length;ae<ac;ae++){var ah=ad.display_modes[ae];ag[ah]=function(aj){return function(){ad.change_mode(aj);ad.icons_div.show();ad.container_div.mouseleave(function(){ad.icons_div.hide()})}}(ah)}make_popupmenu(this.action_icons.mode_icon,ag)},build_action_icons:function(){r.prototype.build_action_icons.call(this,this.action_icons_def);if(this.display_modes!==undefined){this.set_display_modes(this.display_modes)}},hide_contents:function(){this.tiles_div.hide();this.container_div.find(".yaxislabel, .track-resize").hide()},show_contents:function(){this.tiles_div.show();this.container_div.find(".yaxislabel, .track-resize").show();this.request_draw()},get_type:function(){if(this instanceof W){return"LabelTrack"}else{if(this instanceof D){return"ReferenceTrack"}else{if(this instanceof h){return"LineTrack"}else{if(this instanceof T){return"ReadTrack"}else{if(this instanceof Z){return"VariantTrack"}else{if(this instanceof f){return"CompositeTrack"}else{if(this instanceof d){return"FeatureTrack"}}}}}}}return""},show_message:function(ac){this.tiles_div.remove();return $("<span/>").addClass("message").html(ac).appendTo(this.content_div)},init:function(ae){var ad=this;ad.enabled=false;ad.tile_cache.clear();ad.data_manager.clear();ad.content_div.children().remove();ad.container_div.removeClass("nodata error pending");ad.tiles_div=$("<div/>").addClass("tiles").appendTo(ad.content_div);if(!ad.dataset.id){return}var ac=$.Deferred(),af={hda_ldda:ad.dataset.get("hda_ldda"),data_type:this.dataset_check_type,chrom:ad.view.chrom,retry:ae};$.getJSON(this.dataset.url(),af,function(ag){if(!ag||ag==="error"||ag.kind==="error"){ad.container_div.addClass("error");var ah=ad.show_message(o);if(ag.message){ah.append($("<a href='javascript:void(0);'></a>").text("View error").click(function(){Galaxy.modal.show({title:"Trackster Error",body:"<pre>"+ag.message+"</pre>",buttons:{Close:function(){Galaxy.modal.hide()}}})}));ah.append($("<span/>").text(" "));ah.append($("<a href='javascript:void(0);'></a>").text("Try again").click(function(){ad.init(true)}))}}else{if(ag==="no converter"){ad.container_div.addClass("error");ad.show_message(J)}else{if(ag==="no data"||(ag.data!==undefined&&(ag.data===null||ag.data.length===0))){ad.container_div.addClass("nodata");ad.show_message(G)}else{if(ag==="pending"){ad.container_div.addClass("pending");ad.show_message(w);setTimeout(function(){ad.init()},ad.data_query_wait)}else{if(ag==="data"||ag.status==="data"){if(ag.valid_chroms){ad.valid_chroms=ag.valid_chroms;ad.update_icons()}ad.tiles_div.text(U);if(ad.view.chrom){ad.tiles_div.text("");ad.tiles_div.css("height",ad.visible_height_px+"px");ad.enabled=true;$.when.apply($,ad.predraw_init()).done(function(){ac.resolve();ad.container_div.removeClass("nodata error pending");ad.request_draw()})}else{ac.resolve()}}}}}}});this.update_icons();return ac},predraw_init:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(af&&af.min&&af.max){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.config.set_param_default_value("min_value",ae);ac.config.set_param_default_value("max_value",ag);ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},get_drawables:function(){return this}});var N=function(ae,ad,ag){g.call(this,ae,ad,ag);var ac=this;m(ac.container_div,ac.drag_handle_class,".group",ac);this.filters_manager=new i.FiltersManager(this,("filters" in ag?ag.filters:null));this.data_manager.set("filters_manager",this.filters_manager);this.filters_available=false;this.tool=(ag.tool?new s(ab.extend(ag.tool,{track:this,tool_state:ag.tool_state})):null);this.tile_cache=new y.Cache(Q);this.left_offset=0;if(this.header_div){this.set_filters_manager(this.filters_manager);if(this.tool){var af=new aa({model:this.tool});af.render();this.dynamic_tool_div=af.$el;this.header_div.after(this.dynamic_tool_div)}}this.tiles_div=$("<div/>").addClass("tiles").appendTo(this.content_div);if(!this.prefs.content_visible){this.tiles_div.hide()}this.overlay_div=$("<div/>").addClass("overlay").appendTo(this.content_div);if(ag.mode){this.change_mode(ag.mode)}};q(N.prototype,r.prototype,g.prototype,{action_icons_def:g.prototype.action_icons_def.concat([{name:"show_more_rows_icon",title:"To minimize track height, not all feature rows are displayed. Click to display more rows.",css_class:"exclamation",on_click_fn:function(ac){$(".tooltip").remove();ac.slotters[ac.view.resolution_px_b].max_rows*=2;ac.request_draw({clear_tile_cache:true})},hide:true}]),copy:function(ac){var ad=this.to_dict();q(ad,{data_manager:this.data_manager});var ae=new this.constructor(this.view,ac,ad);ae.change_mode(this.mode);ae.enabled=this.enabled;return ae},set_filters_manager:function(ac){this.filters_manager=ac;this.header_div.after(this.filters_manager.parent_div)},to_dict:function(){return{track_type:this.get_type(),dataset:{id:this.dataset.id,hda_ldda:this.dataset.get("hda_ldda")},prefs:this.prefs,mode:this.mode,filters:this.filters_manager.to_dict(),tool_state:(this.tool?this.tool.state_dict():{})}},set_min_max:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(isNaN(parseFloat(ac.prefs.min_value))||isNaN(parseFloat(ac.prefs.max_value))){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},change_mode:function(ad){var ac=this;ac.mode=ad;ac.config.get("values").mode=ad;if(ad==="Auto"){this.data_manager.clear()}ac.request_draw({clear_tile_cache:true});this.action_icons.mode_icon.attr("title","Set display mode (now: "+ac.mode+")");return ac},update_icons:function(){var ac=this;if(ac.filters_available){ac.action_icons.filters_icon.show()}else{ac.action_icons.filters_icon.hide()}if(ac.tool){ac.action_icons.tools_icon.show();ac.action_icons.param_space_viz_icon.show()}else{ac.action_icons.tools_icon.hide();ac.action_icons.param_space_viz_icon.hide()}},_gen_tile_cache_key:function(ad,ac){return ad+"_"+ac},request_draw:function(ac){if(ac&&ac.clear_tile_cache){this.tile_cache.clear()}this.view.request_redraw(ac,this)},before_draw:function(){this.max_height_px=0},_draw:function(aq){if(!this.can_draw()){return}var an=aq&&aq.clear_after,al=this.view.low,ag=this.view.high,aj=ag-al,ad=this.view.container.width(),ap=this.view.resolution_px_b,af=1/ap;if(this.is_overview){al=this.view.max_low;ag=this.view.max_high;ap=ad/(view.max_high-view.max_low);af=1/ap}this.before_draw();this.tiles_div.children().addClass("remove");var ac=Math.floor(al/(af*S)),ak,am,ah,ai=[],ao=[];while((ac*S*af)<ag){ak=Math.floor(ac*S*af);am=new y.GenomeRegion({chrom:this.view.chrom,start:ak,end:Math.min(ak+Math.ceil(S*af),this.view.max_high)});ah=this.draw_helper(am,ap,aq);ai.push(ah);$.when(ah).then(function(ar){ao.push(ar)});ac+=1}if(!an){this.tiles_div.children(".remove").removeClass("remove").remove()}var ae=this;$.when.apply($,ai).then(function(){ae.tiles_div.children(".remove").remove();ao=ab.filter(ao,function(ar){return ar!==null});if(ao.length!==0){ae.postdraw_actions(ao,ad,ap,an)}})},_add_yaxis_label:function(af,ah){var ad=this,ag=(af==="max"?"top":"bottom"),ai=(af==="max"?"max":"min"),ac=(af==="max"?"max_value":"min_value"),ae=this.container_div.find(".yaxislabel."+ag);ah=ah||function(){ad.request_draw({clear_tile_cache:true})};if(ae.length!==0){ae.text(ad.prefs[ac])}else{ae=$("<div/>").text(ad.prefs[ac]).make_text_editable({num_cols:12,on_finish:function(aj){$(".tooltip").remove();ad.config.set_param_value(ac,aj);ah()},help_text:"Set "+ai+" value"}).addClass("yaxislabel "+ag).css("color",this.prefs.label_color);this.container_div.prepend(ae)}},postdraw_actions:function(af,ag,ai,ac){var ae=ab.filter(af,function(aj){return(aj instanceof M)});if(ae.length>0){this.max_height_px=0;var ad=this;ab.each(af,function(aj){if(!(aj instanceof M)){aj.html_elt.remove();ad.draw_helper(aj.region,ai,{force:true,mode:"Coverage"})}});ad._add_yaxis_label("max")}else{this.container_div.find(".yaxislabel").remove();var ah=ab.find(af,function(aj){return aj.has_icons});if(ah){ab.each(af,function(aj){if(!aj.has_icons){aj.html_elt.css("padding-top",F)}})}}},get_mode:function(ac){return this.mode},update_auto_mode:function(ac){},_get_drawables:function(){return[this]},draw_helper:function(al,an,ao){if(!ao){ao={}}var ad=ao.force,ai=ao.mode||this.mode,af=1/an,ae=this,ag=this._get_drawables(),am=this._gen_tile_cache_key(an,al),ah=function(ap){return(ap&&"track" in ap)};var aj=(ad?undefined:ae.tile_cache.get_elt(am));if(aj){if(ah(aj)){ae.show_tile(aj,an)}return aj}if(ao.data_fetch===false){return null}var ak=function(){var ap=(ab.find(C,function(ar){return ar===ai})?"Coverage":ai);var aq=ab.map(ag,function(ar){return ar.data_manager.get_data(al,ap,af,ae.data_url_extra_params)});if(view.reference_track){aq.push(view.reference_track.data_manager.get_data(al,ai,af,view.reference_track.data_url_extra_params))}return aq};var ac=$.Deferred();ae.tile_cache.set_elt(am,ac);$.when.apply($,ak()).then(function(){var ap=ak(),av=ap,aB;if(view.reference_track){aB=view.reference_track.data_manager.subset_entry(ap.pop(),al)}var aw=[],at=[];ab.each(ag,function(aG,aD){var aF=aG.mode,aE=av[aD];if(aF==="Auto"){aF=aG.get_mode(aE);aG.update_auto_mode(aF)}aw.push(aF);at.push(aG.get_canvas_height(aE,aF,an,aq))});var au=ae.view.canvas_manager.new_canvas(),ax=al.get("start"),aC=al.get("end"),ar=0,aq=Math.ceil((aC-ax)*an)+ae.left_offset,az=ab.max(at),ay;au.width=aq;au.height=(ao.height||az);var aA=au.getContext("2d");aA.translate(ae.left_offset,0);if(ag.length>1){aA.globalAlpha=0.5;aA.globalCompositeOperation="source-over"}ab.each(ag,function(aE,aD){ay=aE.draw_tile(av[aD],aA,aw[aD],al,an,aB)});if(ay!==undefined){ae.tile_cache.set_elt(am,ay);ae.show_tile(ay,an)}ac.resolve(ay)});return ac},get_canvas_height:function(ac,ae,af,ad){return this.visible_height_px},_draw_line_track_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.LinePainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new M(this,ag,ai,af,ac.data)},draw_tile:function(ac,ad,ag,af,ah,ae){},show_tile:function(ae,ah){var ad=this,ac=ae.html_elt;ae.predisplay_actions();var ag=(ae.low-(this.is_overview?this.view.max_low:this.view.low))*ah;if(this.left_offset){ag-=this.left_offset}ac.css("left",ag);if(ac.hasClass("remove")){ac.removeClass("remove")}else{this.tiles_div.append(ac)}ac.css("height","auto");this.max_height_px=Math.max(this.max_height_px,ac.height()-2);ac.parent().children().css("height",this.max_height_px+"px");var af=this.max_height_px;if(this.visible_height_px!==0){af=Math.min(this.max_height_px,this.visible_height_px)}this.tiles_div.css("height",af+"px")},tool_region_and_parameters_str:function(af){var ac=this,ae=(af!==undefined?af.toString():"all"),ad=ab.values(ac.tool.get_inputs_dict()).join(", ");return" - region=["+ae+"], parameters=["+ad+"]"},data_and_mode_compatible:function(ac,ad){if(ad==="Auto"){return true}else{if(ad==="Coverage"){return ac.dataset_type==="bigwig"}else{if(ac.dataset_type==="bigwig"||ac.extra_info==="no_detail"){return false}else{return true}}}},can_subset:function(ac){if(ac.message||ac.extra_info==="no_detail"){return false}else{if(ac.dataset_type==="bigwig"){return(ac.data[1][0]-ac.data[0][0]===1)}}return true},init_for_tool_data:function(){this.data_manager.set("data_type","raw_data");this.data_query_wait=1000;this.dataset_check_type="state"}});var W=function(ad,ac){var ae={resize:false};g.call(this,ad,ac,ae);this.container_div.addClass("label-track")};q(W.prototype,g.prototype,{build_header_div:function(){},init:function(){this.enabled=true},predraw_init:function(){},_draw:function(ag){var ae=this.view,af=ae.high-ae.low,aj=Math.floor(Math.pow(10,Math.floor(Math.log(af)/Math.log(10)))),ac=Math.floor(ae.low/aj)*aj,ah=this.view.container.width(),ad=$("<div/>").addClass("label-container");while(ac<ae.high){var ai=(ac-ae.low)/af*ah;ad.append($("<div/>").addClass("label").text(commatize(ac)).css({left:ai}));ac+=aj}this.content_div.children(":first").remove();this.content_div.append(ad)}});var f=function(ad,ac,ag){N.call(this,ad,ac,ag);this.drawables=[];if("drawables" in ag){var af;for(var ae=0;ae<ag.drawables.length;ae++){af=ag.drawables[ae];this.drawables[ae]=p(af,ad,null);if(af.left_offset>this.left_offset){this.left_offset=af.left_offset}}this.enabled=true}ab.each(this.drawables,function(ah){if(ah instanceof d||ah instanceof T){ah.change_mode("Coverage")}});this.update_icons();this.obj_type="CompositeTrack"};q(f.prototype,N.prototype,{display_modes:C,action_icons_def:[{name:"composite_icon",title:"Show individual tracks",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_group()}}].concat(N.prototype.action_icons_def),to_dict:A.prototype.to_dict,add_drawable:A.prototype.add_drawable,unpack_drawables:A.prototype.unpack_drawables,change_mode:function(ac){N.prototype.change_mode.call(this,ac);for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad].change_mode(ac)}},init:function(){var ae=[];for(var ad=0;ad<this.drawables.length;ad++){ae.push(this.drawables[ad].init())}var ac=this;$.when.apply($,ae).then(function(){ac.enabled=true;ac.request_draw()})},update_icons:function(){this.action_icons.filters_icon.hide();this.action_icons.tools_icon.hide();this.action_icons.param_space_viz_icon.hide()},can_draw:r.prototype.can_draw,_get_drawables:function(){return this.drawables},show_group:function(){var af=new P(this.view,this.container,{name:this.prefs.name}),ac;for(var ae=0;ae<this.drawables.length;ae++){ac=this.drawables[ae];ac.update_icons();af.add_drawable(ac);ac.container=af;af.content_div.append(ac.container_div)}var ad=this.container.replace_drawable(this,af,true);af.request_draw({clear_tile_cache:true})},before_draw:function(){N.prototype.before_draw.call(this);var ad=ab.min(ab.map(this.drawables,function(ae){return ae.prefs.min_value})),ac=ab.max(ab.map(this.drawables,function(ae){return ae.prefs.max_value}));this.prefs.min_value=ad;this.prefs.max_value=ac;ab.each(this.drawables,function(ae){ae.prefs.min_value=ad;ae.prefs.max_value=ac})},update_all_min_max:function(){var ac=this;ab.each(this.drawables,function(ad){ad.prefs.min_value=ac.prefs.min_value;ad.prefs.max_value=ac.prefs.max_value});this.request_draw({clear_tile_cache:true})},postdraw_actions:function(ai,ac,al,ah){N.prototype.postdraw_actions.call(this,ai,ac,al,ah);var ag=-1,ae;for(ae=0;ae<ai.length;ae++){var aj=ai[ae].html_elt.find("canvas").height();if(aj>ag){ag=aj}}for(ae=0;ae<ai.length;ae++){var af=ai[ae];if(af.html_elt.find("canvas").height()!==ag){this.draw_helper(af.region,al,{force:true,height:ag});af.html_elt.remove()}}var ad=this,ak=function(){ad.update_all_min_max()};this._add_yaxis_label("min",ak);this._add_yaxis_label("max",ak)}});var D=function(ac){N.call(this,ac,{content_div:ac.top_labeltrack},{resize:false});this.left_offset=ac.canvas_manager.char_width_px;this.container_div.addClass("reference-track");this.data_url=galaxy_config.root+"api/genomes/"+this.view.dbkey;this.data_url_extra_params={reference:true};this.data_manager=new y.GenomeReferenceDataManager({data_url:this.data_url,can_subset:this.can_subset});this.hide_contents()};q(D.prototype,r.prototype,N.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"height",type:"int",default_value:13,hidden:true}]),build_header_div:function(){},init:function(){this.data_manager.clear();this.enabled=true},predraw_init:function(){},can_draw:r.prototype.can_draw,draw_helper:function(ad,ae,ac){if(ae>this.view.canvas_manager.char_width_px){this.tiles_div.show();return N.prototype.draw_helper.call(this,ad,ae,ac)}else{this.tiles_div.hide();return null}},can_subset:function(ac){return true},draw_tile:function(ae,ak,af,ah,al){var ad=this.data_manager.subset_entry(ae,ah),aj=ad.data;var ac=ak.canvas;ak.font=ak.canvas.manager.default_font;ak.textAlign="center";for(var ag=0,ai=aj.length;ag<ai;ag++){ak.fillStyle=this.view.get_base_color(aj[ag]);ak.fillText(aj[ag],Math.floor(ag*al),10)}return new c(this,ah,al,ac,ad)}});var h=function(ad,ac,ae){this.mode="Histogram";N.call(this,ad,ac,ae)};q(h.prototype,r.prototype,N.prototype,{display_modes:C,config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Color",type:"color"},{key:"min_value",label:"Min Value",type:"float",default_value:undefined},{key:"max_value",label:"Max Value",type:"float",default_value:undefined},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:30,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},before_draw:function(){},draw_tile:function(ac,ad,af,ae,ag){return this._draw_line_track_tile(ac,ad,af,ae,ag)},can_subset:function(ac){return(ac.data[1][0]-ac.data[0][0]===1)},postdraw_actions:function(ad,ae,af,ac){this._add_yaxis_label("max");this._add_yaxis_label("min")}});var t=function(ad,ac,ae){this.mode="Heatmap";N.call(this,ad,ac,ae)};q(t.prototype,r.prototype,N.prototype,{display_modes:["Heatmap"],config_params:ab.union(r.prototype.config_params,[{key:"pos_color",label:"Positive Color",type:"color",default_value:"#FF8C00"},{key:"neg_color",label:"Negative Color",type:"color",default_value:"#4169E1"},{key:"min_value",label:"Min Value",type:"float",default_value:-1},{key:"max_value",label:"Max Value",type:"float",default_value:1},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:500,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.DiagonalHeatmapPainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new c(this,ag,ai,af,ac.data)}});var d=function(ad,ac,ae){N.call(this,ad,ac,ae);this.container_div.addClass("feature-track");this.summary_draw_height=30;this.slotters={};this.start_end_dct={};this.left_offset=200;this.set_painter_from_config()};q(d.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true,help:"Show the number of items in each bin when drawing summary histogram"},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"connector_style",label:"Connector style",type:"select",default_value:"fishbones",options:[{label:"Line with arrows",value:"fishbone"},{label:"Arcs",value:"arcs"}]},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.set_painter_from_config();this.request_draw({clear_tile_cache:true})},set_painter_from_config:function(){if(this.config.get("values").connector_style==="arcs"){this.painter=L.ArcLinkedFeaturePainter}else{this.painter=L.LinkedFeaturePainter}},postdraw_actions:function(am,ae,an,al){N.prototype.postdraw_actions.call(this,am,ae,an,al);var ag=this,ah;if(ag.filters_manager){var af=ag.filters_manager.filters,aj;for(aj=0;aj<af.length;aj++){af[aj].update_ui_elt()}var ai=false,ak,ad;for(ah=0;ah<am.length;ah++){if(am[ah].data.length){ak=am[ah].data[0];for(aj=0;aj<af.length;aj++){ad=af[aj];if(ad.applies_to(ak)&&ad.min!==ad.max){ai=true;break}}}}if(ag.filters_available!==ai){ag.filters_available=ai;if(!ag.filters_available){ag.filters_manager.hide()}ag.update_icons()}}if(am[0] instanceof O){var ac=true;for(ah=0;ah<am.length;ah++){if(!am[ah].all_slotted){ac=false;break}}if(!ac){this.action_icons.show_more_rows_icon.show()}else{this.action_icons.show_more_rows_icon.hide()}}else{this.action_icons.show_more_rows_icon.hide()}},update_auto_mode:function(ac){if(this.mode==="Auto"){if(ac==="no_detail"){ac="feature spans"}this.action_icons.mode_icon.attr("title","Set display mode (now: Auto/"+ac+")")}},incremental_slots:function(ag,ac,af){var ad=this.view.canvas_manager.dummy_context,ae=this.slotters[ag];if(!ae||(ae.mode!==af)){ae=new (u.FeatureSlotter)(ag,af,B,function(ah){return ad.measureText(ah)});this.slotters[ag]=ae}return ae.slot_features(ac)},get_mode:function(ac){if(ac.extra_info==="no_detail"||this.is_overview){mode="no_detail"}else{if(this.view.high-this.view.low>I){mode="Squish"}else{mode="Pack"}}return mode},get_canvas_height:function(ac,ag,ah,ad){if(ag==="Coverage"||ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var af=this.incremental_slots(ah,ac.data,ag);var ae=new (this.painter)(null,null,null,this.prefs,ag);return Math.max(this.min_height_px,ae.get_required_height(af,ad))}},draw_tile:function(am,aq,ao,af,aj,ae){var ap=this,ad=aq.canvas,ax=af.get("start"),ac=af.get("end"),ag=this.left_offset;if(am.dataset_type==="bigwig"){return this._draw_line_track_tile(am,aq,ao,af,aj)}var ai=[],an=this.slotters[aj].slots;all_slotted=true;if(am.data){var ak=this.filters_manager.filters;for(var ar=0,au=am.data.length;ar<au;ar++){var ah=am.data[ar];var at=false;var al;for(var aw=0,aB=ak.length;aw<aB;aw++){al=ak[aw];al.update_attrs(ah);if(!al.keep(ah)){at=true;break}}if(!at){ai.push(ah);if(!(ah[0] in an)){all_slotted=false}}}}var aA=(this.filters_manager.alpha_filter?new E(this.filters_manager.alpha_filter):null),ay=(this.filters_manager.height_filter?new E(this.filters_manager.height_filter):null),az=new (this.painter)(ai,ax,ac,this.prefs,ao,aA,ay,ae,function(aC){return ap.view.get_base_color(aC)});var av=null;aq.fillStyle=this.prefs.block_color;aq.font=aq.canvas.manager.default_font;aq.textAlign="right";if(am.data){av=az.draw(aq,ad.width,ad.height,aj,an);av.translation=-ag}return new O(ap,af,aj,ad,am.data,ao,am.message,all_slotted,av)}});var Z=function(ad,ac,ae){N.call(this,ad,ac,ae);this.painter=L.VariantPainter;this.summary_draw_height=30;this.left_offset=30};q(Z.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Histogram color",type:"color"},{key:"show_sample_data",label:"Show sample data",type:"bool",default_value:true},{key:"show_labels",label:"Show summary and sample labels",type:"bool",default_value:true},{key:"summary_height",label:"Locus summary height",type:"float",default_value:20},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,af,ah,ag,ai){if(ac.dataset_type==="bigwig"){return this._draw_line_track_tile(ac,af,"Histogram",ag,ai)}else{var ae=this.view,ad=new (this.painter)(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah,function(aj){return ae.get_base_color(aj)});ad.draw(af,af.canvas.width,af.canvas.height,ai);return new c(this,ag,ai,af.canvas,ac.data)}},get_canvas_height:function(ac,ag,ah,ae){if(ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var ad=(this.dataset.get_metadata("sample_names")?this.dataset.get_metadata("sample_names").length:0);if(ad===0&&ac.data.length!==0){ad=ac.data[0][7].match(/,/g);if(ad===null){ad=1}else{ad=ad.length+1}}var af=new (this.painter)(null,null,null,this.prefs,ag);return af.get_required_height(ad)}},predraw_init:function(){var ac=[g.prototype.predraw_init.call(this)];if(!this.dataset.get_metadata("sample_names")){ac.push(this.dataset.fetch())}return ac},postdraw_actions:function(ag,ah,aj,ad){N.prototype.postdraw_actions.call(this,ag,ah,aj,ad);var af=ab.filter(ag,function(ak){return(ak instanceof M)});var ae=this.dataset.get_metadata("sample_names");if(af.length===0&&this.prefs.show_labels&&ae&&ae.length>1){var ac;if(this.container_div.find(".yaxislabel.variant").length===0){ac=this.prefs.summary_height/2;this.tiles_div.prepend($("<div/>").text("Summary").addClass("yaxislabel variant top").css({"font-size":ac+"px",top:(this.prefs.summary_height-ac)/2+"px"}));if(this.prefs.show_sample_data){var ai=ae.join("<br/>");this.tiles_div.prepend($("<div/>").html(ai).addClass("yaxislabel variant top sample").css({top:this.prefs.summary_height,}))}}ac=(this.mode==="Squish"?5:10)+"px";$(this.tiles_div).find(".sample").css({"font-size":ac,"line-height":ac});$(this.tiles_div).find(".yaxislabel").css("color",this.prefs.label_color)}else{this.container_div.find(".yaxislabel.variant").remove()}}});var T=function(ad,ac,ae){d.call(this,ad,ac,ae);this.painter=(ad.reference_track?L.RefBasedReadPainter:L.ReadPainter);this.update_icons()};q(T.prototype,r.prototype,N.prototype,d.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block and sense strand color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_insertions",label:"Show insertions",type:"bool",default_value:false},{key:"show_differences",label:"Show differences only",type:"bool",default_value:true},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})}});var e={CompositeTrack:f,DrawableGroup:P,DiagonalHeatmapTrack:t,FeatureTrack:d,LineTrack:h,ReadTrack:T,VariantTrack:Z,VcfTrack:Z};var p=function(ae,ad,ac){if("copy" in ae){return ae.copy(ac)}else{var af=ae.obj_type;if(!af){af=ae.track_type}return new e[af](ad,ac,ae)}};return{TracksterView:Y,DrawableGroup:P,LineTrack:h,FeatureTrack:d,DiagonalHeatmapTrack:t,ReadTrack:T,VariantTrack:Z,CompositeTrack:f,object_from_template:p}}); \ No newline at end of file +define(["libs/underscore","viz/visualization","viz/trackster/util","viz/trackster/slotting","viz/trackster/painters","viz/trackster/filters","mvc/data","mvc/tools"],function(ab,y,l,u,L,i,X,R){var q=ab.extend;var n={};var k=function(ac,ad){n[ac.attr("id")]=ad};var m=function(ac,ad,af,ae){af=".group";n[ac.attr("id")]=ae;ac.bind("drag",{handle:"."+ad,relative:true},function(an,ao){var am=$(this),ar=$(this).parent(),aj=ar.children(".track,.group"),al=n[$(this).attr("id")],ai,ah,ap,ag,ak;ah=$(this).parents(af);if(ah.length!==0){ap=ah.position().top;ag=ap+ah.outerHeight();var aq=n[ah.attr("id")];if(ao.offsetY<ap){$(this).insertBefore(ah);aq.remove_drawable(al);aq.container.add_drawable_before(al,aq);return}else{if(ao.offsetY>ag){$(this).insertAfter(ah);aq.remove_drawable(al);aq.container.add_drawable(al);return}}}ah=null;for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));ap=ai.position().top;ag=ap+ai.outerHeight();if(ai.is(af)&&this!==ai.get(0)&&ao.offsetY>=ap&&ao.offsetY<=ag){if(ao.offsetY-ap<ag-ao.offsetY){ai.find(".content-div").prepend(this)}else{ai.find(".content-div").append(this)}if(al.container){al.container.remove_drawable(al)}n[ai.attr("id")].add_drawable(al);return}}for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));if(ao.offsetY<ai.position().top&&!(ai.hasClass("reference-track")||ai.hasClass("intro"))){break}}if(ak===aj.length){if(this!==aj.get(ak-1)){ar.append(this);n[ar.attr("id")].move_drawable(al,ak)}}else{if(this!==aj.get(ak)){$(this).insertBefore(aj.get(ak));n[ar.attr("id")].move_drawable(al,(ao.deltaY>0?ak-1:ak))}}}).bind("dragstart",function(){$(this).addClass("dragging")}).bind("dragend",function(){$(this).removeClass("dragging")})};var F=20,B=100,I=12000,S=400,K=5000,x=100,o="Cannot display dataset due to an error. ",J="A converter for this dataset is not installed. Please check your datatypes_conf.xml file.",G="No data for this chrom/contig.",w="Preparing data. This can take a while for a large dataset. If the visualization is saved and closed, preparation will continue in the background.",z="Tool cannot be rerun: ",b="Loading data...",U="Ready for display",Q=10,H=20,C=["Histogram","Line","Filled","Intensity"];function V(ad,ac){if(!ac){ac=0}var ae=Math.pow(10,ac);return Math.round(ad*ae)/ae}var r=function(ad,ac,af){if(!r.id_counter){r.id_counter=0}this.id=r.id_counter++;this.view=ad;this.container=ac;this.drag_handle_class=af.drag_handle_class;this.is_overview=false;this.action_icons={};this.config=new j({params:this.config_params,onchange:this.config_onchange,saved_values:af.prefs});this.prefs=this.config.get("values");if(!this.prefs.name){this.prefs.name=af.name}if(this.config_onchange){this.config.on("change:values",this.config_onchange,this)}this.container_div=this.build_container_div();this.header_div=this.build_header_div();if(this.header_div){this.container_div.append(this.header_div);this.icons_div=$("<div/>").addClass("track-icons").hide().appendTo(this.header_div);this.build_action_icons(this.action_icons_def);this.header_div.append($("<div style='clear: both'/>"));this.header_div.dblclick(function(ag){ag.stopPropagation()});var ae=this;this.container_div.hover(function(){ae.icons_div.show()},function(){ae.icons_div.hide()});$("<div style='clear: both'/>").appendTo(this.container_div)}};r.prototype.action_icons_def=[{name:"toggle_icon",title:"Hide/show content",css_class:"toggle",on_click_fn:function(ac){if(ac.prefs.content_visible){ac.action_icons.toggle_icon.addClass("toggle-expand").removeClass("toggle");ac.hide_contents();ac.prefs.content_visible=false}else{ac.action_icons.toggle_icon.addClass("toggle").removeClass("toggle-expand");ac.prefs.content_visible=true;ac.show_contents()}}},{name:"settings_icon",title:"Edit settings",css_class:"gear",on_click_fn:function(ad){var ac=new a({model:ad.config});ac.render()}},{name:"remove_icon",title:"Remove",css_class:"remove-icon",on_click_fn:function(ac){$(".tooltip").remove();ac.remove()}}];q(r.prototype,{config_params:[{key:"name",label:"Name",type:"text",default_value:""},{key:"content_visible",type:"bool",default_value:true,hidden:true}],config_onchange:function(){this.track.set_name(this.track.config.get("values").name)},init:function(){},changed:function(){this.view.changed()},can_draw:function(){if(this.enabled&&this.prefs.content_visible){return true}return false},request_draw:function(){},_draw:function(ac){},to_dict:function(){},set_name:function(ac){this.old_name=this.prefs.name;this.prefs.name=ac;this.name_div.text(this.prefs.name)},revert_name:function(){if(this.old_name){this.prefs.name=this.old_name;this.name_div.text(this.prefs.name)}},remove:function(){this.changed();this.container.remove_drawable(this);var ac=this.view;this.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})},build_container_div:function(){},build_header_div:function(){},add_action_icon:function(ad,ai,ah,ag,ac,af){var ae=this;this.action_icons[ad]=$("<a/>").attr("title",ai).addClass("icon-button").addClass(ah).tooltip().click(function(){ag(ae)}).appendTo(this.icons_div);if(af){this.action_icons[ad].hide()}},build_action_icons:function(ac){var ae;for(var ad=0;ad<ac.length;ad++){ae=ac[ad];this.add_action_icon(ae.name,ae.title,ae.css_class,ae.on_click_fn,ae.prepend,ae.hide)}},update_icons:function(){},hide_contents:function(){},show_contents:function(){},get_drawables:function(){}});var A=function(ad,ac,ae){r.call(this,ad,ac,ae);this.obj_type=ae.obj_type;this.drawables=[]};q(A.prototype,r.prototype,{unpack_drawables:function(ae){this.drawables=[];var ad;for(var ac=0;ac<ae.length;ac++){ad=p(ae[ac],this.view,this);this.add_drawable(ad)}},init:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].init()}},_draw:function(ac){for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad]._draw(ac)}},to_dict:function(){var ad=[];for(var ac=0;ac<this.drawables.length;ac++){ad.push(this.drawables[ac].to_dict())}return{prefs:this.prefs,obj_type:this.obj_type,drawables:ad}},add_drawable:function(ac){this.drawables.push(ac);ac.container=this;this.changed()},add_drawable_before:function(ae,ac){this.changed();var ad=this.drawables.indexOf(ac);if(ad!==-1){this.drawables.splice(ad,0,ae);return true}return false},replace_drawable:function(ae,ac,ad){var af=this.drawables.indexOf(ae);if(af!==-1){this.drawables[af]=ac;if(ad){ae.container_div.replaceWith(ac.container_div)}this.changed()}return af},remove_drawable:function(ad){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);ad.container=null;this.changed();return true}return false},move_drawable:function(ad,ae){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);this.drawables.splice(ae,0,ad);this.changed();return true}return false},get_drawables:function(){return this.drawables},get_tracks:function(af){var ac=this.drawables.slice(0),ad=[],ae;while(ac.length!==0){ae=ac.shift();if(ae instanceof af){ad.push(ae)}else{if(ae.drawables){ac=ac.concat(ae.drawables)}}}return ad}});var P=function(ad,ac,af){q(af,{obj_type:"DrawableGroup",drag_handle_class:"group-handle"});A.call(this,ad,ac,af);this.content_div=$("<div/>").addClass("content-div").attr("id","group_"+this.id+"_content_div").appendTo(this.container_div);k(this.container_div,this);k(this.content_div,this);m(this.container_div,this.drag_handle_class,".group",this);this.filters_manager=new i.FiltersManager(this);this.header_div.after(this.filters_manager.parent_div);this.saved_filters_managers=[];if("drawables" in af){this.unpack_drawables(af.drawables)}if("filters" in af){var ae=this.filters_manager;this.filters_manager=new i.FiltersManager(this,af.filters);ae.parent_div.replaceWith(this.filters_manager.parent_div);if(af.filters.visible){this.setup_multitrack_filtering()}}};q(P.prototype,r.prototype,A.prototype,{action_icons_def:[r.prototype.action_icons_def[0],r.prototype.action_icons_def[1],{name:"composite_icon",title:"Show composite track",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_composite_track()}},{name:"filters_icon",title:"Filters",css_class:"filters-icon",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters();ac._restore_filter_managers()}else{ac.setup_multitrack_filtering();ac.request_draw({clear_tile_cache:true})}ac.filters_manager.toggle()}},r.prototype.action_icons_def[2]],build_container_div:function(){var ac=$("<div/>").addClass("group").attr("id","group_"+this.id);if(this.container){this.container.content_div.append(ac)}return ac},build_header_div:function(){var ac=$("<div/>").addClass("track-header");ac.append($("<div/>").addClass(this.drag_handle_class));this.name_div=$("<div/>").addClass("track-name").text(this.prefs.name).appendTo(ac);return ac},hide_contents:function(){this.tiles_div.hide()},show_contents:function(){this.tiles_div.show();this.request_draw()},update_icons:function(){var ae=this.drawables.length;if(ae===0){this.action_icons.composite_icon.hide();this.action_icons.filters_icon.hide()}else{if(ae===1){if(this.drawables[0] instanceof f){this.action_icons.composite_icon.show()}this.action_icons.filters_icon.hide()}else{var al,ak,ai,ao=true,ag=this.drawables[0].get_type(),ac=0;for(al=0;al<ae;al++){ai=this.drawables[al];if(ai.get_type()!==ag){can_composite=false;break}if(ai instanceof d){ac++}}if(ao||ac===1){this.action_icons.composite_icon.show()}else{this.action_icons.composite_icon.hide();$(".tooltip").remove()}if(ac>1&&ac===this.drawables.length){var ap={},ad;ai=this.drawables[0];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];ap[ad.name]=[ad]}for(al=1;al<this.drawables.length;al++){ai=this.drawables[al];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];if(ad.name in ap){ap[ad.name].push(ad)}}}this.filters_manager.remove_all();var af,ah,aj,am;for(var an in ap){af=ap[an];if(af.length===ac){ah=new i.NumberFilter({name:af[0].name,index:af[0].index});this.filters_manager.add_filter(ah)}}if(this.filters_manager.filters.length>0){this.action_icons.filters_icon.show()}else{this.action_icons.filters_icon.hide()}}else{this.action_icons.filters_icon.hide()}}}},_restore_filter_managers:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].filters_manager=this.saved_filters_managers[ac]}this.saved_filters_managers=[]},setup_multitrack_filtering:function(){if(this.filters_manager.filters.length>0){this.saved_filters_managers=[];for(var ac=0;ac<this.drawables.length;ac++){drawable=this.drawables[ac];this.saved_filters_managers.push(drawable.filters_manager);drawable.filters_manager=this.filters_manager}}this.filters_manager.init_filters()},show_composite_track:function(){var ad=new f(this.view,this.view,{name:this.prefs.name,drawables:this.drawables});var ac=this.container.replace_drawable(this,ad,true);ad.request_draw()},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);this.update_icons()},remove_drawable:function(ac){A.prototype.remove_drawable.call(this,ac);this.update_icons()},to_dict:function(){if(this.filters_manager.visible()){this._restore_filter_managers()}var ac=q(A.prototype.to_dict.call(this),{filters:this.filters_manager.to_dict()});if(this.filters_manager.visible()){this.setup_multitrack_filtering()}return ac},request_draw:function(ac){ab.each(this.drawables,function(ad){ad.request_draw(ac)})}});var Y=Backbone.View.extend({initialize:function(ac){q(ac,{obj_type:"View"});A.call(this,"View",ac.container,ac);this.chrom=null;this.vis_id=ac.vis_id;this.dbkey=ac.dbkey;this.label_tracks=[];this.tracks_to_be_redrawn=[];this.max_low=0;this.max_high=0;this.zoom_factor=3;this.min_separation=30;this.has_changes=false;this.load_chroms_deferred=null;this.render();this.canvas_manager=new y.CanvasManager(this.container.get(0).ownerDocument);this.reset();this.config=new j({track:this,params:[{key:"a_color",label:"A Color",type:"color",default_value:"#FF0000"},{key:"c_color",label:"C Color",type:"color",default_value:"#00FF00"},{key:"g_color",label:"G Color",type:"color",default_value:"#0000FF"},{key:"t_color",label:"T Color",type:"color",default_value:"#FF00FF"},{key:"n_color",label:"N Color",type:"color",default_value:"#AAAAAA"}],saved_values:ac.prefs,onchange:function(){track.request_redraw({clear_tile_cache:true})}})},render:function(){this.requested_redraw=false;var ae=this.container,ac=this;this.top_container=$("<div/>").addClass("top-container").appendTo(ae);this.browser_content_div=$("<div/>").addClass("content").appendTo(ae);this.bottom_container=$("<div/>").addClass("bottom-container").appendTo(ae);this.top_labeltrack=$("<div/>").addClass("top-labeltrack").appendTo(this.top_container);this.viewport_container=$("<div/>").addClass("viewport-container").attr("id","viewport-container").appendTo(this.browser_content_div);this.content_div=this.viewport_container;k(this.viewport_container,ac);this.intro_div=$("<div/>").addClass("intro").appendTo(this.viewport_container).hide();var af=$("<div/>").text("Add Datasets to Visualization").addClass("action-button").appendTo(this.intro_div).click(function(){y.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":ac.dbkey},function(ag){ab.each(ag,function(ah){ac.add_drawable(p(ah,ac,ac))})})});this.nav_labeltrack=$("<div/>").addClass("nav-labeltrack").appendTo(this.bottom_container);this.nav_container=$("<div/>").addClass("trackster-nav-container").prependTo(this.top_container);this.nav=$("<div/>").addClass("trackster-nav").appendTo(this.nav_container);this.overview=$("<div/>").addClass("overview").appendTo(this.bottom_container);this.overview_viewport=$("<div/>").addClass("overview-viewport").appendTo(this.overview);this.overview_close=$("<a/>").attr("title","Close overview").addClass("icon-button overview-close tooltip").hide().appendTo(this.overview_viewport);this.overview_highlight=$("<div/>").addClass("overview-highlight").hide().appendTo(this.overview_viewport);this.overview_box_background=$("<div/>").addClass("overview-boxback").appendTo(this.overview_viewport);this.overview_box=$("<div/>").addClass("overview-box").appendTo(this.overview_viewport);this.default_overview_height=this.overview_box.height();this.nav_controls=$("<div/>").addClass("nav-controls").appendTo(this.nav);this.chrom_select=$("<select/>").attr({name:"chrom"}).addClass("chrom-nav").append("<option value=''>Loading</option>").appendTo(this.nav_controls);var ad=function(ag){if(ag.type==="focusout"||(ag.keyCode||ag.which)===13||(ag.keyCode||ag.which)===27){if((ag.keyCode||ag.which)!==27){ac.go_to($(this).val())}$(this).hide();$(this).val("");ac.location_span.show();ac.chrom_select.show()}ag.stopPropagation()};this.nav_input=$("<input/>").addClass("nav-input").hide().bind("keyup focusout",ad).appendTo(this.nav_controls);this.location_span=$("<span/>").addClass("location").attr("title","Click to change location").tooltip({placement:"bottom"}).appendTo(this.nav_controls);this.location_span.click(function(){ac.location_span.hide();ac.chrom_select.hide();ac.nav_input.val(ac.chrom+":"+ac.low+"-"+ac.high);ac.nav_input.css("display","inline-block");ac.nav_input.select();ac.nav_input.focus();ac.nav_input.autocomplete({source:function(ai,ag){var aj=[],ah=$.map(ac.get_tracks(d),function(ak){return ak.data_manager.search_features(ai.term).success(function(al){aj=aj.concat(al)})});$.when.apply($,ah).done(function(){ag($.map(aj,function(ak){return{label:ak[0],value:ak[1]}}))})}})});if(this.vis_id!==undefined){this.hidden_input=$("<input/>").attr("type","hidden").val(this.vis_id).appendTo(this.nav_controls)}this.zo_link=$("<a/>").attr("id","zoom-out").attr("title","Zoom out").tooltip({placement:"bottom"}).click(function(){ac.zoom_out()}).appendTo(this.nav_controls);this.zi_link=$("<a/>").attr("id","zoom-in").attr("title","Zoom in").tooltip({placement:"bottom"}).click(function(){ac.zoom_in()}).appendTo(this.nav_controls);this.load_chroms_deferred=this.load_chroms({low:0});this.chrom_select.bind("change",function(){ac.change_chrom(ac.chrom_select.val())});this.browser_content_div.click(function(ag){$(this).find("input").trigger("blur")});this.browser_content_div.bind("dblclick",function(ag){ac.zoom_in(ag.pageX,this.viewport_container)});this.overview_box.bind("dragstart",function(ag,ah){this.current_x=ah.offsetX}).bind("drag",function(ag,ai){var aj=ai.offsetX-this.current_x;this.current_x=ai.offsetX;var ah=Math.round(aj/ac.viewport_container.width()*(ac.max_high-ac.max_low));ac.move_delta(-ah)});this.overview_close.click(function(){ac.reset_overview()});this.viewport_container.bind("draginit",function(ag,ah){if(ag.clientX>ac.viewport_container.width()-16){return false}}).bind("dragstart",function(ag,ah){ah.original_low=ac.low;ah.current_height=ag.clientY;ah.current_x=ah.offsetX}).bind("drag",function(ai,ak){var ag=$(this);var al=ak.offsetX-ak.current_x;var ah=ag.scrollTop()-(ai.clientY-ak.current_height);ag.scrollTop(ah);ak.current_height=ai.clientY;ak.current_x=ak.offsetX;var aj=Math.round(al/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}).bind("mousewheel",function(ai,ak,ah,ag){if(ah){ah*=50;var aj=Math.round(-ah/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}});this.top_labeltrack.bind("dragstart",function(ag,ah){return $("<div/>").addClass("zoom-area").css("height",ac.browser_content_div.height()+ac.top_labeltrack.height()+ac.nav_labeltrack.height()+1).appendTo($(this))}).bind("drag",function(ak,al){$(al.proxy).css({left:Math.min(ak.pageX,al.startX)-ac.container.offset().left,width:Math.abs(ak.pageX-al.startX)});var ah=Math.min(ak.pageX,al.startX)-ac.container.offset().left,ag=Math.max(ak.pageX,al.startX)-ac.container.offset().left,aj=(ac.high-ac.low),ai=ac.viewport_container.width();ac.update_location(Math.round(ah/ai*aj)+ac.low,Math.round(ag/ai*aj)+ac.low)}).bind("dragend",function(al,am){var ah=Math.min(al.pageX,am.startX),ag=Math.max(al.pageX,am.startX),aj=(ac.high-ac.low),ai=ac.viewport_container.width(),ak=ac.low;ac.low=Math.round(ah/ai*aj)+ak;ac.high=Math.round(ag/ai*aj)+ak;$(am.proxy).remove();ac.request_redraw()});this.add_label_track(new W(this,{content_div:this.top_labeltrack}));this.add_label_track(new W(this,{content_div:this.nav_labeltrack}));$(window).bind("resize",function(){if(this.resize_timer){clearTimeout(this.resize_timer)}this.resize_timer=setTimeout(function(){ac.resize_window()},500)});$(document).bind("redraw",function(){ac.redraw()});this.reset();$(window).trigger("resize")},get_base_color:function(ac){return this.config.get("values")[ac.toLowerCase()+"_color"]||this.config.get("values").n_color}});q(Y.prototype,A.prototype,{changed:function(){this.has_changes=true},update_intro_div:function(){if(this.drawables.length===0){this.intro_div.show()}else{this.intro_div.hide()}},trigger_navigate:function(ad,af,ac,ag){if(this.timer){clearTimeout(this.timer)}if(ag){var ae=this;this.timer=setTimeout(function(){ae.trigger("navigate",ad+":"+af+"-"+ac)},500)}else{view.trigger("navigate",ad+":"+af+"-"+ac)}},update_location:function(ac,ae){this.location_span.text(commatize(ac)+" - "+commatize(ae));this.nav_input.val(this.chrom+":"+commatize(ac)+"-"+commatize(ae));var ad=view.chrom_select.val();if(ad!==""){this.trigger_navigate(ad,view.low,view.high,true)}},load_chroms:function(ae){ae.num=x;var ac=this,ad=$.Deferred();$.ajax({url:galaxy_config.root+"api/genomes/"+this.dbkey,data:ae,dataType:"json",success:function(ag){if(ag.chrom_info.length===0){return}if(ag.reference){var ah=new D(ac);ac.add_label_track(ah);ac.reference_track=ah}ac.chrom_data=ag.chrom_info;var ak='<option value="">Select Chrom/Contig</option>';for(var aj=0,af=ac.chrom_data.length;aj<af;aj++){var ai=ac.chrom_data[aj].chrom;ak+='<option value="'+ai+'">'+ai+"</option>"}if(ag.prev_chroms){ak+='<option value="previous">Previous '+x+"</option>"}if(ag.next_chroms){ak+='<option value="next">Next '+x+"</option>"}ac.chrom_select.html(ak);ac.chrom_start_index=ag.start_index;ad.resolve(ag.chrom_info)},error:function(){alert("Could not load chroms for this dbkey: "+ac.dbkey)}});return ad},change_chrom:function(ah,ad,aj){var ae=this;if(!ae.chrom_data){ae.load_chroms_deferred.then(function(){ae.change_chrom(ah,ad,aj)});return}if(!ah||ah==="None"){return}if(ah==="previous"){ae.load_chroms({low:this.chrom_start_index-x});return}if(ah==="next"){ae.load_chroms({low:this.chrom_start_index+x});return}var ai=$.grep(ae.chrom_data,function(ak,al){return ak.chrom===ah})[0];if(ai===undefined){ae.load_chroms({chrom:ah},function(){ae.change_chrom(ah,ad,aj)});return}else{if(ah!==ae.chrom){ae.chrom=ah;ae.chrom_select.val(ae.chrom);ae.max_high=ai.len-1;ae.reset();for(var ag=0,ac=ae.drawables.length;ag<ac;ag++){var af=ae.drawables[ag];if(af.init){af.init()}}if(ae.reference_track){ae.reference_track.init()}}if(ad===undefined&&aj===undefined){ae.low=0;ae.high=ae.max_high}else{ae.low=(ad!==undefined?Math.max(ad,0):0);if(aj===undefined){ae.low=Math.max(ae.low-15,0);ae.high=ae.low+30}else{ae.high=Math.min(aj,ae.max_high)}}ae.reset_overview();ae.request_redraw()}},go_to:function(ag){ag=ag.replace(/,/g,"");ag=ag.replace(/:|\-/g," ");var ad=ag.split(/\s+/),af=ad[0],ae=(ad[1]?parseInt(ad[1],10):undefined),ac=(ad[2]?parseInt(ad[2],10):undefined);this.change_chrom(af,ae,ac)},move_fraction:function(ae){var ac=this;var ad=ac.high-ac.low;this.move_delta(ae*ad)},move_delta:function(af){var ac=this;var ae=ac.high-ac.low;if(ac.low-af<ac.max_low){ac.low=ac.max_low;ac.high=ac.max_low+ae}else{if(ac.high-af>ac.max_high){ac.high=ac.max_high;ac.low=ac.max_high-ae}else{ac.high-=af;ac.low-=af}}ac.request_redraw({data_fetch:false});if(this.redraw_on_move_fn){clearTimeout(this.redraw_on_move_fn)}this.redraw_on_move_fn=setTimeout(function(){ac.request_redraw()},200);var ad=ac.chrom_select.val();this.trigger_navigate(ad,ac.low,ac.high,true)},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);ac.init();this.changed();this.update_intro_div()},add_label_track:function(ac){ac.view=this;ac.init();this.label_tracks.push(ac)},remove_drawable:function(ae,ad){A.prototype.remove_drawable.call(this,ae);if(ad){var ac=this;ae.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})}},reset:function(){this.low=this.max_low;this.high=this.max_high;this.viewport_container.find(".yaxislabel").remove()},request_redraw:function(ad,ae){var ac=this,af=(ae?[ae]:ac.drawables);ab.each(af,function(ag){var ah=ab.find(ac.tracks_to_be_redrawn,function(ai){return ai[0]===ag});if(ah){ah[1]=ad}else{ac.tracks_to_be_redrawn.push([ag,ad])}});if(!this.requested_redraw){requestAnimationFrame(function(){ac._redraw()});this.requested_redraw=true}},_redraw:function(){this.requested_redraw=false;var ac=this.low,ag=this.high;if(ac<this.max_low){ac=this.max_low}if(ag>this.max_high){ag=this.max_high}var ad=this.high-this.low;if(this.high!==0&&ad<this.min_separation){ag=ac+this.min_separation}this.low=Math.floor(ac);this.high=Math.ceil(ag);this.update_location(this.low,this.high);this.resolution_px_b=this.viewport_container.width()/(this.high-this.low);var af=(this.low/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ah=((this.high-this.low)/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ae=13;this.overview_box.css({left:af,width:Math.max(ae,ah)}).show();if(ah<ae){this.overview_box.css("left",af-(ae-ah)/2)}if(this.overview_highlight){this.overview_highlight.css({left:af,width:ah})}ab.each(this.tracks_to_be_redrawn,function(ak){var ai=ak[0],aj=ak[1];if(ai){ai._draw(aj)}});this.tracks_to_be_redrawn=[];ab.each(this.label_tracks,function(ai){ai._draw()})},zoom_in:function(ad,ae){if(this.max_high===0||this.high-this.low<=this.min_separation){return}var af=this.high-this.low,ag=af/2+this.low,ac=(af/this.zoom_factor)/2;if(ad){ag=ad/this.viewport_container.width()*(this.high-this.low)+this.low}this.low=Math.round(ag-ac);this.high=Math.round(ag+ac);this.changed();this.request_redraw()},zoom_out:function(){if(this.max_high===0){return}var ad=this.high-this.low,ae=ad/2+this.low,ac=(ad*this.zoom_factor)/2;this.low=Math.round(ae-ac);this.high=Math.round(ae+ac);this.changed();this.request_redraw()},resize_window:function(){this.viewport_container.height(this.container.height()-this.top_container.height()-this.bottom_container.height());this.request_redraw()},set_overview:function(ae){if(this.overview_drawable){if(this.overview_drawable.dataset.id===ae.dataset.id){return}this.overview_viewport.find(".track").remove()}var ad=ae.copy({content_div:this.overview_viewport}),ac=this;ad.header_div.hide();ad.is_overview=true;ac.overview_drawable=ad;this.overview_drawable.postdraw_actions=function(){ac.overview_highlight.show().height(ac.overview_drawable.content_div.height());ac.overview_viewport.height(ac.overview_drawable.content_div.height()+ac.overview_box.outerHeight());ac.overview_close.show();ac.resize_window()};ac.overview_drawable.request_draw();this.changed()},reset_overview:function(){$(".tooltip").remove();this.overview_viewport.find(".track-tile").remove();this.overview_viewport.height(this.default_overview_height);this.overview_box.height(this.default_overview_height);this.overview_close.hide();this.overview_highlight.hide();view.resize_window();view.overview_drawable=null}});var s=R.Tool.extend({defaults:{track:null},initialize:function(ac){R.Tool.prototype.initialize.call(this,ac);var ad=true;if(ac.tool_state!==undefined&&ac.tool_state.hidden!==undefined){ad=ac.tool_state.hidden}this.set("hidden",ad);this.remove_inputs(["data","hidden_data","conditional"])},state_dict:function(ac){return ab.extend(this.get_inputs_dict(),{hidden:!this.is_visible()})}});var v=Backbone.View.extend({events:{"change input":"update_value"},render:function(){var ae=this.$el.addClass("param-row"),af=this.model;var ac=$("<div>").addClass("param-label").text(af.get("label")).appendTo(ae);var ad=$("<div/>").addClass("param-input").html(af.get("html")).appendTo(ae);ad.find(":input").val(af.get("value"));$("<div style='clear: both;'/>").appendTo(ae)},update_value:function(ac){this.model.set_value($(ac.target).val())}});var aa=Backbone.View.extend({initialize:function(ac){this.model.on("change:hidden",this.set_visible,this)},render:function(){var ad=this;tool=this.model,parent_div=this.$el.addClass("dynamic-tool").hide();parent_div.bind("drag",function(ah){ah.stopPropagation()}).click(function(ah){ah.stopPropagation()}).bind("dblclick",function(ah){ah.stopPropagation()}).keydown(function(ah){ah.stopPropagation()});var ae=$("<div class='tool-name'>").appendTo(parent_div).text(tool.get("name"));tool.get("inputs").each(function(ai){var ah=new v({model:ai});ah.render();parent_div.append(ah.$el)});parent_div.find("input").click(function(){$(this).select()});var af=$("<div>").addClass("param-row").appendTo(parent_div);var ag=$("<input type='submit'>").attr("value","Run on complete dataset").appendTo(af);var ac=$("<input type='submit'>").attr("value","Run on visible region").appendTo(af);ac.click(function(){ad.run_on_region()});ag.click(function(){ad.run_on_dataset()});if(tool.is_visible()){this.$el.show()}},set_visible:function(){if(this.model.is_visible()){this.$el.show()}else{this.$el.hide()}},update_params:function(){for(var ac=0;ac<this.params.length;ac++){this.params[ac].update_value()}},run_on_dataset:function(){var ac=this.model;this.run({target_dataset_id:this.model.get("track").dataset.id,action:"rerun",tool_id:ac.id},null,function(ad){Galaxy.modal.show({title:ac.get("name")+" is Running",body:ac.get("name")+" is running on the complete dataset. Tool outputs are in dataset's history.",buttons:{Close:function(){Galaxy.modal.hide()}}})})},run_on_region:function(){var ad=this.model.get("track"),ag=this.model,ai=new y.GenomeRegion({chrom:ad.view.chrom,start:ad.view.low,end:ad.view.high}),aj={target_dataset_id:ad.dataset.id,action:"rerun",tool_id:ag.id,regions:[ai.toJSON()]},ah=ad,al=ag.get("name")+ah.tool_region_and_parameters_str(ai),ac;if(ah.container===view){var ak=new P(view,view,{name:ad.prefs.name});var af=ah.container.replace_drawable(ah,ak,false);ak.container_div.insertBefore(ah.view.content_div.children()[af]);ak.add_drawable(ah);ah.container_div.appendTo(ak.content_div);ac=ak}else{ac=ah.container}var ae=new ah.constructor(view,ac,{name:al,hda_ldda:"hda"});ae.init_for_tool_data();ae.change_mode(ah.mode);ae.set_filters_manager(ah.filters_manager.copy(ae));ae.update_icons();ac.add_drawable(ae);ae.tiles_div.text("Starting job.");this.run(aj,ae,function(am){ae.set_dataset(new X.Dataset(am));ae.tiles_div.text("Running job.");ae.init()})},run:function(ac,ae,af){ac.inputs=this.model.get_inputs_dict();var ad=new l.ServerStateDeferred({ajax_settings:{url:galaxy_config.root+"api/tools",data:JSON.stringify(ac),dataType:"json",contentType:"application/json",type:"POST"},interval:2000,success_fn:function(ag){return ag!=="pending"}});$.when(ad.go()).then(function(ag){if(ag==="no converter"){ae.container_div.addClass("error");ae.content_div.text(J)}else{if(ag.error){ae.container_div.addClass("error");ae.content_div.text(z+ag.message)}else{af(ag)}}})}});var E=function(ac,ad){L.Scaler.call(this,ad);this.filter=ac};E.prototype.gen_val=function(ac){if(this.filter.high===Number.MAX_VALUE||this.filter.low===-Number.MAX_VALUE||this.filter.low===this.filter.high){return this.default_val}return((parseFloat(ac[this.filter.index])-this.filter.low)/(this.filter.high-this.filter.low))};var j=Backbone.Model.extend({initialize:function(ad){var ac={};ab.each(ad.params,function(ae){ac[ae.key]=(ae.type==="color"&&!ae.default_value?l.get_random_color():ae.default_value)});if(ad.saved_values){ab.each(this.get("params"),function(ae){if(ae.key in ad.saved_values){ac[ae.key]=ad.saved_values[ae.key]}})}this.set("values",ac)},set_param_default_value:function(ad,ac){var ae=ab.find(this.get("params"),function(af){return af.key===ad});if(ae){ae.default_value=ac}},set_param_value:function(ac,ad){var ae=ab.find(this.get("params"),function(af){return af.key===ac});if(ae){if(typeof ad==="string"||ad instanceof String){if(ad.trim()===""){ad=ae.default_value}else{if(ae.type==="float"){ad=parseFloat(ad)}else{if(ae.type==="int"){ad=parseInt(ad,10)}}}}}if(this.get("values")[ac]!==ad){this.get("values")[ac]=ad;this.trigger("change:values");return true}else{return false}}});var a=Backbone.View.extend({render:function(){var aj=this.model;var ac=$("<div/>").keydown(function(ak){ak.stopPropagation()});var ai;function ah(ao,ak){for(var at=0;at<ao.length;at++){ai=ao[at];if(ai.hidden){continue}var am="param_"+at;var ax=aj.get("values")[ai.key];var az=$("<div class='form-row' />").appendTo(ak);az.append($("<label />").attr("for",am).text(ai.label+":"));if(ai.type==="bool"){az.append($('<input type="checkbox" />').attr("id",am).attr("name",am).attr("checked",ax))}else{if(ai.type==="text"){az.append($('<input type="text"/>').attr("id",am).val(ax).click(function(){$(this).select()}))}else{if(ai.type==="select"){var av=$("<select />").attr("id",am);for(var aq=0;aq<ai.options.length;aq++){$("<option/>").text(ai.options[aq].label).attr("value",ai.options[aq].value).appendTo(av)}av.val(ax);az.append(av)}else{if(ai.type==="color"){var ay=$("<div/>").appendTo(az),au=$("<input/>").attr({id:am,name:am}).val(ax).addClass("color-input").appendTo(ay).click(function(aB){$(".tooltip").removeClass("in");var aA=$(this).siblings(".tooltip").addClass("in");aA.css({left:$(this).position().left+$(this).width()+5,top:$(this).position().top+Galaxy.modal.scrollTop()-($(aA).height()/2)+($(this).height()/2)}).show();aA.click(function(aC){aC.stopPropagation()});$(document).bind("click.color-picker",function(){aA.hide();$(document).unbind("click.color-picker")});aB.stopPropagation()}),ar=$("<a href='javascript:void(0)'/>").addClass("icon-button arrow-circle").appendTo(ay).attr("title","Set new random color").tooltip(),aw=$("<div class='tooltip right' style='position: absolute;' />").appendTo(ay).hide(),an=$("<div class='tooltip-inner' style='text-align: inherit'></div>").appendTo(aw),al=$("<div class='tooltip-arrow'></div>").appendTo(aw),ap=$.farbtastic(an,{width:100,height:100,callback:au,color:ax});ay.append($("<div/>").css("clear","both"));(function(aA){ar.click(function(){aA.setColor(l.get_random_color())})})(ap)}else{az.append($("<input />").attr("id",am).attr("name",am).val(ax))}}}}if(ai.help){az.append($("<div class='help'/>").text(ai.help))}}}ah(aj.get("params"),ac);var ad=this,ag=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ae=function(){ad.update_from_form($(Galaxy.modal.el));Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},af=function(ak){if((ak.keyCode||ak.which)===27){ag()}else{if((ak.keyCode||ak.which)===13){ae()}}};$(window).bind("keypress.check_enter_esc",af);Galaxy.modal.show({title:"Configure",body:ac,buttons:{Cancel:ag,Ok:ae}})},update_from_form:function(ac){var ad=this.model;var ae=false;ab.each(ad.get("params"),function(ah,af){if(!ah.hidden){var ai="param_"+af;var ag=ac.find("#"+ai).val();if(ah.type==="bool"){ag=ac.find("#"+ai).is(":checked")}ae=ad.set_param_value(ah.key,ag)||ae}})}});var c=function(ac,af,ag,ad,ae){this.track=ac;this.region=af;this.low=af.get("start");this.high=af.get("end");this.w_scale=ag;this.canvas=ad;this.html_elt=$("<div class='track-tile'/>").append(ad);this.data=ae;this.stale=false};c.prototype.predisplay_actions=function(){};var M=function(ac,af,ag,ad,ae){c.call(this,ac,af,ag,ad,ae)};M.prototype.predisplay_actions=function(){};var O=function(af,am,ao,ae,ah,ai,ap,ad,al){c.call(this,af,am,ao,ae,ah);this.mode=ai;this.all_slotted=ad;this.feature_mapper=al;this.has_icons=false;if(ap){this.has_icons=true;var aj=this;ae=this.html_elt.children()[0],message_div=$("<div/>").addClass("tile-message").css({height:F,width:ae.width}).prependTo(this.html_elt);var ak=new y.GenomeRegion({chrom:af.view.chrom,start:this.low,end:this.high}),an=ah.length,ag=$("<a/>").addClass("icon more-down").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data including depth").tooltip().appendTo(message_div),ac=$("<a/>").addClass("icon more-across").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data excluding depth").tooltip().appendTo(message_div);ag.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.DEEP_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()});ac.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.BROAD_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()})}};q(O.prototype,c.prototype);O.prototype.predisplay_actions=function(){var ad=this,ac={};if(ad.mode!=="Pack"){return}$(this.html_elt).hover(function(){this.hovered=true;$(this).mousemove()},function(){this.hovered=false;$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()}).mousemove(function(ao){if(!this.hovered){return}var aj=$(this).offset(),an=ao.pageX-aj.left,am=ao.pageY-aj.top,at=ad.feature_mapper.get_feature_data(an,am),ak=(at?at[0]:null);$(this).parents(".track-content").children(".overlay").children(".feature-popup").each(function(){if(!ak||$(this).attr("id")!==ak.toString()){$(this).remove()}});if(at){var af=ac[ak];if(!af){var ap={name:at[3],start:at[1],end:at[2],strand:at[4]},ai=ad.track.filters_manager.filters,ah;for(var al=0;al<ai.length;al++){ah=ai[al];ap[ah.name]=at[ah.index]}af=$("<div/>").attr("id",ak).addClass("feature-popup");var au=$("<table/>"),ar,aq,av;for(ar in ap){aq=ap[ar];av=$("<tr/>").appendTo(au);$("<th/>").appendTo(av).text(ar);$("<td/>").attr("align","left").appendTo(av).text(typeof(aq)==="number"?V(aq,2):aq)}af.append($("<div class='feature-popup-inner'>").append(au));ac[ak]=af}af.appendTo($(this).parents(".track-content").children(".overlay"));var ag=an+parseInt(ad.html_elt.css("left"),10)-af.width()/2,ae=am+parseInt(ad.html_elt.css("top"),10)+7;af.css("left",ag+"px").css("top",ae+"px")}else{if(!ao.isPropagationStopped()){ao.stopPropagation();$(this).siblings().each(function(){$(this).trigger(ao)})}}}).mouseleave(function(){$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()})};var g=function(ad,ac,ae){q(ae,{drag_handle_class:"draghandle"});r.call(this,ad,ac,ae);this.dataset=null;if(ae.dataset){this.dataset=(ae.dataset instanceof Backbone.Model?ae.dataset:new X.Dataset(ae.dataset))}this.dataset_check_type="converted_datasets_state";this.data_url_extra_params={};this.data_query_wait=("data_query_wait" in ae?ae.data_query_wait:K);this.data_manager=("data_manager" in ae?ae.data_manager:new y.GenomeDataManager({dataset:this.dataset,genome:new y.Genome({key:ad.dbkey,chroms_info:{chrom_info:ad.chrom_data}}),data_mode_compatible:this.data_and_mode_compatible,can_subset:this.can_subset}));this.min_height_px=16;this.max_height_px=800;this.visible_height_px=this.prefs.height;this.content_div=$("<div class='track-content'>").appendTo(this.container_div);if(this.container){this.container.content_div.append(this.container_div);if(!("resize" in ae)||ae.resize){this.add_resize_handle()}}};q(g.prototype,r.prototype,{action_icons_def:[{name:"mode_icon",title:"Set display mode",css_class:"chevron-expand",on_click_fn:function(){}},r.prototype.action_icons_def[0],{name:"overview_icon",title:"Set as overview",css_class:"application-dock-270",on_click_fn:function(ac){ac.view.set_overview(ac)}},r.prototype.action_icons_def[1],{name:"filters_icon",title:"Filters",css_class:"ui-slider-050",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters()}else{ac.filters_manager.init_filters()}ac.filters_manager.toggle()}},{name:"tools_icon",title:"Tool",css_class:"hammer",on_click_fn:function(ac){ac.tool.toggle();if(ac.tool.is_visible()){ac.set_name(ac.prefs.name+ac.tool_region_and_parameters_str())}else{ac.revert_name()}$(".tooltip").remove()}},{name:"param_space_viz_icon",title:"Tool parameter space visualization",css_class:"arrow-split",on_click_fn:function(ac){var af='<strong>Tool</strong>: <%= track.tool.get("name") %><br/><strong>Dataset</strong>: <%= track.prefs.name %><br/><strong>Region(s)</strong>: <select name="regions"><option value="cur">current viewing area</option><option value="bookmarks">bookmarks</option><option value="both">current viewing area and bookmarks</option></select>',ae=ab.template(af,{track:ac});var ah=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ad=function(){var aj=$('select[name="regions"] option:selected').val(),al,ai=new y.GenomeRegion({chrom:view.chrom,start:view.low,end:view.high}),ak=ab.map($(".bookmark"),function(am){return new y.GenomeRegion({from_str:$(am).children(".position").text()})});if(aj==="cur"){al=[ai]}else{if(aj==="bookmarks"){al=ak}else{al=[ai].concat(ak)}}Galaxy.modal.hide();window.location.href=galaxy_config.root+"visualization/sweepster?"+$.param({dataset_id:ac.dataset.id,hda_ldda:ac.dataset.get("hda_ldda"),regions:JSON.stringify(new Backbone.Collection(al).toJSON())})},ag=function(ai){if((ai.keyCode||ai.which)===27){ah()}else{if((ai.keyCode||ai.which)===13){ad()}}};Galaxy.modal.show({title:"Visualize tool parameter space and output from different parameter settings?",body:ae,buttons:{No:ah,Yes:ad}})}},r.prototype.action_icons_def[2]],can_draw:function(){return this.dataset&&r.prototype.can_draw.call(this)},build_container_div:function(){return $("<div/>").addClass("track").attr("id","track_"+this.id)},build_header_div:function(){var ac=$("<div class='track-header'/>");if(this.view.editor){this.drag_div=$("<div/>").addClass(this.drag_handle_class).appendTo(ac)}this.name_div=$("<div/>").addClass("track-name").appendTo(ac).text(this.prefs.name).attr("id",this.prefs.name.replace(/\s+/g,"-").replace(/[^a-zA-Z0-9\-]/g,"").toLowerCase());return ac},set_dataset:function(ac){this.dataset=ac;this.data_manager.set("dataset",ac)},on_resize:function(){this.request_draw({clear_tile_cache:true})},add_resize_handle:function(){var ac=this;var af=false;var ae=false;var ad=$("<div class='track-resize'>");$(ac.container_div).hover(function(){if(ac.prefs.content_visible){af=true;ad.show()}},function(){af=false;if(!ae){ad.hide()}});ad.hide().bind("dragstart",function(ag,ah){ae=true;ah.original_height=$(ac.content_div).height()}).bind("drag",function(ah,ai){var ag=Math.min(Math.max(ai.original_height+ai.deltaY,ac.min_height_px),ac.max_height_px);$(ac.tiles_div).css("height",ag);ac.visible_height_px=(ac.max_height_px===ag?0:ag);ac.on_resize()}).bind("dragend",function(ag,ah){ac.tile_cache.clear();ae=false;if(!af){ad.hide()}ac.config.get("values").height=ac.visible_height_px;ac.changed()}).appendTo(ac.container_div)},set_display_modes:function(af,ai){this.display_modes=af;this.mode=(ai?ai:(this.config&&this.config.get("values").mode?this.config.get("values").mode:this.display_modes[0]));this.action_icons.mode_icon.attr("title","Set display mode (now: "+this.mode+")");var ad=this,ag={};for(var ae=0,ac=ad.display_modes.length;ae<ac;ae++){var ah=ad.display_modes[ae];ag[ah]=function(aj){return function(){ad.change_mode(aj);ad.icons_div.show();ad.container_div.mouseleave(function(){ad.icons_div.hide()})}}(ah)}make_popupmenu(this.action_icons.mode_icon,ag)},build_action_icons:function(){r.prototype.build_action_icons.call(this,this.action_icons_def);if(this.display_modes!==undefined){this.set_display_modes(this.display_modes)}},hide_contents:function(){this.tiles_div.hide();this.container_div.find(".yaxislabel, .track-resize").hide()},show_contents:function(){this.tiles_div.show();this.container_div.find(".yaxislabel, .track-resize").show();this.request_draw()},get_type:function(){if(this instanceof W){return"LabelTrack"}else{if(this instanceof D){return"ReferenceTrack"}else{if(this instanceof h){return"LineTrack"}else{if(this instanceof T){return"ReadTrack"}else{if(this instanceof Z){return"VariantTrack"}else{if(this instanceof f){return"CompositeTrack"}else{if(this instanceof d){return"FeatureTrack"}}}}}}}return""},show_message:function(ac){this.tiles_div.remove();return $("<span/>").addClass("message").html(ac).appendTo(this.content_div)},init:function(ae){var ad=this;ad.enabled=false;ad.tile_cache.clear();ad.data_manager.clear();ad.content_div.children().remove();ad.container_div.removeClass("nodata error pending");ad.tiles_div=$("<div/>").addClass("tiles").appendTo(ad.content_div);if(!ad.dataset.id){return}var ac=$.Deferred(),af={hda_ldda:ad.dataset.get("hda_ldda"),data_type:this.dataset_check_type,chrom:ad.view.chrom,retry:ae};$.getJSON(this.dataset.url(),af,function(ag){if(!ag||ag==="error"||ag.kind==="error"){ad.container_div.addClass("error");var ah=ad.show_message(o);if(ag.message){ah.append($("<a href='javascript:void(0);'></a>").text("View error").click(function(){Galaxy.modal.show({title:"Trackster Error",body:"<pre>"+ag.message+"</pre>",buttons:{Close:function(){Galaxy.modal.hide()}}})}));ah.append($("<span/>").text(" "));ah.append($("<a href='javascript:void(0);'></a>").text("Try again").click(function(){ad.init(true)}))}}else{if(ag==="no converter"){ad.container_div.addClass("error");ad.show_message(J)}else{if(ag==="no data"||(ag.data!==undefined&&(ag.data===null||ag.data.length===0))){ad.container_div.addClass("nodata");ad.show_message(G)}else{if(ag==="pending"){ad.container_div.addClass("pending");ad.show_message(w);setTimeout(function(){ad.init()},ad.data_query_wait)}else{if(ag==="data"||ag.status==="data"){if(ag.valid_chroms){ad.valid_chroms=ag.valid_chroms;ad.update_icons()}ad.tiles_div.text(U);if(ad.view.chrom){ad.tiles_div.text("");ad.tiles_div.css("height",ad.visible_height_px+"px");ad.enabled=true;$.when.apply($,ad.predraw_init()).done(function(){ac.resolve();ad.container_div.removeClass("nodata error pending");ad.request_draw()})}else{ac.resolve()}}}}}}});this.update_icons();return ac},predraw_init:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(af&&af.min&&af.max){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.config.set_param_default_value("min_value",ae);ac.config.set_param_default_value("max_value",ag);ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},get_drawables:function(){return this}});var N=function(ae,ad,ag){g.call(this,ae,ad,ag);var ac=this;m(ac.container_div,ac.drag_handle_class,".group",ac);this.filters_manager=new i.FiltersManager(this,("filters" in ag?ag.filters:null));this.data_manager.set("filters_manager",this.filters_manager);this.filters_available=false;this.tool=(ag.tool?new s(ab.extend(ag.tool,{track:this,tool_state:ag.tool_state})):null);this.tile_cache=new y.Cache(Q);this.left_offset=0;if(this.header_div){this.set_filters_manager(this.filters_manager);if(this.tool){var af=new aa({model:this.tool});af.render();this.dynamic_tool_div=af.$el;this.header_div.after(this.dynamic_tool_div)}}this.tiles_div=$("<div/>").addClass("tiles").appendTo(this.content_div);if(!this.prefs.content_visible){this.tiles_div.hide()}this.overlay_div=$("<div/>").addClass("overlay").appendTo(this.content_div);if(ag.mode){this.change_mode(ag.mode)}};q(N.prototype,r.prototype,g.prototype,{action_icons_def:g.prototype.action_icons_def.concat([{name:"show_more_rows_icon",title:"To minimize track height, not all feature rows are displayed. Click to display more rows.",css_class:"exclamation",on_click_fn:function(ac){$(".tooltip").remove();ac.slotters[ac.view.resolution_px_b].max_rows*=2;ac.request_draw({clear_tile_cache:true})},hide:true}]),copy:function(ac){var ad=this.to_dict();q(ad,{data_manager:this.data_manager});var ae=new this.constructor(this.view,ac,ad);ae.change_mode(this.mode);ae.enabled=this.enabled;return ae},set_filters_manager:function(ac){this.filters_manager=ac;this.header_div.after(this.filters_manager.parent_div)},to_dict:function(){return{track_type:this.get_type(),dataset:{id:this.dataset.id,hda_ldda:this.dataset.get("hda_ldda")},prefs:this.prefs,mode:this.mode,filters:this.filters_manager.to_dict(),tool_state:(this.tool?this.tool.state_dict():{})}},set_min_max:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(isNaN(parseFloat(ac.prefs.min_value))||isNaN(parseFloat(ac.prefs.max_value))){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},change_mode:function(ad){var ac=this;ac.mode=ad;ac.config.get("values").mode=ad;if(ad==="Auto"){this.data_manager.clear()}ac.request_draw({clear_tile_cache:true});this.action_icons.mode_icon.attr("title","Set display mode (now: "+ac.mode+")");return ac},update_icons:function(){var ac=this;if(ac.filters_available){ac.action_icons.filters_icon.show()}else{ac.action_icons.filters_icon.hide()}if(ac.tool){ac.action_icons.tools_icon.show();ac.action_icons.param_space_viz_icon.show()}else{ac.action_icons.tools_icon.hide();ac.action_icons.param_space_viz_icon.hide()}},_gen_tile_cache_key:function(ad,ac){return ad+"_"+ac},request_draw:function(ac){if(ac&&ac.clear_tile_cache){this.tile_cache.clear()}this.view.request_redraw(ac,this)},before_draw:function(){this.max_height_px=0},_draw:function(aq){if(!this.can_draw()){return}var an=aq&&aq.clear_after,al=this.view.low,ag=this.view.high,aj=ag-al,ad=this.view.container.width(),ap=this.view.resolution_px_b,af=1/ap;if(this.is_overview){al=this.view.max_low;ag=this.view.max_high;ap=ad/(view.max_high-view.max_low);af=1/ap}this.before_draw();this.tiles_div.children().addClass("remove");var ac=Math.floor(al/(af*S)),ak,am,ah,ai=[],ao=[];while((ac*S*af)<ag){ak=Math.floor(ac*S*af);am=new y.GenomeRegion({chrom:this.view.chrom,start:ak,end:Math.min(ak+Math.ceil(S*af),this.view.max_high)});ah=this.draw_helper(am,ap,aq);ai.push(ah);$.when(ah).then(function(ar){ao.push(ar)});ac+=1}if(!an){this.tiles_div.children(".remove").removeClass("remove").remove()}var ae=this;$.when.apply($,ai).then(function(){ae.tiles_div.children(".remove").remove();ao=ab.filter(ao,function(ar){return ar!==null});if(ao.length!==0){ae.postdraw_actions(ao,ad,ap,an)}})},_add_yaxis_label:function(af,ah){var ad=this,ag=(af==="max"?"top":"bottom"),ai=(af==="max"?"max":"min"),ac=(af==="max"?"max_value":"min_value"),ae=this.container_div.find(".yaxislabel."+ag);ah=ah||function(){ad.request_draw({clear_tile_cache:true})};if(ae.length!==0){ae.text(ad.prefs[ac])}else{ae=$("<div/>").text(ad.prefs[ac]).make_text_editable({num_cols:12,on_finish:function(aj){$(".tooltip").remove();ad.config.set_param_value(ac,aj);ah()},help_text:"Set "+ai+" value"}).addClass("yaxislabel "+ag).css("color",this.prefs.label_color);this.container_div.prepend(ae)}},postdraw_actions:function(af,ag,ai,ac){var ae=ab.filter(af,function(aj){return(aj instanceof M)});if(ae.length>0){this.max_height_px=0;var ad=this;ab.each(af,function(aj){if(!(aj instanceof M)){aj.html_elt.remove();ad.draw_helper(aj.region,ai,{force:true,mode:"Coverage"})}});ad._add_yaxis_label("max")}else{this.container_div.find(".yaxislabel").remove();var ah=ab.find(af,function(aj){return aj.has_icons});if(ah){ab.each(af,function(aj){if(!aj.has_icons){aj.html_elt.css("padding-top",F)}})}}},get_mode:function(ac){return this.mode},update_auto_mode:function(ac){},_get_drawables:function(){return[this]},draw_helper:function(al,an,ao){if(!ao){ao={}}var ad=ao.force,ai=ao.mode||this.mode,af=1/an,ae=this,ag=this._get_drawables(),am=this._gen_tile_cache_key(an,al),ah=function(ap){return(ap&&"track" in ap)};var aj=(ad?undefined:ae.tile_cache.get_elt(am));if(aj){if(ah(aj)){ae.show_tile(aj,an)}return aj}if(ao.data_fetch===false){return null}var ak=function(){var ap=(ab.find(C,function(ar){return ar===ai})?"Coverage":ai);var aq=ab.map(ag,function(ar){return ar.data_manager.get_data(al,ap,af,ae.data_url_extra_params)});if(view.reference_track){aq.push(view.reference_track.data_manager.get_data(al,ai,af,view.reference_track.data_url_extra_params))}return aq};var ac=$.Deferred();ae.tile_cache.set_elt(am,ac);$.when.apply($,ak()).then(function(){var ap=ak(),av=ap,aB;if(view.reference_track){aB=view.reference_track.data_manager.subset_entry(ap.pop(),al)}var aw=[],at=[];ab.each(ag,function(aG,aD){var aF=aG.mode,aE=av[aD];if(aF==="Auto"){aF=aG.get_mode(aE);aG.update_auto_mode(aF)}aw.push(aF);at.push(aG.get_canvas_height(aE,aF,an,aq))});var au=ae.view.canvas_manager.new_canvas(),ax=al.get("start"),aC=al.get("end"),ar=0,aq=Math.ceil((aC-ax)*an)+ae.left_offset,az=ab.max(at),ay;au.width=aq;au.height=(ao.height||az);var aA=au.getContext("2d");aA.translate(ae.left_offset,0);if(ag.length>1){aA.globalAlpha=0.5;aA.globalCompositeOperation="source-over"}ab.each(ag,function(aE,aD){ay=aE.draw_tile(av[aD],aA,aw[aD],al,an,aB)});if(ay!==undefined){ae.tile_cache.set_elt(am,ay);ae.show_tile(ay,an)}ac.resolve(ay)});return ac},get_canvas_height:function(ac,ae,af,ad){return this.visible_height_px},_draw_line_track_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.LinePainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new M(this,ag,ai,af,ac.data)},draw_tile:function(ac,ad,ag,af,ah,ae){},show_tile:function(ae,ah){var ad=this,ac=ae.html_elt;ae.predisplay_actions();var ag=(ae.low-(this.is_overview?this.view.max_low:this.view.low))*ah;if(this.left_offset){ag-=this.left_offset}ac.css("left",ag);if(ac.hasClass("remove")){ac.removeClass("remove")}else{this.tiles_div.append(ac)}ac.css("height","auto");this.max_height_px=Math.max(this.max_height_px,ac.height()-2);ac.parent().children().css("height",this.max_height_px+"px");var af=this.max_height_px;if(this.visible_height_px!==0){af=Math.min(this.max_height_px,this.visible_height_px)}this.tiles_div.css("height",af+"px")},tool_region_and_parameters_str:function(af){var ac=this,ae=(af!==undefined?af.toString():"all"),ad=ab.values(ac.tool.get_inputs_dict()).join(", ");return" - region=["+ae+"], parameters=["+ad+"]"},data_and_mode_compatible:function(ac,ad){if(ad==="Auto"){return true}else{if(ad==="Coverage"){return ac.dataset_type==="bigwig"}else{if(ac.dataset_type==="bigwig"||ac.extra_info==="no_detail"){return false}else{return true}}}},can_subset:function(ac){if(ac.message||ac.extra_info==="no_detail"){return false}else{if(ac.dataset_type==="bigwig"){return(ac.data[1][0]-ac.data[0][0]===1)}}return true},init_for_tool_data:function(){this.data_manager.set("data_type","raw_data");this.data_query_wait=1000;this.dataset_check_type="state"}});var W=function(ad,ac){var ae={resize:false};g.call(this,ad,ac,ae);this.container_div.addClass("label-track")};q(W.prototype,g.prototype,{build_header_div:function(){},init:function(){this.enabled=true},predraw_init:function(){},_draw:function(ag){var ae=this.view,af=ae.high-ae.low,aj=Math.floor(Math.pow(10,Math.floor(Math.log(af)/Math.log(10)))),ac=Math.floor(ae.low/aj)*aj,ah=this.view.container.width(),ad=$("<div/>").addClass("label-container");while(ac<ae.high){var ai=(ac-ae.low)/af*ah;ad.append($("<div/>").addClass("label").text(commatize(ac)).css({left:ai}));ac+=aj}this.content_div.children(":first").remove();this.content_div.append(ad)}});var f=function(ad,ac,ag){N.call(this,ad,ac,ag);this.drawables=[];if("drawables" in ag){var af;for(var ae=0;ae<ag.drawables.length;ae++){af=ag.drawables[ae];this.drawables[ae]=p(af,ad,null);if(af.left_offset>this.left_offset){this.left_offset=af.left_offset}}this.enabled=true}ab.each(this.drawables,function(ah){if(ah instanceof d||ah instanceof T){ah.change_mode("Coverage")}});this.update_icons();this.obj_type="CompositeTrack"};q(f.prototype,N.prototype,{display_modes:C,action_icons_def:[{name:"composite_icon",title:"Show individual tracks",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_group()}}].concat(N.prototype.action_icons_def),to_dict:A.prototype.to_dict,add_drawable:A.prototype.add_drawable,unpack_drawables:A.prototype.unpack_drawables,change_mode:function(ac){N.prototype.change_mode.call(this,ac);for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad].change_mode(ac)}},init:function(){var ae=[];for(var ad=0;ad<this.drawables.length;ad++){ae.push(this.drawables[ad].init())}var ac=this;$.when.apply($,ae).then(function(){ac.enabled=true;ac.request_draw()})},update_icons:function(){this.action_icons.filters_icon.hide();this.action_icons.tools_icon.hide();this.action_icons.param_space_viz_icon.hide()},can_draw:r.prototype.can_draw,_get_drawables:function(){return this.drawables},show_group:function(){var af=new P(this.view,this.container,{name:this.prefs.name}),ac;for(var ae=0;ae<this.drawables.length;ae++){ac=this.drawables[ae];ac.update_icons();af.add_drawable(ac);ac.container=af;af.content_div.append(ac.container_div)}var ad=this.container.replace_drawable(this,af,true);af.request_draw({clear_tile_cache:true})},before_draw:function(){N.prototype.before_draw.call(this);var ad=ab.min(ab.map(this.drawables,function(ae){return ae.prefs.min_value})),ac=ab.max(ab.map(this.drawables,function(ae){return ae.prefs.max_value}));this.prefs.min_value=ad;this.prefs.max_value=ac;ab.each(this.drawables,function(ae){ae.prefs.min_value=ad;ae.prefs.max_value=ac})},update_all_min_max:function(){var ac=this;ab.each(this.drawables,function(ad){ad.prefs.min_value=ac.prefs.min_value;ad.prefs.max_value=ac.prefs.max_value});this.request_draw({clear_tile_cache:true})},postdraw_actions:function(ai,ac,al,ah){N.prototype.postdraw_actions.call(this,ai,ac,al,ah);var ag=-1,ae;for(ae=0;ae<ai.length;ae++){var aj=ai[ae].html_elt.find("canvas").height();if(aj>ag){ag=aj}}for(ae=0;ae<ai.length;ae++){var af=ai[ae];if(af.html_elt.find("canvas").height()!==ag){this.draw_helper(af.region,al,{force:true,height:ag});af.html_elt.remove()}}var ad=this,ak=function(){ad.update_all_min_max()};this._add_yaxis_label("min",ak);this._add_yaxis_label("max",ak)}});var D=function(ac){N.call(this,ac,{content_div:ac.top_labeltrack},{resize:false});this.left_offset=ac.canvas_manager.char_width_px;this.container_div.addClass("reference-track");this.data_url=galaxy_config.root+"api/genomes/"+this.view.dbkey;this.data_url_extra_params={reference:true};this.data_manager=new y.GenomeReferenceDataManager({data_url:this.data_url,can_subset:this.can_subset});this.hide_contents()};q(D.prototype,r.prototype,N.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"height",type:"int",default_value:13,hidden:true}]),build_header_div:function(){},init:function(){this.data_manager.clear();this.enabled=true},predraw_init:function(){},can_draw:r.prototype.can_draw,draw_helper:function(ad,ae,ac){if(ae>this.view.canvas_manager.char_width_px){this.tiles_div.show();return N.prototype.draw_helper.call(this,ad,ae,ac)}else{this.tiles_div.hide();return null}},can_subset:function(ac){return true},draw_tile:function(ae,ak,af,ah,al){var ad=this.data_manager.subset_entry(ae,ah),aj=ad.data;var ac=ak.canvas;ak.font=ak.canvas.manager.default_font;ak.textAlign="center";for(var ag=0,ai=aj.length;ag<ai;ag++){ak.fillStyle=this.view.get_base_color(aj[ag]);ak.fillText(aj[ag],Math.floor(ag*al),10)}return new c(this,ah,al,ac,ad)}});var h=function(ad,ac,ae){this.mode="Histogram";N.call(this,ad,ac,ae)};q(h.prototype,r.prototype,N.prototype,{display_modes:C,config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Color",type:"color"},{key:"min_value",label:"Min Value",type:"float",default_value:undefined},{key:"max_value",label:"Max Value",type:"float",default_value:undefined},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:30,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},before_draw:function(){},draw_tile:function(ac,ad,af,ae,ag){return this._draw_line_track_tile(ac,ad,af,ae,ag)},can_subset:function(ac){return(ac.data[1][0]-ac.data[0][0]===1)},postdraw_actions:function(ad,ae,af,ac){this._add_yaxis_label("max");this._add_yaxis_label("min")}});var t=function(ad,ac,ae){this.mode="Heatmap";N.call(this,ad,ac,ae)};q(t.prototype,r.prototype,N.prototype,{display_modes:["Heatmap"],config_params:ab.union(r.prototype.config_params,[{key:"pos_color",label:"Positive Color",type:"color",default_value:"#FF8C00"},{key:"neg_color",label:"Negative Color",type:"color",default_value:"#4169E1"},{key:"min_value",label:"Min Value",type:"float",default_value:-1},{key:"max_value",label:"Max Value",type:"float",default_value:1},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:500,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.DiagonalHeatmapPainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new c(this,ag,ai,af,ac.data)}});var d=function(ad,ac,ae){N.call(this,ad,ac,ae);this.container_div.addClass("feature-track");this.summary_draw_height=30;this.slotters={};this.start_end_dct={};this.left_offset=200;this.set_painter_from_config()};q(d.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true,help:"Show the number of items in each bin when drawing summary histogram"},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"connector_style",label:"Connector style",type:"select",default_value:"fishbones",options:[{label:"Line with arrows",value:"fishbone"},{label:"Arcs",value:"arcs"}]},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.set_painter_from_config();this.request_draw({clear_tile_cache:true})},set_painter_from_config:function(){if(this.config.get("values").connector_style==="arcs"){this.painter=L.ArcLinkedFeaturePainter}else{this.painter=L.LinkedFeaturePainter}},postdraw_actions:function(am,ae,an,al){N.prototype.postdraw_actions.call(this,am,ae,an,al);var ag=this,ah;if(ag.filters_manager){var af=ag.filters_manager.filters,aj;for(aj=0;aj<af.length;aj++){af[aj].update_ui_elt()}var ai=false,ak,ad;for(ah=0;ah<am.length;ah++){if(am[ah].data.length){ak=am[ah].data[0];for(aj=0;aj<af.length;aj++){ad=af[aj];if(ad.applies_to(ak)&&ad.min!==ad.max){ai=true;break}}}}if(ag.filters_available!==ai){ag.filters_available=ai;if(!ag.filters_available){ag.filters_manager.hide()}ag.update_icons()}}if(am[0] instanceof O){var ac=true;for(ah=0;ah<am.length;ah++){if(!am[ah].all_slotted){ac=false;break}}if(!ac){this.action_icons.show_more_rows_icon.show()}else{this.action_icons.show_more_rows_icon.hide()}}else{this.action_icons.show_more_rows_icon.hide()}},update_auto_mode:function(ac){if(this.mode==="Auto"){if(ac==="no_detail"){ac="feature spans"}this.action_icons.mode_icon.attr("title","Set display mode (now: Auto/"+ac+")")}},incremental_slots:function(ag,ac,af){var ad=this.view.canvas_manager.dummy_context,ae=this.slotters[ag];if(!ae||(ae.mode!==af)){ae=new (u.FeatureSlotter)(ag,af,B,function(ah){return ad.measureText(ah)});this.slotters[ag]=ae}return ae.slot_features(ac)},get_mode:function(ac){if(ac.extra_info==="no_detail"||this.is_overview){mode="no_detail"}else{if(this.view.high-this.view.low>I){mode="Squish"}else{mode="Pack"}}return mode},get_canvas_height:function(ac,ag,ah,ad){if(ag==="Coverage"||ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var af=this.incremental_slots(ah,ac.data,ag);var ae=new (this.painter)(null,null,null,this.prefs,ag);return Math.max(this.min_height_px,ae.get_required_height(af,ad))}},draw_tile:function(am,aq,ao,af,aj,ae){var ap=this,ad=aq.canvas,ax=af.get("start"),ac=af.get("end"),ag=this.left_offset;if(am.dataset_type==="bigwig"){return this._draw_line_track_tile(am,aq,ao,af,aj)}var ai=[],an=this.slotters[aj].slots;all_slotted=true;if(am.data){var ak=this.filters_manager.filters;for(var ar=0,au=am.data.length;ar<au;ar++){var ah=am.data[ar];var at=false;var al;for(var aw=0,aB=ak.length;aw<aB;aw++){al=ak[aw];al.update_attrs(ah);if(!al.keep(ah)){at=true;break}}if(!at){ai.push(ah);if(!(ah[0] in an)){all_slotted=false}}}}var aA=(this.filters_manager.alpha_filter?new E(this.filters_manager.alpha_filter):null),ay=(this.filters_manager.height_filter?new E(this.filters_manager.height_filter):null),az=new (this.painter)(ai,ax,ac,this.prefs,ao,aA,ay,ae,function(aC){return ap.view.get_base_color(aC)});var av=null;aq.fillStyle=this.prefs.block_color;aq.font=aq.canvas.manager.default_font;aq.textAlign="right";if(am.data){av=az.draw(aq,ad.width,ad.height,aj,an);av.translation=-ag}return new O(ap,af,aj,ad,am.data,ao,am.message,all_slotted,av)}});var Z=function(ad,ac,ae){N.call(this,ad,ac,ae);this.painter=L.VariantPainter;this.summary_draw_height=30;this.left_offset=30};q(Z.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Histogram color",type:"color"},{key:"show_sample_data",label:"Show sample data",type:"bool",default_value:true},{key:"show_labels",label:"Show summary and sample labels",type:"bool",default_value:true},{key:"summary_height",label:"Locus summary height",type:"float",default_value:20},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,af,ah,ag,ai){if(ac.dataset_type==="bigwig"){return this._draw_line_track_tile(ac,af,"Histogram",ag,ai)}else{var ae=this.view,ad=new (this.painter)(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah,function(aj){return ae.get_base_color(aj)});ad.draw(af,af.canvas.width,af.canvas.height,ai);return new c(this,ag,ai,af.canvas,ac.data)}},get_canvas_height:function(ac,ag,ah,ae){if(ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var ad=(this.dataset.get_metadata("sample_names")?this.dataset.get_metadata("sample_names").length:0);if(ad===0&&ac.data.length!==0){ad=ac.data[0][7].match(/,/g);if(ad===null){ad=1}else{ad=ad.length+1}}var af=new (this.painter)(null,null,null,this.prefs,ag);return af.get_required_height(ad)}},predraw_init:function(){var ac=[g.prototype.predraw_init.call(this)];if(!this.dataset.get_metadata("sample_names")){ac.push(this.dataset.fetch())}return ac},postdraw_actions:function(ag,ah,aj,ad){N.prototype.postdraw_actions.call(this,ag,ah,aj,ad);var af=ab.filter(ag,function(ak){return(ak instanceof M)});var ae=this.dataset.get_metadata("sample_names");if(af.length===0&&this.prefs.show_labels&&ae&&ae.length>1){var ac;if(this.container_div.find(".yaxislabel.variant").length===0){ac=this.prefs.summary_height/2;this.tiles_div.prepend($("<div/>").text("Summary").addClass("yaxislabel variant top").css({"font-size":ac+"px",top:(this.prefs.summary_height-ac)/2+"px"}));if(this.prefs.show_sample_data){var ai=ae.join("<br/>");this.tiles_div.prepend($("<div/>").html(ai).addClass("yaxislabel variant top sample").css({top:this.prefs.summary_height,}))}}ac=(this.mode==="Squish"?5:10)+"px";$(this.tiles_div).find(".sample").css({"font-size":ac,"line-height":ac});$(this.tiles_div).find(".yaxislabel").css("color",this.prefs.label_color)}else{this.container_div.find(".yaxislabel.variant").remove()}}});var T=function(ad,ac,ae){d.call(this,ad,ac,ae);this.painter=(ad.reference_track?L.RefBasedReadPainter:L.ReadPainter);this.update_icons()};q(T.prototype,r.prototype,N.prototype,d.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block and sense strand color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_insertions",label:"Show insertions",type:"bool",default_value:false},{key:"show_differences",label:"Show differences only",type:"bool",default_value:true},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})}});var e={CompositeTrack:f,DrawableGroup:P,DiagonalHeatmapTrack:t,FeatureTrack:d,LineTrack:h,ReadTrack:T,VariantTrack:Z,VcfTrack:Z};var p=function(ae,ad,ac){if("copy" in ae){return ae.copy(ac)}else{var af=ae.obj_type;if(!af){af=ae.track_type}return new e[af](ad,ac,ae)}};return{TracksterView:Y,DrawableGroup:P,LineTrack:h,FeatureTrack:d,DiagonalHeatmapTrack:t,ReadTrack:T,VariantTrack:Z,CompositeTrack:f,object_from_template:p}}); \ No newline at end of file diff -r ead13267cf213e10e76d2478b477b729e6f6129a -r 7225183f34d12b1ed3d879a85054ee98a7750729 static/scripts/viz/trackster/tracks.js --- a/static/scripts/viz/trackster/tracks.js +++ b/static/scripts/viz/trackster/tracks.js @@ -1302,15 +1302,28 @@ view.reference_track.init(); } } - if (low !== undefined && high !== undefined) { - view.low = Math.max(low, 0); - view.high = Math.min(high, view.max_high); - } - else { - // Low and high undefined, so view is whole chome. + + // Resolve low, high. + if (low === undefined && high === undefined) { + // Both are undefined, so view is whole chromosome. view.low = 0; view.high = view.max_high; } + else { + // Low and/or high is defined. + view.low = (low !== undefined ? Math.max(low, 0) : 0); + if (high === undefined) { + // Center visualization around low. + // HACK: max resolution is currently 30 bases. + view.low = Math.max(view.low - 15, 0); + view.high = view.low + 30; + } + else { + // High is defined. + view.high = Math.min(high, view.max_high); + } + } + view.reset_overview(); view.request_redraw(); } @@ -1338,16 +1351,8 @@ // Parse new location. var chrom_pos = str.split(/\s+/), chrom = chrom_pos[0], - new_low = (chrom_pos[1] ? parseInt(chrom_pos[1], 10) : null), - new_high = (chrom_pos[2] ? parseInt(chrom_pos[2], 10) : null); - - // If no new high, new_low is the position of focus, so adjust low, high - // accordingly. - if (!new_high) { - // HACK: max resolution is 30 bases,so adjust low, high accordingly. - new_low = new_low - 15; - new_high = new_low + 15; - } + new_low = (chrom_pos[1] ? parseInt(chrom_pos[1], 10) : undefined), + new_high = (chrom_pos[2] ? parseInt(chrom_pos[2], 10) : undefined); this.change_chrom(chrom, new_low, new_high); }, Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. 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commit/galaxy-central: guerler: UI: Add click-event handler to tabs, Ui: Improve table wrapper, Charts: Hide tooltips on element hide, improve UI
by commits-noreply＠bitbucket.org 26 Feb '14

26 Feb '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/ead13267cf21/ Changeset: ead13267cf21 User: guerler Date: 2014-02-26 19:09:23 Summary: UI: Add click-event handler to tabs, Ui: Improve table wrapper, Charts: Hide tooltips on element hide, improve UI Affected #: 8 files diff -r f26afae68417905a7f662671a18ca551f39ecf5f -r ead13267cf213e10e76d2478b477b729e6f6129a config/plugins/visualizations/charts/static/app.js --- a/config/plugins/visualizations/charts/static/app.js +++ b/config/plugins/visualizations/charts/static/app.js @@ -61,9 +61,6 @@ // events var self = this; - this.config.on('change:current_view', function() { - self._showCurrent(); - }); this.config.on('change:title', function() { self._refreshTitle(); }); @@ -86,11 +83,6 @@ this.portlet.title('Charts' + title); }, - // current view - _showCurrent: function() { - - }, - // execute command execute: function(options) { }, diff -r f26afae68417905a7f662671a18ca551f39ecf5f -r ead13267cf213e10e76d2478b477b729e6f6129a config/plugins/visualizations/charts/static/library/table.js --- a/config/plugins/visualizations/charts/static/library/table.js +++ b/config/plugins/visualizations/charts/static/library/table.js @@ -33,7 +33,15 @@ this.options = Utils.merge(options, this.optionsDefault); // create new element - this.setElement(this._template(options)); + var $el = $(this._template(options)); + + // link sub-elements + this.$thead = $el.find('thead'); + this.$tbody = $el.find('tbody'); + this.$tmessage = $el.find('tmessage'); + + // set element + this.setElement($el); // initialize row this.row = $('<tr></tr>'); @@ -49,7 +57,7 @@ // header appendHeader: function() { // append header row - $(this.el).find('thead').append(this.row); + this.$thead.append(this.row); // row this.row = $('<tr></tr>'); @@ -74,14 +82,14 @@ // remove remove: function(id) { - $(this.el).find('#' + id).remove(); + this.$tbody.find('#' + id).remove(); this.row_count--; this._refresh(); }, // remove removeAll: function() { - $(this.el).find('tbody').html(''); + this.$tbody.html(''); this.row_count = 0; this._refresh(); }, @@ -89,18 +97,18 @@ // value value: function(new_value) { // get current id/value - this.before = this.$el.find('.current').attr('id'); + this.before = this.$tbody.find('.current').attr('id'); // check if new_value is defined if (new_value !== undefined) { - this.$el.find('tr').removeClass('current'); + this.$tbody.find('tr').removeClass('current'); if (new_value) { - this.$el.find('#' + new_value).addClass('current'); + this.$tbody.find('#' + new_value).addClass('current'); } } // get current id/value - var after = this.$el.find('.current').attr('id'); + var after = this.$tbody.find('.current').attr('id'); if(after === undefined) { return null; } else { @@ -114,6 +122,11 @@ } }, + // size + size: function() { + return this.$tbody.find('tr').length; + }, + // commit _commit: function(id, prepend) { // add @@ -121,9 +134,9 @@ // add row if (prepend) { - $(this.el).find('tbody').prepend(this.row); + this.$tbody.prepend(this.row); } else { - $(this.el).find('tbody').append(this.row); + this.$tbody.append(this.row); } // row @@ -161,9 +174,9 @@ // refresh _refresh: function() { if (this.row_count == 0) { - this.$el.find('tmessage').show(); + this.$tmessage.show(); } else { - this.$el.find('tmessage').hide(); + this.$tmessage.hide(); } }, diff -r f26afae68417905a7f662671a18ca551f39ecf5f -r ead13267cf213e10e76d2478b477b729e6f6129a config/plugins/visualizations/charts/static/library/ui.js --- a/config/plugins/visualizations/charts/static/library/ui.js +++ b/config/plugins/visualizations/charts/static/library/ui.js @@ -111,7 +111,7 @@ if (options.title) { str += '<div style="margin-right: 5px; margin-left: 5px;">' + '<i class="icon fa ' + options.icon + '"/> ' + - '<span style="position: relative; font-size: 0.8em; top: -1px;">' + options.title + '</span>' + + '<span style="position: relative; font-size: 0.8em; font-weight: normal; top: -1px;">' + options.title + '</span>' + '</div>'; } else { str += '<i class="icon fa ' + options.icon + '"/>'; diff -r f26afae68417905a7f662671a18ca551f39ecf5f -r ead13267cf213e10e76d2478b477b729e6f6129a config/plugins/visualizations/charts/static/views/chart.js --- a/config/plugins/visualizations/charts/static/views/chart.js +++ b/config/plugins/visualizations/charts/static/views/chart.js @@ -96,6 +96,10 @@ // save chart self._saveChart(); + + // show viewport + self.hide(); + self.app.charts_view.$el.show(); } }), 'back' : new Ui.ButtonIcon({ @@ -103,7 +107,7 @@ tooltip : 'Return to Viewer', title : 'Return', onclick : function() { - self.$el.hide(); + self.hide(); self.app.charts_view.$el.show(); } }) @@ -161,7 +165,7 @@ self.tabs.showOperation('back'); }); this.app.charts.on('remove', function(chart) { - if (self.app.charts.length == 1) { + if (self.app.charts.length == 0) { self.tabs.hideOperation('back'); } }); @@ -187,6 +191,12 @@ this._resetChart(); }, + // hide + hide: function() { + $('.tooltip').hide(); + this.$el.hide(); + }, + // update _refreshLabels: function() { var self = this; @@ -275,12 +285,6 @@ // update chart model current.copy(this.chart); - - // hide - this.$el.hide(); - - // update main - this.app.charts_view.$el.show(); } }); diff -r f26afae68417905a7f662671a18ca551f39ecf5f -r ead13267cf213e10e76d2478b477b729e6f6129a config/plugins/visualizations/charts/static/views/charts.js --- a/config/plugins/visualizations/charts/static/views/charts.js +++ b/config/plugins/visualizations/charts/static/views/charts.js @@ -19,7 +19,7 @@ self.app.chart.copy(chart); // hide this element - self.$el.hide(); + self.hide(); // show chart view self.app.chart_view.$el.show(); @@ -44,17 +44,19 @@ height : 100, operations : { 'new' : new Ui.ButtonIcon({ - icon : 'fa-plus', - tooltip: 'Create', + icon : 'fa-magic', + tooltip: 'Create a new Chart', + title: 'New', onclick: function() { - self.$el.hide(); + self.hide(); self.app.chart.reset(); self.app.chart_view.$el.show(); } }), 'delete' : new Ui.ButtonIcon({ - icon : 'fa-minus', - tooltip: 'Delete', + icon : 'fa-trash-o', + tooltip: 'Delete this Chart', + title: 'Delete', onclick: function() { // check if element has been selected @@ -109,6 +111,12 @@ }); }, + // hide + hide: function() { + $('.tooltip').hide(); + this.$el.hide(); + }, + // append append : function($el) { this.$el.append(Utils.wrap('')); @@ -134,6 +142,15 @@ _removeChart: function(chart) { // remove from to table this.table.remove(chart.id); + + // check if table is empty + if (this.table.size() == 0) { + this.hide(); + this.app.chart_view.$el.show(); + } else { + // select available chart + this.table.value(this.app.charts.last().id); + } } }); diff -r f26afae68417905a7f662671a18ca551f39ecf5f -r ead13267cf213e10e76d2478b477b729e6f6129a config/plugins/visualizations/charts/static/views/viewport.js --- a/config/plugins/visualizations/charts/static/views/viewport.js +++ b/config/plugins/visualizations/charts/static/views/viewport.js @@ -31,7 +31,8 @@ operations : { 'edit' : new Ui.ButtonIcon({ icon : 'fa-gear', - tooltip : 'Configure' + tooltip : 'Customize Chart', + title : 'Customize' }) } }); @@ -80,7 +81,7 @@ self.app.chart.copy(chart); // show edit - self.app.charts_view.$el.hide(); + self.app.charts_view.hide(); self.app.chart_view.$el.show(); }); @@ -89,6 +90,12 @@ } }, + // hide + hide: function() { + $('.tooltip').hide(); + this.$el.hide(); + }, + // add _addChart: function(chart) { // link this diff -r f26afae68417905a7f662671a18ca551f39ecf5f -r ead13267cf213e10e76d2478b477b729e6f6129a static/scripts/mvc/ui/ui-tabs.js --- a/static/scripts/mvc/ui/ui-tabs.js +++ b/static/scripts/mvc/ui/ui-tabs.js @@ -37,9 +37,14 @@ // create new element this.setElement($tabs); + // clear list + this.list = {}; + + // link this + var self = this; + // append operations if (this.options.operations) { - var self = this; $.each(this.options.operations, function(name, item) { item.$el.prop('id', name); self.$nav.append(item.$el); @@ -69,7 +74,7 @@ add: function(options) { // get tab id var id = options.id; - + // create tab object var tab = { $title : $(this._template_tab(options)), @@ -79,7 +84,7 @@ // add to list this.list[id] = tab; - + // add a new tab either before the add-new-tab tab or behind the last tab if (this.options.onnew) { this.$nav.find('#new-tab').before(tab.$title); @@ -102,12 +107,19 @@ if (options.ondel) { var $del_icon = tab.$title.find('#delete'); $del_icon.tooltip({title: 'Delete this tab', placement: 'bottom'}); - $del_icon.on('click', function(e) { + $del_icon.on('click', function() { $del_icon.tooltip('destroy'); options.ondel(); return false; }); } + + // add custom click event handler + if (options.onclick) { + tab.$title.on('click', function() { + options.onclick(); + }); + } }, // delete tab diff -r f26afae68417905a7f662671a18ca551f39ecf5f -r ead13267cf213e10e76d2478b477b729e6f6129a static/scripts/packed/mvc/ui/ui-tabs.js --- a/static/scripts/packed/mvc/ui/ui-tabs.js +++ b/static/scripts/packed/mvc/ui/ui-tabs.js @@ -1,1 +1,1 @@ -define(["utils/utils"],function(a){var b=Backbone.View.extend({visible:false,list:{},$nav:null,$content:null,first_tab:null,optionsDefault:{title_new:"",operations:null,onnew:null},initialize:function(e){this.options=a.merge(e,this.optionsDefault);var c=$(this._template(this.options));this.$nav=c.find(".tab-navigation");this.$content=c.find(".tab-content");this.setElement(c);if(this.options.operations){var d=this;$.each(this.options.operations,function(g,h){h.$el.prop("id",g);d.$nav.append(h.$el)})}if(this.options.onnew){var f=$(this._template_tab_new(this.options));this.$nav.append(f);f.tooltip({title:"Add a new tab",placement:"bottom"});f.on("click",function(g){f.tooltip("hide");d.options.onnew()})}},add:function(d){var f=d.id;var e={$title:$(this._template_tab(d)),$content:$(this._template_tab_content(d)),removable:d.ondel?true:false};this.list[f]=e;if(this.options.onnew){this.$nav.find("#new-tab").before(e.$title)}else{this.$nav.append(e.$title)}e.$content.append(d.$el);this.$content.append(e.$content);if(_.size(this.list)==1){e.$title.addClass("active");e.$content.addClass("active");this.first_tab=f}if(d.ondel){var c=e.$title.find("#delete");c.tooltip({title:"Delete this tab",placement:"bottom"});c.on("click",function(g){c.tooltip("destroy");d.ondel();return false})}},del:function(d){var c=this.list[d];c.$title.remove();c.$content.remove();delete c;if(this.first_tab==d){this.first_tab=null}if(this.first_tab!=null){this.show(this.first_tab)}},delRemovable:function(){for(var d in this.list){var c=this.list[d];if(c.removable){this.del(d)}}},show:function(c){this.$el.fadeIn("fast");this.visible=true;if(c){this.list[c].$title.find("a").tab("show")}},hide:function(){this.$el.fadeOut("fast");this.visible=false},hideOperation:function(c){this.$nav.find("#"+c).hide()},showOperation:function(c){this.$nav.find("#"+c).show()},setOperation:function(e,d){var c=this.$nav.find("#"+e);c.off("click");c.on("click",d)},title:function(e,d){var c=this.list[e].$title.find("#text");if(d){c.html(d)}return c.html()},_template:function(c){return'<div class="tabbable tabs-left"><ul class="tab-navigation nav nav-tabs"/><div class="tab-content"/></div>'},_template_tab_new:function(c){return'<li id="new-tab"><a href="javascript:void(0);"><i style="font-size: 0.8em; margin-right: 5px;" class="fa fa-plus-circle"/>'+c.title_new+"</a></li>"},_template_tab:function(d){var c='<li id="title-'+d.id+'"><a title="" href="#tab-'+d.id+'" data-toggle="tab" data-original-title=""><span id="text">'+d.title+"</span>";if(d.ondel){c+='<i id="delete" style="font-size: 0.8em; margin-left: 5px; cursor: pointer;" class="fa fa-minus-circle"/>'}c+="</a></li>";return c},_template_tab_content:function(c){return'<div id="tab-'+c.id+'" class="tab-pane"/>'}});return{View:b}}); \ No newline at end of file +define(["utils/utils"],function(a){var b=Backbone.View.extend({visible:false,list:{},$nav:null,$content:null,first_tab:null,optionsDefault:{title_new:"",operations:null,onnew:null},initialize:function(e){this.options=a.merge(e,this.optionsDefault);var c=$(this._template(this.options));this.$nav=c.find(".tab-navigation");this.$content=c.find(".tab-content");this.setElement(c);this.list={};var d=this;if(this.options.operations){$.each(this.options.operations,function(g,h){h.$el.prop("id",g);d.$nav.append(h.$el)})}if(this.options.onnew){var f=$(this._template_tab_new(this.options));this.$nav.append(f);f.tooltip({title:"Add a new tab",placement:"bottom"});f.on("click",function(g){f.tooltip("hide");d.options.onnew()})}},add:function(d){var f=d.id;var e={$title:$(this._template_tab(d)),$content:$(this._template_tab_content(d)),removable:d.ondel?true:false};this.list[f]=e;if(this.options.onnew){this.$nav.find("#new-tab").before(e.$title)}else{this.$nav.append(e.$title)}e.$content.append(d.$el);this.$content.append(e.$content);if(_.size(this.list)==1){e.$title.addClass("active");e.$content.addClass("active");this.first_tab=f}if(d.ondel){var c=e.$title.find("#delete");c.tooltip({title:"Delete this tab",placement:"bottom"});c.on("click",function(){c.tooltip("destroy");d.ondel();return false})}if(d.onclick){e.$title.on("click",function(){d.onclick()})}},del:function(d){var c=this.list[d];c.$title.remove();c.$content.remove();delete c;if(this.first_tab==d){this.first_tab=null}if(this.first_tab!=null){this.show(this.first_tab)}},delRemovable:function(){for(var d in this.list){var c=this.list[d];if(c.removable){this.del(d)}}},show:function(c){this.$el.fadeIn("fast");this.visible=true;if(c){this.list[c].$title.find("a").tab("show")}},hide:function(){this.$el.fadeOut("fast");this.visible=false},hideOperation:function(c){this.$nav.find("#"+c).hide()},showOperation:function(c){this.$nav.find("#"+c).show()},setOperation:function(e,d){var c=this.$nav.find("#"+e);c.off("click");c.on("click",d)},title:function(e,d){var c=this.list[e].$title.find("#text");if(d){c.html(d)}return c.html()},_template:function(c){return'<div class="tabbable tabs-left"><ul class="tab-navigation nav nav-tabs"/><div class="tab-content"/></div>'},_template_tab_new:function(c){return'<li id="new-tab"><a href="javascript:void(0);"><i style="font-size: 0.8em; margin-right: 5px;" class="fa fa-plus-circle"/>'+c.title_new+"</a></li>"},_template_tab:function(d){var c='<li id="title-'+d.id+'"><a title="" href="#tab-'+d.id+'" data-toggle="tab" data-original-title=""><span id="text">'+d.title+"</span>";if(d.ondel){c+='<i id="delete" style="font-size: 0.8em; margin-left: 5px; cursor: pointer;" class="fa fa-minus-circle"/>'}c+="</a></li>";return c},_template_tab_content:function(c){return'<div id="tab-'+c.id+'" class="tab-pane"/>'}});return{View:b}}); \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. 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commit/galaxy-central: jmchilton: Merge latest stable.
by commits-noreply＠bitbucket.org 26 Feb '14

26 Feb '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/f26afae68417/ Changeset: f26afae68417 User: jmchilton Date: 2014-02-26 17:32:13 Summary: Merge latest stable. Affected #: 3 files diff -r 2295745a2888e74a518bdd6d7189d10031cbbf7d -r f26afae68417905a7f662671a18ca551f39ecf5f lib/galaxy/config.py --- a/lib/galaxy/config.py +++ b/lib/galaxy/config.py @@ -207,6 +207,7 @@ self.log_actions = string_as_bool( kwargs.get( 'log_actions', 'False' ) ) self.log_events = string_as_bool( kwargs.get( 'log_events', 'False' ) ) self.sanitize_all_html = string_as_bool( kwargs.get( 'sanitize_all_html', True ) ) + self.serve_xss_vulnerable_mimetypes = string_as_bool( kwargs.get( 'serve_xss_vulnerable_mimetypes', False ) ) self.enable_old_display_applications = string_as_bool( kwargs.get( "enable_old_display_applications", "True" ) ) self.ucsc_display_sites = kwargs.get( 'ucsc_display_sites', "main,test,archaea,ucla" ).lower().split(",") self.gbrowse_display_sites = kwargs.get( 'gbrowse_display_sites', "modencode,sgd_yeast,tair,wormbase,wormbase_ws120,wormbase_ws140,wormbase_ws170,wormbase_ws180,wormbase_ws190,wormbase_ws200,wormbase_ws204,wormbase_ws210,wormbase_ws220,wormbase_ws225" ).lower().split(",") diff -r 2295745a2888e74a518bdd6d7189d10031cbbf7d -r f26afae68417905a7f662671a18ca551f39ecf5f lib/galaxy/datatypes/data.py --- a/lib/galaxy/datatypes/data.py +++ b/lib/galaxy/datatypes/data.py @@ -21,6 +21,12 @@ eggs.require( "Paste" ) import paste +XSS_VULNERABLE_MIME_TYPES = [ + 'image/svg+xml', # Unfiltered by Galaxy and may contain JS that would be executed by some browsers. + 'application/xml', # Some browsers will evalute SVG embedded JS in such XML documents. +] +DEFAULT_MIME_TYPE = 'text/plain' # Vulnerable mime types will be replaced with this. + log = logging.getLogger(__name__) comptypes=[] # Is this being used anywhere, why was this here? -JohnC @@ -334,11 +340,12 @@ mime = trans.app.datatypes_registry.get_mimetype_by_extension( ".".split( file_path )[-1] ) except: mime = "text/plain" - trans.response.set_content_type( mime ) + self._clean_and_set_mime_type( trans, mime ) return open( file_path ) else: return trans.show_error_message( "Could not find '%s' on the extra files path %s." % ( filename, file_path ) ) - trans.response.set_content_type(data.get_mime()) + self._clean_and_set_mime_type( trans, data.get_mime() ) + trans.log_event( "Display dataset id: %s" % str( data.id ) ) from galaxy import datatypes #DBTODO REMOVE THIS AT REFACTOR if to_ext or isinstance(data.datatype, datatypes.binary.Binary): # Saving the file, or binary file @@ -624,6 +631,12 @@ dataset_source = dataproviders.dataset.DatasetDataProvider( dataset ) return dataproviders.chunk.Base64ChunkDataProvider( dataset_source, **settings ) + def _clean_and_set_mime_type(self, trans, mime): + if mime.lower() in XSS_VULNERABLE_MIME_TYPES: + if not getattr( trans.app.config, "serve_xss_vulnerable_mimetypes", True ): + mime = DEFAULT_MIME_TYPE + trans.response.set_content_type( mime ) + @dataproviders.decorators.has_dataproviders class Text( Data ): diff -r 2295745a2888e74a518bdd6d7189d10031cbbf7d -r f26afae68417905a7f662671a18ca551f39ecf5f universe_wsgi.ini.sample --- a/universe_wsgi.ini.sample +++ b/universe_wsgi.ini.sample @@ -507,6 +507,12 @@ # unaltered output. #sanitize_all_html = True +# By default Galaxy will serve non-HTML tool output that may potentially +# contain browser executable JavaScript content as plain text. This will for +# instance cause SVG datasets to not render properly and so may be disabled +# by setting the following option to True. +#serve_xss_vulnerable_mimetypes = False + # Debug enables access to various config options useful for development and # debugging: use_lint, use_profile, use_printdebug and use_interactive. It # also causes the files used by PBS/SGE (submission script, output, and error) Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: 2 new changesets
by commits-noreply＠bitbucket.org 26 Feb '14

26 Feb '14

2 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/3a3c1a860c30/ Changeset: 3a3c1a860c30 Branch: stable User: jmchilton Date: 2014-02-21 16:54:53 Summary: Do not serve non-HTML content that may contain JavaScript in such a way that web browsers execute it. This option will prevent Galaxy from correctly rendering SVG files generated from tools or uploaded by users and so can be disabled with by setting the new option serve_xss_vulnerable_mimetypes in universe_wsgi.ini to True. Thanks to Tobias Sargeant for pointing out this problem. Affected #: 3 files diff -r f58179ab488879a1a54821e98b4c65c048fa2fd6 -r 3a3c1a860c306df8d8176b0d2d455a5ed663f597 lib/galaxy/config.py --- a/lib/galaxy/config.py +++ b/lib/galaxy/config.py @@ -207,6 +207,7 @@ self.log_actions = string_as_bool( kwargs.get( 'log_actions', 'False' ) ) self.log_events = string_as_bool( kwargs.get( 'log_events', 'False' ) ) self.sanitize_all_html = string_as_bool( kwargs.get( 'sanitize_all_html', True ) ) + self.serve_xss_vulnerable_mimetypes = string_as_bool( kwargs.get( 'serve_xss_vulnerable_mimetypes', False ) ) self.enable_old_display_applications = string_as_bool( kwargs.get( "enable_old_display_applications", "True" ) ) self.ucsc_display_sites = kwargs.get( 'ucsc_display_sites', "main,test,archaea,ucla" ).lower().split(",") self.gbrowse_display_sites = kwargs.get( 'gbrowse_display_sites', "modencode,sgd_yeast,tair,wormbase,wormbase_ws120,wormbase_ws140,wormbase_ws170,wormbase_ws180,wormbase_ws190,wormbase_ws200,wormbase_ws204,wormbase_ws210,wormbase_ws220,wormbase_ws225" ).lower().split(",") diff -r f58179ab488879a1a54821e98b4c65c048fa2fd6 -r 3a3c1a860c306df8d8176b0d2d455a5ed663f597 lib/galaxy/datatypes/data.py --- a/lib/galaxy/datatypes/data.py +++ b/lib/galaxy/datatypes/data.py @@ -21,6 +21,12 @@ eggs.require( "Paste" ) import paste +XSS_VULNERABLE_MIME_TYPES = [ + 'image/svg+xml', # Unfiltered by Galaxy and may contain JS that would be executed by some browsers. + 'application/xml', # Some browsers will evalute SVG embedded JS in such XML documents. +] +DEFAULT_MIME_TYPE = 'text/plain' # Vulnerable mime types will be replaced with this. + log = logging.getLogger(__name__) comptypes=[] # Is this being used anywhere, why was this here? -JohnC @@ -334,11 +340,12 @@ mime = trans.app.datatypes_registry.get_mimetype_by_extension( ".".split( file_path )[-1] ) except: mime = "text/plain" - trans.response.set_content_type( mime ) + self._clean_and_set_mime_type( trans, mime ) return open( file_path ) else: return trans.show_error_message( "Could not find '%s' on the extra files path %s." % ( filename, file_path ) ) - trans.response.set_content_type(data.get_mime()) + self._clean_and_set_mime_type( trans, data.get_mime() ) + trans.log_event( "Display dataset id: %s" % str( data.id ) ) from galaxy import datatypes #DBTODO REMOVE THIS AT REFACTOR if to_ext or isinstance(data.datatype, datatypes.binary.Binary): # Saving the file, or binary file @@ -624,6 +631,12 @@ dataset_source = dataproviders.dataset.DatasetDataProvider( dataset ) return dataproviders.chunk.Base64ChunkDataProvider( dataset_source, **settings ) + def _clean_and_set_mime_type(self, trans, mime): + if mime.lower() in XSS_VULNERABLE_MIME_TYPES: + if not getattr( trans.app.config, "serve_xss_vulnerable_mimetypes", True ): + mime = DEFAULT_MIME_TYPE + trans.response.set_content_type( mime ) + @dataproviders.decorators.has_dataproviders class Text( Data ): diff -r f58179ab488879a1a54821e98b4c65c048fa2fd6 -r 3a3c1a860c306df8d8176b0d2d455a5ed663f597 universe_wsgi.ini.sample --- a/universe_wsgi.ini.sample +++ b/universe_wsgi.ini.sample @@ -497,6 +497,12 @@ # unaltered output. #sanitize_all_html = True +# By default Galaxy will serve non-HTML tool output that may potentially +# contain browser executable JavaScript content as plain text. This will for +# instance cause SVG datasets to not render properly and so may be disabled +# by setting the following option to True. +#serve_xss_vulnerable_mimetypes = False + # Debug enables access to various config options useful for development and # debugging: use_lint, use_profile, use_printdebug and use_interactive. It # also causes the files used by PBS/SGE (submission script, output, and error) https://bitbucket.org/galaxy/galaxy-central/commits/9c915a92142d/ Changeset: 9c915a92142d Branch: stable User: jmchilton Date: 2014-02-26 17:30:09 Summary: Merged in jmchilton/galaxy-central-fork-1/stable (pull request #333) Disable rendering of user uploaded/tool generated SVG files. Affected #: 3 files diff -r 520c006a361987cf89f77c0e31e259a4a894ef60 -r 9c915a92142d3b796b0df82b8d097e5a5aae678f lib/galaxy/config.py --- a/lib/galaxy/config.py +++ b/lib/galaxy/config.py @@ -207,6 +207,7 @@ self.log_actions = string_as_bool( kwargs.get( 'log_actions', 'False' ) ) self.log_events = string_as_bool( kwargs.get( 'log_events', 'False' ) ) self.sanitize_all_html = string_as_bool( kwargs.get( 'sanitize_all_html', True ) ) + self.serve_xss_vulnerable_mimetypes = string_as_bool( kwargs.get( 'serve_xss_vulnerable_mimetypes', False ) ) self.enable_old_display_applications = string_as_bool( kwargs.get( "enable_old_display_applications", "True" ) ) self.ucsc_display_sites = kwargs.get( 'ucsc_display_sites', "main,test,archaea,ucla" ).lower().split(",") self.gbrowse_display_sites = kwargs.get( 'gbrowse_display_sites', "modencode,sgd_yeast,tair,wormbase,wormbase_ws120,wormbase_ws140,wormbase_ws170,wormbase_ws180,wormbase_ws190,wormbase_ws200,wormbase_ws204,wormbase_ws210,wormbase_ws220,wormbase_ws225" ).lower().split(",") diff -r 520c006a361987cf89f77c0e31e259a4a894ef60 -r 9c915a92142d3b796b0df82b8d097e5a5aae678f lib/galaxy/datatypes/data.py --- a/lib/galaxy/datatypes/data.py +++ b/lib/galaxy/datatypes/data.py @@ -21,6 +21,12 @@ eggs.require( "Paste" ) import paste +XSS_VULNERABLE_MIME_TYPES = [ + 'image/svg+xml', # Unfiltered by Galaxy and may contain JS that would be executed by some browsers. + 'application/xml', # Some browsers will evalute SVG embedded JS in such XML documents. +] +DEFAULT_MIME_TYPE = 'text/plain' # Vulnerable mime types will be replaced with this. + log = logging.getLogger(__name__) comptypes=[] # Is this being used anywhere, why was this here? -JohnC @@ -334,11 +340,12 @@ mime = trans.app.datatypes_registry.get_mimetype_by_extension( ".".split( file_path )[-1] ) except: mime = "text/plain" - trans.response.set_content_type( mime ) + self._clean_and_set_mime_type( trans, mime ) return open( file_path ) else: return trans.show_error_message( "Could not find '%s' on the extra files path %s." % ( filename, file_path ) ) - trans.response.set_content_type(data.get_mime()) + self._clean_and_set_mime_type( trans, data.get_mime() ) + trans.log_event( "Display dataset id: %s" % str( data.id ) ) from galaxy import datatypes #DBTODO REMOVE THIS AT REFACTOR if to_ext or isinstance(data.datatype, datatypes.binary.Binary): # Saving the file, or binary file @@ -624,6 +631,12 @@ dataset_source = dataproviders.dataset.DatasetDataProvider( dataset ) return dataproviders.chunk.Base64ChunkDataProvider( dataset_source, **settings ) + def _clean_and_set_mime_type(self, trans, mime): + if mime.lower() in XSS_VULNERABLE_MIME_TYPES: + if not getattr( trans.app.config, "serve_xss_vulnerable_mimetypes", True ): + mime = DEFAULT_MIME_TYPE + trans.response.set_content_type( mime ) + @dataproviders.decorators.has_dataproviders class Text( Data ): diff -r 520c006a361987cf89f77c0e31e259a4a894ef60 -r 9c915a92142d3b796b0df82b8d097e5a5aae678f universe_wsgi.ini.sample --- a/universe_wsgi.ini.sample +++ b/universe_wsgi.ini.sample @@ -497,6 +497,12 @@ # unaltered output. #sanitize_all_html = True +# By default Galaxy will serve non-HTML tool output that may potentially +# contain browser executable JavaScript content as plain text. This will for +# instance cause SVG datasets to not render properly and so may be disabled +# by setting the following option to True. +#serve_xss_vulnerable_mimetypes = False + # Debug enables access to various config options useful for development and # debugging: use_lint, use_profile, use_printdebug and use_interactive. It # also causes the files used by PBS/SGE (submission script, output, and error) Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: 2 new changesets
by commits-noreply＠bitbucket.org 26 Feb '14

26 Feb '14

2 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/520c006a3619/ Changeset: 520c006a3619 Branch: stable User: carlfeberhard Date: 2014-02-26 16:52:56 Summary: Improve embedded item editing in pages: a) preserve empty paragraphs, b) when the cursor is in an embedded title and enter is pressed: create a new paragraph before the item, when the cursor is in an embedded content and enter is pressed: create a new paragraph after the item Affected #: 4 files diff -r cf7ff18cb3573c42c4bd77459112b40298df0ff6 -r 520c006a361987cf89f77c0e31e259a4a894ef60 static/scripts/galaxy.pages.js --- a/static/scripts/galaxy.pages.js +++ b/static/scripts/galaxy.pages.js @@ -452,14 +452,14 @@ // item_class='History'). var item_elt_id = item_info.iclass + "-" + item_id; var item_embed_html = - "<p><div id='" + item_elt_id + "' class='embedded-item " + item_info.singular.toLowerCase() + + "<div id='" + item_elt_id + "' class='embedded-item " + item_info.singular.toLowerCase() + " placeholder'> \ <p class='title'>Embedded Galaxy " + item_info.singular + " '" + item_name + "'</p> \ <p class='content'> \ [Do not edit this block; Galaxy will fill it in with the annotated " + item_info.singular.toLowerCase() + " when it is displayed.] \ </p> \ - </div></p>"; + </div>"; // Insert embedded item into document. wym.insert(" "); // Needed to prevent insertion from occurring in child element in webkit browsers. @@ -468,18 +468,18 @@ // TODO: can we fix this? // Due to oddities of wym.insert() [likely due to inserting a <div> and/or a complete paragraph], an // empty paragraph (or two!) may be included either before an embedded item. Remove these paragraphs. - $("#" + item_elt_id, wym._doc.body).each( function() { - // Remove previous empty paragraphs. - var removing = true; - while (removing) - { - var prev_elt = $(this).prev(); - if ( prev_elt.length != 0 && jQuery.trim(prev_elt.text()) == "" ) - prev_elt.remove(); - else - removing = false; - } - }); + //$("#" + item_elt_id, wym._doc.body).each( function() { + // // Remove previous empty paragraphs. + // var removing = true; + // while (removing) + // { + // var prev_elt = $(this).prev(); + // if ( prev_elt.length != 0 && jQuery.trim(prev_elt.text()) == "" ) + // prev_elt.remove(); + // else + // removing = false; + // } + //}); }); hide_modal(); @@ -706,4 +706,4 @@ // editor.dialog(Galaxy.DIALOG_EMBED_PAGE); //} }); -}); \ No newline at end of file +}); diff -r cf7ff18cb3573c42c4bd77459112b40298df0ff6 -r 520c006a361987cf89f77c0e31e259a4a894ef60 static/scripts/libs/jquery/jquery.wymeditor.js --- a/static/scripts/libs/jquery/jquery.wymeditor.js +++ b/static/scripts/libs/jquery/jquery.wymeditor.js @@ -3432,9 +3432,17 @@ replace(new RegExp('(\s*<('+tags+')>\s*){2}(.*)(\s*<\/\\2>\s*){2}' ,''),'<\$2>\$3<\$2>'); }; +// keep empty paragraphs +// from: http://forum.wymeditor.org/forum/viewtopic.php?f=2&t=711#p2430 +//WYMeditor.XhtmlSaxListener.prototype.removeEmptyTags = function(xhtml) +//{ +// return xhtml.replace(new RegExp('<('+this.block_tags.join("|").replace(/\|td/,'') +// .replace(/\|th/, '')+')>(<br \/>| | |\\s)*<\/\\1>' ,'g'),''); +//}; WYMeditor.XhtmlSaxListener.prototype.removeEmptyTags = function(xhtml) { - return xhtml.replace(new RegExp('<('+this.block_tags.join("|").replace(/\|td/,'').replace(/\|th/, '')+')>(<br \/>| | |\\s)*<\/\\1>' ,'g'),''); + return xhtml.replace(new RegExp('<('+this.block_tags.join("|").replace(/\|td/,'').replace(/\|p/,'') + .replace(/\|th/, '')+')>(<br \/>| | |\\s)*<\/\\1>' ,'g'),''); }; WYMeditor.XhtmlSaxListener.prototype.removeBrInPre = function(xhtml) @@ -4197,6 +4205,28 @@ var wym = WYMeditor.INSTANCES[this.title]; var container = null; + if( evt.keyCode === WYMeditor.KEY.ENTER ){ + container = wym.selected(); + if( container ){ + var $container = $( container ), + $parent = $container.parent(), + $embedded = $container.parents( '.embedded-item' ); + if( $embedded.size() ){ + // if the cursor is in the title, add a para before + var $newNode = $( '<p/>' ); + if( $container.hasClass( 'title' ) ){ + $embedded.before( $newNode ); + // if the cursor is in the content, add after + } else if( $container.hasClass( 'content' ) ){ + $embedded.after( $newNode ); + } + wym.setFocusToNode( $newNode.get(0) ); + // prevent the default - wym's chop the text and split it up into paras + return false; + } + } + } + if(evt.ctrlKey){ if(evt.keyCode == 66){ //CTRL+b => STRONG @@ -4227,27 +4257,27 @@ //'this' is the doc var wym = WYMeditor.INSTANCES[this.title]; - + wym._selected_image = null; var container = null; if(evt.keyCode == 13 && !evt.shiftKey) { - + //RETURN key //cleanup <br><br> between paragraphs jQuery(wym._doc.body).children(WYMeditor.BR).remove(); } - + else if(evt.keyCode != 8 && evt.keyCode != 17 && evt.keyCode != 46 && evt.keyCode != 224 && !evt.metaKey && !evt.ctrlKey) { - + //NOT BACKSPACE, NOT DELETE, NOT CTRL, NOT COMMAND //text nodes replaced by P - + container = wym.selected(); var name = container.tagName.toLowerCase(); @@ -4301,7 +4331,7 @@ return; } } - + this.output += this.helper.tag(tag, attributes, true); }; @@ -4343,9 +4373,9 @@ this._iframe = iframe; this._doc = iframe.contentWindow.document; - + //add css rules from options - var styles = this._doc.styleSheets[0]; + var styles = this._doc.styleSheets[0]; var aCss = eval(this._options.editorStyles); this.addCssRules(this._doc, aCss); @@ -4354,28 +4384,28 @@ //set the text direction jQuery('html', this._doc).attr('dir', this._options.direction); - + //init designMode this._doc.designMode = "on"; //init html value this.html(this._wym._html); - + //pre-bind functions if(jQuery.isFunction(this._options.preBind)) this._options.preBind(this); - + //bind external events this._wym.bindEvents(); - + //bind editor keydown events jQuery(this._doc).bind("keydown", this.keydown); - + //bind editor events jQuery(this._doc).bind("keyup", this.keyup); - + //post-init functions if(jQuery.isFunction(this._options.postInit)) this._options.postInit(this); - + //add event listeners to doc elements, e.g. images this.listen(); }; @@ -4384,7 +4414,7 @@ if(param) this._doc.execCommand(cmd,false,param); else this._doc.execCommand(cmd); - + this.listen(); }; @@ -4406,7 +4436,7 @@ //keydown handler WYMeditor.WymClassOpera.prototype.keydown = function(evt) { - + //'this' is the doc var wym = WYMeditor.INSTANCES[this.title]; var sel = wym._iframe.contentWindow.getSelection(); @@ -4470,12 +4500,12 @@ this._iframe = iframe; this._doc = iframe.contentDocument; - + //add css rules from options - - var styles = this._doc.styleSheets[0]; + + var styles = this._doc.styleSheets[0]; var aCss = eval(this._options.editorStyles); - + this.addCssRules(this._doc, aCss); this._doc.title = this._wym._index; @@ -4485,25 +4515,25 @@ //init designMode this._doc.designMode = "on"; - + //init html value this.html(this._wym._html); - + //pre-bind functions if(jQuery.isFunction(this._options.preBind)) this._options.preBind(this); - + //bind external events this._wym.bindEvents(); - + //bind editor keydown events jQuery(this._doc).bind("keydown", this.keydown); - + //bind editor keyup events jQuery(this._doc).bind("keyup", this.keyup); - + //post-init functions if(jQuery.isFunction(this._options.postInit)) this._options.postInit(this); - + //add event listeners to doc elements, e.g. images this.listen(); }; @@ -4513,17 +4543,17 @@ if(!this.selected()) return(false); switch(cmd) { - + case WYMeditor.INDENT: case WYMeditor.OUTDENT: - - var focusNode = this.selected(); + + var focusNode = this.selected(); var sel = this._iframe.contentWindow.getSelection(); var anchorNode = sel.anchorNode; if(anchorNode.nodeName == "#text") anchorNode = anchorNode.parentNode; - + focusNode = this.findUp(focusNode, WYMeditor.BLOCKS); anchorNode = this.findUp(anchorNode, WYMeditor.BLOCKS); - + if(focusNode && focusNode == anchorNode && focusNode.tagName.toLowerCase() == WYMeditor.LI) { @@ -4548,13 +4578,13 @@ if(container) jQuery(container).replaceWith(jQuery(container).html()); break; - + default: if(param) this._doc.execCommand(cmd,'',param); else this._doc.execCommand(cmd,'',null); } - + //set to P if parent = BODY var container = this.selected(); if(container && container.tagName.toLowerCase() == WYMeditor.BODY) @@ -4586,9 +4616,31 @@ //keydown handler, mainly used for keyboard shortcuts WYMeditor.WymClassSafari.prototype.keydown = function(evt) { - + //'this' is the doc var wym = WYMeditor.INSTANCES[this.title]; + + if( evt.keyCode === WYMeditor.KEY.ENTER ){ + var container = wym.selected(); + if( container ){ + var $container = $( container ), + $parent = $container.parent(), + $embedded = $container.parents( '.embedded-item' ); + if( $embedded.size() ){ + // if the cursor is in the title, add a para before + var $newNode = $( '<p/>' ); + if( $container.hasClass( 'title' ) ){ + $embedded.before( $newNode ); + // if the cursor is in the content, add after + } else if( $container.hasClass( 'content' ) ){ + $embedded.after( $newNode ); + } + wym.setFocusToNode( $newNode.get(0) ); + // prevent the default - wym's chop the text and split it up into paras + return false; + } + } + } if(evt.ctrlKey){ if(evt.keyCode == 66){ diff -r cf7ff18cb3573c42c4bd77459112b40298df0ff6 -r 520c006a361987cf89f77c0e31e259a4a894ef60 static/scripts/packed/galaxy.pages.js --- a/static/scripts/packed/galaxy.pages.js +++ b/static/scripts/packed/galaxy.pages.js @@ -1,1 +1,1 @@ -var Galaxy={ITEM_HISTORY:"item_history",ITEM_DATASET:"item_dataset",ITEM_WORKFLOW:"item_workflow",ITEM_PAGE:"item_page",ITEM_VISUALIZATION:"item_visualization",DIALOG_HISTORY_LINK:"link_history",DIALOG_DATASET_LINK:"link_dataset",DIALOG_WORKFLOW_LINK:"link_workflow",DIALOG_PAGE_LINK:"link_page",DIALOG_VISUALIZATION_LINK:"link_visualization",DIALOG_EMBED_HISTORY:"embed_history",DIALOG_EMBED_DATASET:"embed_dataset",DIALOG_EMBED_WORKFLOW:"embed_workflow",DIALOG_EMBED_PAGE:"embed_page",DIALOG_EMBED_VISUALIZATION:"embed_visualization",DIALOG_HISTORY_ANNOTATE:"history_annotate",};function init_galaxy_elts(a){$(".annotation",a._doc.body).each(function(){$(this).click(function(){var b=a._doc.createRange();b.selectNodeContents(this);var d=window.getSelection();d.removeAllRanges();d.addRange(b);var c=""})})}function get_item_info(d){var f,c,b;switch(d){case (Galaxy.ITEM_HISTORY):f="History";c="Histories";b="history";item_class="History";break;case (Galaxy.ITEM_DATASET):f="Dataset";c="Datasets";b="dataset";item_class="HistoryDatasetAssociation";break;case (Galaxy.ITEM_WORKFLOW):f="Workflow";c="Workflows";b="workflow";item_class="StoredWorkflow";break;case (Galaxy.ITEM_PAGE):f="Page";c="Pages";b="page";item_class="Page";break;case (Galaxy.ITEM_VISUALIZATION):f="Visualization";c="Visualizations";b="visualization";item_class="Visualization";break}var e="list_"+c.toLowerCase()+"_for_selection";var a=list_objects_url.replace("LIST_ACTION",e);return{singular:f,plural:c,controller:b,iclass:item_class,list_ajax_url:a}}function make_item_importable(a,c,b){ajax_url=set_accessible_url.replace("ITEM_CONTROLLER",a);$.ajax({type:"POST",url:ajax_url,data:{id:c,accessible:"True"},error:function(){alert("Making "+b+" accessible failed")}})}WYMeditor.editor.prototype.dialog=function(i,e,g){var a=this;var b=a.uniqueStamp();var f=a.selected();function h(){$("#set_link_id").click(function(){$("#link_attribute_label").text("ID/Name");var k=$(".wym_href");k.addClass("wym_id").removeClass("wym_href");if(f){k.val($(f).attr("id"))}$(this).remove()})}if(i==WYMeditor.DIALOG_LINK){if(f){$(a._options.hrefSelector).val($(f).attr(WYMeditor.HREF));$(a._options.srcSelector).val($(f).attr(WYMeditor.SRC));$(a._options.titleSelector).val($(f).attr(WYMeditor.TITLE));$(a._options.altSelector).val($(f).attr(WYMeditor.ALT))}var c,d;if(f){c=$(f).attr("href");if(c==undefined){c=""}d=$(f).attr("title");if(d==undefined){d=""}}show_modal("Create Link","<div><div><label id='link_attribute_label'>URL <span style='float: right; font-size: 90%'><a href='#' id='set_link_id'>Create in-page anchor</a></span></label><br><input type='text' class='wym_href' value='"+c+"' size='40' /></div><div><label>Title</label><br><input type='text' class='wym_title' value='"+d+"' size='40' /></div><div>",{"Make link":function(){var m=$(a._options.hrefSelector).val()||"",k=$(".wym_id").val()||"",n=$(a._options.titleSelector).val()||"";if(m||k){a._exec(WYMeditor.CREATE_LINK,b);var l=$("a[href="+b+"]",a._doc.body);l.attr(WYMeditor.HREF,m).attr(WYMeditor.TITLE,n).attr("id",k);if(l.text().indexOf("wym-")===0){l.text(n)}}hide_modal()},Cancel:function(){hide_modal()}},{},h)}if(i==WYMeditor.DIALOG_IMAGE){if(a._selected_image){$(a._options.dialogImageSelector+" "+a._options.srcSelector).val($(a._selected_image).attr(WYMeditor.SRC));$(a._options.dialogImageSelector+" "+a._options.titleSelector).val($(a._selected_image).attr(WYMeditor.TITLE));$(a._options.dialogImageSelector+" "+a._options.altSelector).val($(a._selected_image).attr(WYMeditor.ALT))}show_modal("Image","<div class='row'><label>URL</label><br><input type='text' class='wym_src' value='' size='40' /></div><div class='row'><label>Alt text</label><br><input type='text' class='wym_alt' value='' size='40' /></div><div class='row'><label>Title</label><br><input type='text' class='wym_title' value='' size='40' /></div>",{Insert:function(){var k=$(a._options.srcSelector).val();if(k.length>0){a._exec(WYMeditor.INSERT_IMAGE,b);$("img[src$="+b+"]",a._doc.body).attr(WYMeditor.SRC,k).attr(WYMeditor.TITLE,$(a._options.titleSelector).val()).attr(WYMeditor.ALT,$(a._options.altSelector).val())}hide_modal()},Cancel:function(){hide_modal()}});return}if(i==WYMeditor.DIALOG_TABLE){show_modal("Table","<div class='row'><label>Caption</label><br><input type='text' class='wym_caption' value='' size='40' /></div><div class='row'><label>Summary</label><br><input type='text' class='wym_summary' value='' size='40' /></div><div class='row'><label>Number Of Rows<br></label><input type='text' class='wym_rows' value='3' size='3' /></div><div class='row'><label>Number Of Cols<br></label><input type='text' class='wym_cols' value='2' size='3' /></div>",{Insert:function(){var o=$(a._options.rowsSelector).val();var r=$(a._options.colsSelector).val();if(o>0&&r>0){var n=a._doc.createElement(WYMeditor.TABLE);var l=null;var q=null;var k=$(a._options.captionSelector).val();var p=n.createCaption();p.innerHTML=k;for(x=0;x<o;x++){l=n.insertRow(x);for(y=0;y<r;y++){l.insertCell(y)}}$(n).attr("summary",$(a._options.summarySelector).val());var m=$(a.findUp(a.container(),WYMeditor.MAIN_CONTAINERS)).get(0);if(!m||!m.parentNode){$(a._doc.body).append(n)}else{$(m).after(n)}}hide_modal()},Cancel:function(){hide_modal()}})}if(i==Galaxy.DIALOG_HISTORY_LINK||i==Galaxy.DIALOG_DATASET_LINK||i==Galaxy.DIALOG_WORKFLOW_LINK||i==Galaxy.DIALOG_PAGE_LINK||i==Galaxy.DIALOG_VISUALIZATION_LINK){var j;switch(i){case (Galaxy.DIALOG_HISTORY_LINK):j=get_item_info(Galaxy.ITEM_HISTORY);break;case (Galaxy.DIALOG_DATASET_LINK):j=get_item_info(Galaxy.ITEM_DATASET);break;case (Galaxy.DIALOG_WORKFLOW_LINK):j=get_item_info(Galaxy.ITEM_WORKFLOW);break;case (Galaxy.DIALOG_PAGE_LINK):j=get_item_info(Galaxy.ITEM_PAGE);break;case 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Galaxy={ITEM_HISTORY:"item_history",ITEM_DATASET:"item_dataset",ITEM_WORKFLOW:"item_workflow",ITEM_PAGE:"item_page",ITEM_VISUALIZATION:"item_visualization",DIALOG_HISTORY_LINK:"link_history",DIALOG_DATASET_LINK:"link_dataset",DIALOG_WORKFLOW_LINK:"link_workflow",DIALOG_PAGE_LINK:"link_page",DIALOG_VISUALIZATION_LINK:"link_visualization",DIALOG_EMBED_HISTORY:"embed_history",DIALOG_EMBED_DATASET:"embed_dataset",DIALOG_EMBED_WORKFLOW:"embed_workflow",DIALOG_EMBED_PAGE:"embed_page",DIALOG_EMBED_VISUALIZATION:"embed_visualization",DIALOG_HISTORY_ANNOTATE:"history_annotate",};function init_galaxy_elts(a){$(".annotation",a._doc.body).each(function(){$(this).click(function(){var b=a._doc.createRange();b.selectNodeContents(this);var d=window.getSelection();d.removeAllRanges();d.addRange(b);var c=""})})}function get_item_info(d){var f,c,b;switch(d){case (Galaxy.ITEM_HISTORY):f="History";c="Histories";b="history";item_class="History";break;case 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Object</a></div>").addClass("galaxy-page-editor-button");$(".wym_area_top").append(c);make_popupmenu(c,{"Insert History Link":function(){d.dialog(Galaxy.DIALOG_HISTORY_LINK)},"Insert Dataset Link":function(){d.dialog(Galaxy.DIALOG_DATASET_LINK)},"Insert Workflow Link":function(){d.dialog(Galaxy.DIALOG_WORKFLOW_LINK)},"Insert Page Link":function(){d.dialog(Galaxy.DIALOG_PAGE_LINK)},"Insert Visualization Link":function(){d.dialog(Galaxy.DIALOG_VISUALIZATION_LINK)},});var e=$("<div><a id='embed-galaxy-object' class='action-button popup' href='#'>Embed Galaxy Object</a></div>").addClass("galaxy-page-editor-button");$(".wym_area_top").append(e);make_popupmenu(e,{"Embed History":function(){d.dialog(Galaxy.DIALOG_EMBED_HISTORY)},"Embed Dataset":function(){d.dialog(Galaxy.DIALOG_EMBED_DATASET)},"Embed Workflow":function(){d.dialog(Galaxy.DIALOG_EMBED_WORKFLOW)},"Embed Visualization":function(){d.dialog(Galaxy.DIALOG_EMBED_VISUALIZATION)},})}); \ No newline at end of file diff -r cf7ff18cb3573c42c4bd77459112b40298df0ff6 -r 520c006a361987cf89f77c0e31e259a4a894ef60 static/scripts/packed/libs/jquery/jquery.wymeditor.js --- a/static/scripts/packed/libs/jquery/jquery.wymeditor.js +++ b/static/scripts/packed/libs/jquery/jquery.wymeditor.js @@ -1,1 +1,1 @@ -if(!WYMeditor){var WYMeditor={}}(function(){if(!window.console||!console.firebug){var b=["log","debug","info","warn","error","assert","dir","dirxml","group","groupEnd","time","timeEnd","count","trace","profile","profileEnd"];WYMeditor.console={};for(var a=0;a<b.length;++a){WYMeditor.console[b[a]]=function(){}}}else{WYMeditor.console=window.console}})();jQuery.extend(WYMeditor,{VERSION:"0.5-rc1",INSTANCES:[],STRINGS:[],SKINS:[],NAME:"name",INDEX:"{Wym_Index}",WYM_INDEX:"wym_index",BASE_PATH:"{Wym_Base_Path}",CSS_PATH:"{Wym_Css_Path}",WYM_PATH:"{Wym_Wym_Path}",SKINS_DEFAULT_PATH:"skins/",SKINS_DEFAULT_CSS:"skin.css",SKINS_DEFAULT_JS:"skin.js",LANG_DEFAULT_PATH:"lang/",IFRAME_BASE_PATH:"{Wym_Iframe_Base_Path}",IFRAME_DEFAULT:"iframe/default/",JQUERY_PATH:"{Wym_Jquery_Path}",DIRECTION:"{Wym_Direction}",LOGO:"{Wym_Logo}",TOOLS:"{Wym_Tools}",TOOLS_ITEMS:"{Wym_Tools_Items}",TOOL_NAME:"{Wym_Tool_Name}",TOOL_TITLE:"{Wym_Tool_Title}",TOOL_CLASS:"{Wym_Tool_Class}",CLASSES:"{Wym_Classes}",CLASSES_ITEMS:"{Wym_Classes_Items}",CLASS_NAME:"{Wym_Class_Name}",CLASS_TITLE:"{Wym_Class_Title}",CONTAINERS:"{Wym_Containers}",CONTAINERS_ITEMS:"{Wym_Containers_Items}",CONTAINER_NAME:"{Wym_Container_Name}",CONTAINER_TITLE:"{Wym_Containers_Title}",CONTAINER_CLASS:"{Wym_Container_Class}",HTML:"{Wym_Html}",IFRAME:"{Wym_Iframe}",STATUS:"{Wym_Status}",DIALOG_TITLE:"{Wym_Dialog_Title}",DIALOG_BODY:"{Wym_Dialog_Body}",STRING:"string",BODY:"body",DIV:"div",P:"p",H1:"h1",H2:"h2",H3:"h3",H4:"h4",H5:"h5",H6:"h6",PRE:"pre",BLOCKQUOTE:"blockquote",A:"a",BR:"br",IMG:"img",TABLE:"table",TD:"td",TH:"th",UL:"ul",OL:"ol",LI:"li",CLASS:"class",HREF:"href",SRC:"src",TITLE:"title",ALT:"alt",DIALOG_LINK:"Link",DIALOG_IMAGE:"Image",DIALOG_TABLE:"Table",DIALOG_PASTE:"Paste_From_Word",BOLD:"Bold",ITALIC:"Italic",CREATE_LINK:"CreateLink",INSERT_IMAGE:"InsertImage",INSERT_TABLE:"InsertTable",INSERT_HTML:"InsertHTML",PASTE:"Paste",INDENT:"Indent",OUTDENT:"Outdent",TOGGLE_HTML:"ToggleHtml",FORMAT_BLOCK:"FormatBlock",PREVIEW:"Preview",UNLINK:"Unlink",INSERT_UNORDEREDLIST:"InsertUnorderedList",INSERT_ORDEREDLIST:"InsertOrderedList",MAIN_CONTAINERS:new Array("p","h1","h2","h3","h4","h5","h6","pre","blockquote"),BLOCKS:new Array("address","blockquote","div","dl","fieldset","form","h1","h2","h3","h4","h5","h6","hr","noscript","ol","p","pre","table","ul","dd","dt","li","tbody","td","tfoot","th","thead","tr"),KEY:{BACKSPACE:8,ENTER:13,END:35,HOME:36,LEFT:37,UP:38,RIGHT:39,DOWN:40,CURSOR:new Array(37,38,39,40),DELETE:46},NODE:{ELEMENT:1,ATTRIBUTE:2,TEXT:3},editor:function(b,a){this._index=WYMeditor.INSTANCES.push(this)-1;this._element=b;this._options=a;this._html=jQuery(b).val();if(this._options.html){this._html=this._options.html}this._options.basePath=this._options.basePath||this.computeBasePath();this._options.skinPath=this._options.skinPath||this._options.basePath+WYMeditor.SKINS_DEFAULT_PATH+this._options.skin+"/";this._options.wymPath=this._options.wymPath||this.computeWymPath();this._options.langPath=this._options.langPath||this._options.basePath+WYMeditor.LANG_DEFAULT_PATH;this._options.iframeBasePath=this._options.iframeBasePath||this._options.basePath+WYMeditor.IFRAME_DEFAULT;this._options.jQueryPath=this._options.jQueryPath||this.computeJqueryPath();this.init()}});jQuery.fn.wymeditor=function(a){a=jQuery.extend({html:"",basePath:false,skinPath:false,wymPath:false,iframeBasePath:false,jQueryPath:false,styles:false,stylesheet:false,skin:"default",initSkin:true,loadSkin:true,lang:"en",direction:"ltr",boxHtml:"<div class='wym_box'><div class='wym_area_top'>"+WYMeditor.TOOLS+"</div><div class='wym_area_left'></div><div class='wym_area_right'>"+WYMeditor.CONTAINERS+WYMeditor.CLASSES+"</div><div class='wym_area_main'>"+WYMeditor.HTML+WYMeditor.IFRAME+WYMeditor.STATUS+"</div><div class='wym_area_bottom'>"+WYMeditor.LOGO+"</div></div>",logoHtml:"<a class='wym_wymeditor_link' href='http://www.wymeditor.org/'>WYMeditor</a>",iframeHtml:"<div class='wym_iframe wym_section'><iframe src='/page/get_editor_iframe' onload='this.contentWindow.parent.WYMeditor.INSTANCES["+WYMeditor.INDEX+"].initIframe(this)'></iframe></div>",editorStyles:[],toolsHtml:"<div class='wym_tools wym_section'><h2>{Tools}</h2><ul>"+WYMeditor.TOOLS_ITEMS+"</ul></div>",toolsItemHtml:"<li class='"+WYMeditor.TOOL_CLASS+"'><a href='#' name='"+WYMeditor.TOOL_NAME+"' title='"+WYMeditor.TOOL_TITLE+"'>"+WYMeditor.TOOL_TITLE+"</a></li>",toolsItems:[{name:"Bold",title:"Strong",css:"wym_tools_strong"},{name:"Italic",title:"Emphasis",css:"wym_tools_emphasis"},{name:"Superscript",title:"Superscript",css:"wym_tools_superscript"},{name:"Subscript",title:"Subscript",css:"wym_tools_subscript"},{name:"InsertOrderedList",title:"Ordered_List",css:"wym_tools_ordered_list"},{name:"InsertUnorderedList",title:"Unordered_List",css:"wym_tools_unordered_list"},{name:"Indent",title:"Indent",css:"wym_tools_indent"},{name:"Outdent",title:"Outdent",css:"wym_tools_outdent"},{name:"Undo",title:"Undo",css:"wym_tools_undo"},{name:"Redo",title:"Redo",css:"wym_tools_redo"},{name:"CreateLink",title:"Link",css:"wym_tools_link"},{name:"Unlink",title:"Unlink",css:"wym_tools_unlink"},{name:"InsertImage",title:"Image",css:"wym_tools_image"},{name:"InsertTable",title:"Table",css:"wym_tools_table"},{name:"Paste",title:"Paste_From_Word",css:"wym_tools_paste"},{name:"ToggleHtml",title:"HTML",css:"wym_tools_html"},{name:"Preview",title:"Preview",css:"wym_tools_preview"}],containersHtml:"<div class='wym_containers wym_section'><h2>{Containers}</h2><ul>"+WYMeditor.CONTAINERS_ITEMS+"</ul></div>",containersItemHtml:"<li class='"+WYMeditor.CONTAINER_CLASS+"'><a href='#' name='"+WYMeditor.CONTAINER_NAME+"'>"+WYMeditor.CONTAINER_TITLE+"</a></li>",containersItems:[{name:"P",title:"Paragraph",css:"wym_containers_p"},{name:"H1",title:"Heading_1",css:"wym_containers_h1"},{name:"H2",title:"Heading_2",css:"wym_containers_h2"},{name:"H3",title:"Heading_3",css:"wym_containers_h3"},{name:"H4",title:"Heading_4",css:"wym_containers_h4"},{name:"H5",title:"Heading_5",css:"wym_containers_h5"},{name:"H6",title:"Heading_6",css:"wym_containers_h6"},{name:"PRE",title:"Preformatted",css:"wym_containers_pre"},{name:"BLOCKQUOTE",title:"Blockquote",css:"wym_containers_blockquote"},{name:"TH",title:"Table_Header",css:"wym_containers_th"}],classesHtml:"<div class='wym_classes wym_section'><h2>{Classes}</h2><ul>"+WYMeditor.CLASSES_ITEMS+"</ul></div>",classesItemHtml:"<li><a href='#' name='"+WYMeditor.CLASS_NAME+"'>"+WYMeditor.CLASS_TITLE+"</a></li>",classesItems:[],statusHtml:"<div class='wym_status wym_section'><h2>{Status}</h2></div>",htmlHtml:"<div class='wym_html wym_section'><h2>{Source_Code}</h2><textarea class='wym_html_val'></textarea></div>",boxSelector:".wym_box",toolsSelector:".wym_tools",toolsListSelector:" ul",containersSelector:".wym_containers",classesSelector:".wym_classes",htmlSelector:".wym_html",iframeSelector:".wym_iframe iframe",iframeBodySelector:".wym_iframe",statusSelector:".wym_status",toolSelector:".wym_tools a",containerSelector:".wym_containers a",classSelector:".wym_classes a",htmlValSelector:".wym_html_val",hrefSelector:".wym_href",srcSelector:".wym_src",titleSelector:".wym_title",altSelector:".wym_alt",textSelector:".wym_text",rowsSelector:".wym_rows",colsSelector:".wym_cols",captionSelector:".wym_caption",summarySelector:".wym_summary",submitSelector:".wym_submit",cancelSelector:".wym_cancel",previewSelector:"",dialogTypeSelector:".wym_dialog_type",dialogLinkSelector:".wym_dialog_link",dialogImageSelector:".wym_dialog_image",dialogTableSelector:".wym_dialog_table",dialogPasteSelector:".wym_dialog_paste",dialogPreviewSelector:".wym_dialog_preview",updateSelector:".wymupdate",updateEvent:"click",dialogFeatures:"menubar=no,titlebar=no,toolbar=no,resizable=no,width=560,height=300,top=0,left=0",dialogFeaturesPreview:"menubar=no,titlebar=no,toolbar=no,resizable=no,scrollbars=yes,width=560,height=300,top=0,left=0",dialogHtml:"<!DOCTYPE html PUBLIC '-//W3C//DTD XHTML 1.0 Strict//EN' 'http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd'><html dir='"+WYMeditor.DIRECTION+"'><head><link rel='stylesheet' type='text/css' media='screen' href='"+WYMeditor.CSS_PATH+"' /><title>"+WYMeditor.DIALOG_TITLE+"</title><script type='text/javascript' src='"+WYMeditor.JQUERY_PATH+"'><\/script><script type='text/javascript' src='"+WYMeditor.WYM_PATH+"'><\/script></head>"+WYMeditor.DIALOG_BODY+"</html>",dialogLinkHtml:"<body class='wym_dialog wym_dialog_link' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><fieldset><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_LINK+"' /><legend>{Link}</legend><div class='row'><label>{URL}</label><input type='text' class='wym_href' value='' size='40' /></div><div class='row'><label>{Title}</label><input type='text' class='wym_title' value='' size='40' /></div><div class='row row-indent'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogImageHtml:"<body class='wym_dialog wym_dialog_image' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><fieldset><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_IMAGE+"' /><legend>{Image}</legend><div class='row'><label>{URL}</label><input type='text' class='wym_src' value='' size='40' /></div><div class='row'><label>{Alternative_Text}</label><input type='text' class='wym_alt' value='' size='40' /></div><div class='row'><label>{Title}</label><input type='text' class='wym_title' value='' size='40' /></div><div class='row row-indent'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogTableHtml:"<body class='wym_dialog wym_dialog_table' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><fieldset><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_TABLE+"' /><legend>{Table}</legend><div class='row'><label>{Caption}</label><input type='text' class='wym_caption' value='' size='40' /></div><div class='row'><label>{Summary}</label><input type='text' class='wym_summary' value='' size='40' /></div><div class='row'><label>{Number_Of_Rows}</label><input type='text' class='wym_rows' value='3' size='3' /></div><div class='row'><label>{Number_Of_Cols}</label><input type='text' class='wym_cols' value='2' size='3' /></div><div class='row row-indent'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogPasteHtml:"<body class='wym_dialog wym_dialog_paste' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_PASTE+"' /><fieldset><legend>{Paste_From_Word}</legend><div class='row'><textarea class='wym_text' rows='10' cols='50'></textarea></div><div class='row'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogPreviewHtml:"<body class='wym_dialog wym_dialog_preview' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'></body>",dialogStyles:[],stringDelimiterLeft:"{",stringDelimiterRight:"}",preInit:null,preBind:null,postInit:null,preInitDialog:null,postInitDialog:null},a);return this.each(function(){new WYMeditor.editor(jQuery(this),a)})};jQuery.extend({wymeditors:function(a){return(WYMeditor.INSTANCES[a])}});WYMeditor.editor.prototype.init=function(){if(jQuery.browser.msie){var WymClass=new WYMeditor.WymClassExplorer(this)}else{if(jQuery.browser.mozilla){var WymClass=new WYMeditor.WymClassMozilla(this)}else{if(jQuery.browser.opera){var WymClass=new WYMeditor.WymClassOpera(this)}else{if(jQuery.browser.safari||jQuery.browser.chrome){var WymClass=new WYMeditor.WymClassSafari(this)}}}}if(WymClass){if(jQuery.isFunction(this._options.preInit)){this._options.preInit(this)}var SaxListener=new WYMeditor.XhtmlSaxListener();jQuery.extend(SaxListener,WymClass);this.parser=new WYMeditor.XhtmlParser(SaxListener);if(this._options.styles||this._options.stylesheet){this.configureEditorUsingRawCss()}this.helper=new WYMeditor.XmlHelper();for(var prop in WymClass){this[prop]=WymClass[prop]}this._box=jQuery(this._element).hide().after(this._options.boxHtml).next().addClass("wym_box_"+this._index);if(jQuery.isFunction(jQuery.fn.data)){jQuery.data(this._box.get(0),WYMeditor.WYM_INDEX,this._index);jQuery.data(this._element.get(0),WYMeditor.WYM_INDEX,this._index)}var h=WYMeditor.Helper;var iframeHtml=this._options.iframeHtml;iframeHtml=h.replaceAll(iframeHtml,WYMeditor.INDEX,this._index);iframeHtml=h.replaceAll(iframeHtml,WYMeditor.IFRAME_BASE_PATH,this._options.iframeBasePath);var boxHtml=jQuery(this._box).html();boxHtml=h.replaceAll(boxHtml,WYMeditor.LOGO,this._options.logoHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.TOOLS,this._options.toolsHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.CONTAINERS,this._options.containersHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.CLASSES,this._options.classesHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.HTML,this._options.htmlHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.IFRAME,iframeHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.STATUS,this._options.statusHtml);var aTools=eval(this._options.toolsItems);var sTools="";for(var i=0;i<aTools.length;i++){var oTool=aTools[i];if(oTool.name&&oTool.title){var sTool=this._options.toolsItemHtml}var sTool=h.replaceAll(sTool,WYMeditor.TOOL_NAME,oTool.name);sTool=h.replaceAll(sTool,WYMeditor.TOOL_TITLE,this._options.stringDelimiterLeft+oTool.title+this._options.stringDelimiterRight);sTool=h.replaceAll(sTool,WYMeditor.TOOL_CLASS,oTool.css);sTools+=sTool}boxHtml=h.replaceAll(boxHtml,WYMeditor.TOOLS_ITEMS,sTools);var aClasses=eval(this._options.classesItems);var sClasses="";for(var i=0;i<aClasses.length;i++){var oClass=aClasses[i];if(oClass.name&&oClass.title){var sClass=this._options.classesItemHtml}sClass=h.replaceAll(sClass,WYMeditor.CLASS_NAME,oClass.name);sClass=h.replaceAll(sClass,WYMeditor.CLASS_TITLE,oClass.title);sClasses+=sClass}boxHtml=h.replaceAll(boxHtml,WYMeditor.CLASSES_ITEMS,sClasses);var aContainers=eval(this._options.containersItems);var sContainers="";for(var i=0;i<aContainers.length;i++){var oContainer=aContainers[i];if(oContainer.name&&oContainer.title){var sContainer=this._options.containersItemHtml}sContainer=h.replaceAll(sContainer,WYMeditor.CONTAINER_NAME,oContainer.name);sContainer=h.replaceAll(sContainer,WYMeditor.CONTAINER_TITLE,this._options.stringDelimiterLeft+oContainer.title+this._options.stringDelimiterRight);sContainer=h.replaceAll(sContainer,WYMeditor.CONTAINER_CLASS,oContainer.css);sContainers+=sContainer}boxHtml=h.replaceAll(boxHtml,WYMeditor.CONTAINERS_ITEMS,sContainers);boxHtml=this.replaceStrings(boxHtml);jQuery(this._box).html(boxHtml);jQuery(this._box).find(this._options.htmlSelector).hide();this.loadSkin()}};WYMeditor.editor.prototype.bindEvents=function(){var wym=this;jQuery(this._box).find(this._options.toolSelector).click(function(){wym._iframe.contentWindow.focus();wym.exec(jQuery(this).attr(WYMeditor.NAME));return(false)});jQuery(this._box).find(this._options.containerSelector).click(function(){wym.container(jQuery(this).attr(WYMeditor.NAME));return(false)});jQuery(this._box).find(this._options.htmlValSelector).keyup(function(){jQuery(wym._doc.body).html(jQuery(this).val())}).focus(function(){jQuery(this).toggleClass("hasfocus")}).blur(function(){jQuery(this).toggleClass("hasfocus")});jQuery(this._box).find(this._options.classSelector).click(function(){var aClasses=eval(wym._options.classesItems);var sName=jQuery(this).attr(WYMeditor.NAME);var oClass=WYMeditor.Helper.findByName(aClasses,sName);if(oClass){var jqexpr=oClass.expr;wym.toggleClass(sName,jqexpr)}wym._iframe.contentWindow.focus();return(false)});jQuery(this._options.updateSelector).bind(this._options.updateEvent,function(){wym.update()})};WYMeditor.editor.prototype.ready=function(){return(this._doc!=null)};WYMeditor.editor.prototype.box=function(){return(this._box)};WYMeditor.editor.prototype.html=function(a){if(typeof a==="string"){jQuery(this._doc.body).html(a)}else{return(jQuery(this._doc.body).html())}};WYMeditor.editor.prototype.xhtml=function(){return this.parser.parse(this.html())};WYMeditor.editor.prototype.exec=function(b){switch(b){case WYMeditor.CREATE_LINK:var a=this.container();if(a||this._selected_image){this.dialog(WYMeditor.DIALOG_LINK)}break;case WYMeditor.INSERT_IMAGE:this.dialog(WYMeditor.DIALOG_IMAGE);break;case WYMeditor.INSERT_TABLE:this.dialog(WYMeditor.DIALOG_TABLE);break;case WYMeditor.PASTE:this.dialog(WYMeditor.DIALOG_PASTE);break;case WYMeditor.TOGGLE_HTML:this.update();this.toggleHtml();if(!jQuery(this._box).find(this._options.htmlSelector).is(":visible")){this.listen()}break;case WYMeditor.PREVIEW:this.dialog(WYMeditor.PREVIEW,this._options.dialogFeaturesPreview);break;default:this._exec(b);break}};WYMeditor.editor.prototype.container=function(a){if(a){var d=null;if(a.toLowerCase()==WYMeditor.TH){d=this.container();switch(d.tagName.toLowerCase()){case WYMeditor.TD:case WYMeditor.TH:break;default:var e=new Array(WYMeditor.TD,WYMeditor.TH);d=this.findUp(this.container(),e);break}if(d!=null){a=(d.tagName.toLowerCase()==WYMeditor.TD)?WYMeditor.TH:WYMeditor.TD;this.switchTo(d,a);this.update()}}else{var e=new Array(WYMeditor.P,WYMeditor.H1,WYMeditor.H2,WYMeditor.H3,WYMeditor.H4,WYMeditor.H5,WYMeditor.H6,WYMeditor.PRE,WYMeditor.BLOCKQUOTE);d=this.findUp(this.container(),e);if(d){var i=null;if(a.toLowerCase()==WYMeditor.BLOCKQUOTE){var f=this.findUp(this.container(),WYMeditor.BLOCKQUOTE);if(f==null){i=this._doc.createElement(a);d.parentNode.insertBefore(i,d);i.appendChild(d);this.setFocusToNode(i.firstChild)}else{var c=f.childNodes;var g=c.length;var b=null;if(g>0){b=c.item(0)}for(var h=0;h<g;h++){f.parentNode.insertBefore(c.item(0),f)}f.parentNode.removeChild(f);if(b){this.setFocusToNode(b)}}}else{this.switchTo(d,a)}this.update()}}}else{return(this.selected())}};WYMeditor.editor.prototype.toggleClass=function(c,b){var a=(this._selected_image?this._selected_image:jQuery(this.selected()));a=jQuery(a).parentsOrSelf(b);jQuery(a).toggleClass(c);if(!jQuery(a).attr(WYMeditor.CLASS)){jQuery(a).removeAttr(this._class)}};WYMeditor.editor.prototype.findUp=function(d,c){if(d){var e=d.tagName.toLowerCase();if(typeof(c)==WYMeditor.STRING){while(e!=c&&e!=WYMeditor.BODY){d=d.parentNode;e=d.tagName.toLowerCase()}}else{var b=false;while(!b&&e!=WYMeditor.BODY){for(var a=0;a<c.length;a++){if(e==c[a]){b=true;break}}if(!b){d=d.parentNode;e=d.tagName.toLowerCase()}}}if(e!=WYMeditor.BODY){return(d)}else{return(null)}}else{return(null)}};WYMeditor.editor.prototype.switchTo=function(c,d){var b=this._doc.createElement(d);var a=jQuery(c).html();c.parentNode.replaceChild(b,c);jQuery(b).html(a);this.setFocusToNode(b)};WYMeditor.editor.prototype.replaceStrings=function(sVal){if(!WYMeditor.STRINGS[this._options.lang]){try{eval(jQuery.ajax({url:this._options.langPath+this._options.lang+".js",async:false}).responseText)}catch(e){WYMeditor.console.error("WYMeditor: error while parsing language file.");return sVal}}for(var key in WYMeditor.STRINGS[this._options.lang]){sVal=WYMeditor.Helper.replaceAll(sVal,this._options.stringDelimiterLeft+key+this._options.stringDelimiterRight,WYMeditor.STRINGS[this._options.lang][key])}return(sVal)};WYMeditor.editor.prototype.encloseString=function(a){return(this._options.stringDelimiterLeft+a+this._options.stringDelimiterRight)};WYMeditor.editor.prototype.status=function(a){jQuery(this._box).find(this._options.statusSelector).html(a)};WYMeditor.editor.prototype.update=function(){var a=this.xhtml();jQuery(this._element).val(a);jQuery(this._box).find(this._options.htmlValSelector).not(".hasfocus").val(a)};WYMeditor.editor.prototype.dialog=function(j,c,f){var a=c||this._wym._options.dialogFeatures;var d=window.open("","dialog",a);if(d){var b="";switch(j){case (WYMeditor.DIALOG_LINK):b=this._options.dialogLinkHtml;break;case (WYMeditor.DIALOG_IMAGE):b=this._options.dialogImageHtml;break;case (WYMeditor.DIALOG_TABLE):b=this._options.dialogTableHtml;break;case (WYMeditor.DIALOG_PASTE):b=this._options.dialogPasteHtml;break;case (WYMeditor.PREVIEW):b=this._options.dialogPreviewHtml;break;default:b=f}var e=WYMeditor.Helper;var g=this._options.dialogHtml;g=e.replaceAll(g,WYMeditor.BASE_PATH,this._options.basePath);g=e.replaceAll(g,WYMeditor.DIRECTION,this._options.direction);g=e.replaceAll(g,WYMeditor.CSS_PATH,this._options.skinPath+WYMeditor.SKINS_DEFAULT_CSS);g=e.replaceAll(g,WYMeditor.WYM_PATH,this._options.wymPath);g=e.replaceAll(g,WYMeditor.JQUERY_PATH,this._options.jQueryPath);g=e.replaceAll(g,WYMeditor.DIALOG_TITLE,this.encloseString(j));g=e.replaceAll(g,WYMeditor.DIALOG_BODY,b);g=e.replaceAll(g,WYMeditor.INDEX,this._index);g=this.replaceStrings(g);var i=d.document;i.write(g);i.close()}};WYMeditor.editor.prototype.toggleHtml=function(){jQuery(this._box).find(this._options.htmlSelector).toggle()};WYMeditor.editor.prototype.uniqueStamp=function(){var a=new Date();return("wym-"+a.getTime())};WYMeditor.editor.prototype.paste=function(b){var e;var a=this.selected();var c=b.split(this._newLine+this._newLine);var d=new RegExp(this._newLine,"g");if(a&&a.tagName.toLowerCase()!=WYMeditor.BODY){for(x=c.length-1;x>=0;x--){e=c[x];e=e.replace(d,"<br />");jQuery(a).after("<p>"+e+"</p>")}}else{for(x=0;x<c.length;x++){e=c[x];e=e.replace(d,"<br />");jQuery(this._doc.body).append("<p>"+e+"</p>")}}};WYMeditor.editor.prototype.insert=function(a){if(this._iframe.contentWindow.getSelection().focusNode!=null){this._exec(WYMeditor.INSERT_HTML,a)}else{this.paste(a)}};WYMeditor.editor.prototype.wrap=function(b,a){if(this._iframe.contentWindow.getSelection().focusNode!=null){this._exec(WYMeditor.INSERT_HTML,b+this._iframe.contentWindow.getSelection().toString()+a)}};WYMeditor.editor.prototype.unwrap=function(){if(this._iframe.contentWindow.getSelection().focusNode!=null){this._exec(WYMeditor.INSERT_HTML,this._iframe.contentWindow.getSelection().toString())}};WYMeditor.editor.prototype.addCssRules=function(e,c){var b=e.styleSheets[0];if(b){for(var a=0;a<c.length;a++){var d=c[a];if(d.name&&d.css){this.addCssRule(b,d)}}}};WYMeditor.editor.prototype.computeBasePath=function(){return jQuery(jQuery.grep(jQuery("script"),function(a){return(a.src&&a.src.match(/jquery\.wymeditor(\.pack|\.min|\.packed)?\.js(\?.*)?$/))})).attr("src").replace(/jquery\.wymeditor(\.pack|\.min|\.packed)?\.js(\?.*)?$/,"")};WYMeditor.editor.prototype.computeWymPath=function(){return jQuery(jQuery.grep(jQuery("script"),function(a){return(a.src&&a.src.match(/jquery\.wymeditor(\.pack|\.min|\.packed)?\.js(\?.*)?$/))})).attr("src")};WYMeditor.editor.prototype.computeJqueryPath=function(){return jQuery(jQuery.grep(jQuery("script"),function(a){return(a.src&&a.src.match(/jquery(-(.*)){0,1}(\.pack|\.min|\.packed)?\.js(\?.*)?$/))})).attr("src")};WYMeditor.editor.prototype.computeCssPath=function(){return jQuery(jQuery.grep(jQuery("link"),function(a){return(a.href&&a.href.match(/wymeditor\/skins\/(.*)screen\.css(\?.*)?$/))})).attr("href")};WYMeditor.editor.prototype.configureEditorUsingRawCss=function(){var a=new WYMeditor.WymCssParser();if(this._options.stylesheet){a.parse(jQuery.ajax({url:this._options.stylesheet,async:false}).responseText)}else{a.parse(this._options.styles,false)}if(this._options.classesItems.length==0){this._options.classesItems=a.css_settings.classesItems}if(this._options.editorStyles.length==0){this._options.editorStyles=a.css_settings.editorStyles}if(this._options.dialogStyles.length==0){this._options.dialogStyles=a.css_settings.dialogStyles}};WYMeditor.editor.prototype.listen=function(){jQuery(this._doc.body).bind("mousedown",this.mousedown);var a=this._doc.body.getElementsByTagName("img");for(var b=0;b<a.length;b++){jQuery(a[b]).bind("mousedown",this.mousedown)}};WYMeditor.editor.prototype.mousedown=function(a){var b=WYMeditor.INSTANCES[this.ownerDocument.title];b._selected_image=(this.tagName.toLowerCase()==WYMeditor.IMG)?this:null;a.stopPropagation()};WYMeditor.loadCss=function(a){var c=document.createElement("link");c.rel="stylesheet";c.href=a;var b=jQuery("head").get(0);b.appendChild(c)};WYMeditor.editor.prototype.loadSkin=function(){if(this._options.loadSkin&&!WYMeditor.SKINS[this._options.skin]){var found=false;var rExp=new RegExp(this._options.skin+"/"+WYMeditor.SKINS_DEFAULT_CSS+"$");jQuery("link").each(function(){if(this.href.match(rExp)){found=true}});if(!found){WYMeditor.loadCss(this._options.skinPath+WYMeditor.SKINS_DEFAULT_CSS)}}jQuery(this._box).addClass("wym_skin_"+this._options.skin);if(this._options.initSkin&&!WYMeditor.SKINS[this._options.skin]){eval(jQuery.ajax({url:this._options.skinPath+WYMeditor.SKINS_DEFAULT_JS,async:false}).responseText)}if(WYMeditor.SKINS[this._options.skin]&&WYMeditor.SKINS[this._options.skin].init){WYMeditor.SKINS[this._options.skin].init(this)}};WYMeditor.INIT_DIALOG=function(index){var wym=window.opener.WYMeditor.INSTANCES[index];var doc=window.document;var selected=wym.selected();var dialogType=jQuery(wym._options.dialogTypeSelector).val();var sStamp=wym.uniqueStamp();switch(dialogType){case WYMeditor.DIALOG_LINK:if(selected&&selected.tagName&&selected.tagName.toLowerCase!=WYMeditor.A){selected=jQuery(selected).parentsOrSelf(WYMeditor.A)}if(!selected&&wym._selected_image){selected=jQuery(wym._selected_image).parentsOrSelf(WYMeditor.A)}break}if(jQuery.isFunction(wym._options.preInitDialog)){wym._options.preInitDialog(wym,window)}var styles=doc.styleSheets[0];var aCss=eval(wym._options.dialogStyles);wym.addCssRules(doc,aCss);if(selected){jQuery(wym._options.hrefSelector).val(jQuery(selected).attr(WYMeditor.HREF));jQuery(wym._options.srcSelector).val(jQuery(selected).attr(WYMeditor.SRC));jQuery(wym._options.titleSelector).val(jQuery(selected).attr(WYMeditor.TITLE));jQuery(wym._options.altSelector).val(jQuery(selected).attr(WYMeditor.ALT))}if(wym._selected_image){jQuery(wym._options.dialogImageSelector+" "+wym._options.srcSelector).val(jQuery(wym._selected_image).attr(WYMeditor.SRC));jQuery(wym._options.dialogImageSelector+" "+wym._options.titleSelector).val(jQuery(wym._selected_image).attr(WYMeditor.TITLE));jQuery(wym._options.dialogImageSelector+" "+wym._options.altSelector).val(jQuery(wym._selected_image).attr(WYMeditor.ALT))}jQuery(wym._options.dialogLinkSelector+" "+wym._options.submitSelector).click(function(){var sUrl=jQuery(wym._options.hrefSelector).val();if(sUrl.length>0){wym._exec(WYMeditor.CREATE_LINK,sStamp);jQuery("a[href="+sStamp+"]",wym._doc.body).attr(WYMeditor.HREF,sUrl).attr(WYMeditor.TITLE,jQuery(wym._options.titleSelector).val())}window.close()});jQuery(wym._options.dialogImageSelector+" "+wym._options.submitSelector).click(function(){var sUrl=jQuery(wym._options.srcSelector).val();if(sUrl.length>0){wym._exec(WYMeditor.INSERT_IMAGE,sStamp);jQuery("img[src$="+sStamp+"]",wym._doc.body).attr(WYMeditor.SRC,sUrl).attr(WYMeditor.TITLE,jQuery(wym._options.titleSelector).val()).attr(WYMeditor.ALT,jQuery(wym._options.altSelector).val())}window.close()});jQuery(wym._options.dialogTableSelector+" "+wym._options.submitSelector).click(function(){var iRows=jQuery(wym._options.rowsSelector).val();var iCols=jQuery(wym._options.colsSelector).val();if(iRows>0&&iCols>0){var table=wym._doc.createElement(WYMeditor.TABLE);var newRow=null;var newCol=null;var sCaption=jQuery(wym._options.captionSelector).val();var newCaption=table.createCaption();newCaption.innerHTML=sCaption;for(x=0;x<iRows;x++){newRow=table.insertRow(x);for(y=0;y<iCols;y++){newRow.insertCell(y)}}jQuery(table).attr("summary",jQuery(wym._options.summarySelector).val());var node=jQuery(wym.findUp(wym.container(),WYMeditor.MAIN_CONTAINERS)).get(0);if(!node||!node.parentNode){jQuery(wym._doc.body).append(table)}else{jQuery(node).after(table)}}window.close()});jQuery(wym._options.dialogPasteSelector+" "+wym._options.submitSelector).click(function(){var sText=jQuery(wym._options.textSelector).val();wym.paste(sText);window.close()});jQuery(wym._options.dialogPreviewSelector+" "+wym._options.previewSelector).html(wym.xhtml());jQuery(wym._options.cancelSelector).mousedown(function(){window.close()});if(jQuery.isFunction(wym._options.postInitDialog)){wym._options.postInitDialog(wym,window)}};WYMeditor.XmlHelper=function(){this._entitiesDiv=document.createElement("div");return this};WYMeditor.XmlHelper.prototype.tag=function(c,b,a){b=b||false;a=a||false;return"<"+c+(b?this.tagOptions(b):"")+(a?">":" />")};WYMeditor.XmlHelper.prototype.contentTag=function(b,c,a){a=a||false;return"<"+b+(a?this.tagOptions(a):"")+">"+c+"</"+b+">"};WYMeditor.XmlHelper.prototype.cdataSection=function(a){return"<![CDATA["+a+"]]>"};WYMeditor.XmlHelper.prototype.escapeOnce=function(a){return this._fixDoubleEscape(this.escapeEntities(a))};WYMeditor.XmlHelper.prototype._fixDoubleEscape=function(a){return a.replace(/&([a-z]+|(#\d+));/ig,"&$1;")};WYMeditor.XmlHelper.prototype.tagOptions=function(b){var a=this;a._formated_options="";for(var c in b){var d="";var e=b[c];if(typeof e!="function"&&e.length>0){if(parseInt(c)==c&&typeof e=="object"){c=e.shift();e=e.pop()}if(c!=""&&e!=""){a._formated_options+=" "+c+'="'+a.escapeOnce(e)+'"'}}}return a._formated_options};WYMeditor.XmlHelper.prototype.escapeEntities=function(c,b){this._entitiesDiv.innerHTML=c;this._entitiesDiv.textContent=c;var a=this._entitiesDiv.innerHTML;if(typeof b=="undefined"){if(b!=false){a=a.replace('"',""")}if(b==true){a=a.replace('"',"'")}}return a};WYMeditor.XmlHelper.prototype.parseAttributes=function(h){var a=[];var g=h.split(/((=\s*")(")("))|((=\s*\')(\')(\'))|((=\s*[^>\s]*))/g);if(g.toString()!=h){for(var d in g){var c=g[d];if(typeof c!="function"&&c.length!=0){var e=new RegExp("(\\w+)\\s*"+c);if(match=h.match(e)){var f=c.replace(/^[\s=]+/,"");var b=f.charAt(0);b=b=='"'?'"':(b=="'"?"'":"");if(b!=""){f=b=='"'?f.replace(/^"|"+$/g,""):f.replace(/^'|'+$/g,"")}h=h.replace(match[0],"");a.push([match[1],f])}}}}return a};WYMeditor.XhtmlValidator={_attributes:{core:{except:["base","head","html","meta","param","script","style","title"],attributes:["class","id","style","title","accesskey","tabindex"]},language:{except:["base","br","hr","iframe","param","script"],attributes:{dir:["ltr","rtl"],"0":"lang","1":"xml:lang"}},keyboard:{attributes:{accesskey:/^(\w){1}$/,tabindex:/^(\d)+$/}}},_events:{window:{only:["body"],attributes:["onload","onunload"]},form:{only:["form","input","textarea","select","a","label","button"],attributes:["onchange","onsubmit","onreset","onselect","onblur","onfocus"]},keyboard:{except:["base","bdo","br","frame","frameset","head","html","iframe","meta","param","script","style","title"],attributes:["onkeydown","onkeypress","onkeyup"]},mouse:{except:["base","bdo","br","head","html","meta","param","script","style","title"],attributes:["onclick","ondblclick","onmousedown","onmousemove","onmouseover","onmouseout","onmouseup"]}},_tags:{a:{attributes:{"0":"charset","1":"coords","2":"href","3":"hreflang","4":"name",rel:/^(alternate|designates|stylesheet|start|next|prev|contents|index|glossary|copyright|chapter|section|subsection|appendix|help|bookmark| |shortcut|icon)+$/,rev:/^(alternate|designates|stylesheet|start|next|prev|contents|index|glossary|copyright|chapter|section|subsection|appendix|help|bookmark| 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)+$/i,rel:/^(alternate|appendix|bookmark|chapter|contents|copyright|glossary|help|home|index|next|prev|section|start|stylesheet|subsection| |shortcut|icon)+$/i,rev:/^(alternate|appendix|bookmark|chapter|contents|copyright|glossary|help|home|index|next|prev|section|start|stylesheet|subsection| |shortcut|icon)+$/i,"3":"type"},inside:"head"},map:{attributes:["id","name"],required:["id"]},meta:{attributes:{"0":"content","http-equiv":/^(content\-type|expires|refresh|set\-cookie)$/i,"1":"name","2":"scheme"},required:["content"]},"27":"noscript",object:{attributes:["archive","classid","codebase","codetype","data","declare","height","name","standby","type","usemap","width"]},"28":"ol",optgroup:{attributes:{"0":"label",disabled:/^(disabled)$/},required:["label"]},option:{attributes:{"0":"label",disabled:/^(disabled)$/,selected:/^(selected)$/,"1":"value"},inside:"select"},"29":"p",param:{attributes:{"0":"type",valuetype:/^(data|ref|object)$/,"1":"valuetype","2":"value"},required:["name"]},"30":"pre",q:{attributes:["cite"]},"31":"samp",script:{attributes:{type:/^(text\/ecmascript|text\/javascript|text\/jscript|text\/vbscript|text\/vbs|text\/xml)$/,"0":"charset",defer:/^(defer)$/,"1":"src"},required:["type"]},select:{attributes:{disabled:/^(disabled)$/,multiple:/^(multiple)$/,"0":"name","1":"size"},inside:"form"},"32":"small","33":"span","34":"strong",style:{attributes:{"0":"type",media:/^(screen|tty|tv|projection|handheld|print|braille|aural|all)$/},required:["type"]},"35":"sub","36":"sup",table:{attributes:{"0":"border","1":"cellpadding","2":"cellspacing",frame:/^(void|above|below|hsides|lhs|rhs|vsides|box|border)$/,rules:/^(none|groups|rows|cols|all)$/,"3":"summary","4":"width"}},tbody:{attributes:{align:/^(right|left|center|justify)$/,"0":"char","1":"charoff",valign:/^(top|middle|bottom|baseline)$/}},td:{attributes:{"0":"abbr",align:/^(left|right|center|justify|char)$/,"1":"axis","2":"char","3":"charoff",colspan:/^(\d)+$/,"4":"headers",rowspan:/^(\d)+$/,scope:/^(col|colgroup|row|rowgroup)$/,valign:/^(top|middle|bottom|baseline)$/}},textarea:{attributes:["cols","rows","disabled","name","readonly"],required:["cols","rows"],inside:"form"},tfoot:{attributes:{align:/^(right|left|center|justify)$/,"0":"char","1":"charoff",valign:/^(top|middle|bottom)$/,"2":"baseline"}},th:{attributes:{"0":"abbr",align:/^(left|right|center|justify|char)$/,"1":"axis","2":"char","3":"charoff",colspan:/^(\d)+$/,"4":"headers",rowspan:/^(\d)+$/,scope:/^(col|colgroup|row|rowgroup)$/,valign:/^(top|middle|bottom|baseline)$/}},thead:{attributes:{align:/^(right|left|center|justify)$/,"0":"char","1":"charoff",valign:/^(top|middle|bottom|baseline)$/}},"37":"title",tr:{attributes:{align:/^(right|left|center|justify|char)$/,"0":"char","1":"charoff",valign:/^(top|middle|bottom|baseline)$/}},"38":"tt","39":"ul","40":"var"},skiped_attributes:[],skiped_attribute_values:[],getValidTagAttributes:function(a,b){var c={};var g=this.getPossibleTagAttributes(a);for(var e in b){var f=b[e];var d=WYMeditor.Helper;if(!d.contains(this.skiped_attributes,e)&&!d.contains(this.skiped_attribute_values,f)){if(typeof f!="function"&&d.contains(g,e)){if(this.doesAttributeNeedsValidation(a,e)){if(this.validateAttribute(a,e,f)){c[e]=f}}else{c[e]=f}}}}return c},getUniqueAttributesAndEventsForTag:function(b){var a=[];if(this._tags[b]&&this._tags[b]["attributes"]){for(k in this._tags[b]["attributes"]){a.push(parseInt(k)==k?this._tags[b]["attributes"][k]:k)}}return a},getDefaultAttributesAndEventsForTags:function(){var a=[];for(var b in this._events){a.push(this._events[b])}for(var b in this._attributes){a.push(this._attributes[b])}return a},isValidTag:function(a){if(this._tags[a]){return true}for(var b in this._tags){if(this._tags[b]==a){return true}}return false},getDefaultAttributesAndEventsForTag:function(a){var i=[];if(this.isValidTag(a)){var g=this.getDefaultAttributesAndEventsForTags();for(var d in g){var f=g[d];if(typeof f=="object"){var e=WYMeditor.Helper;if((f.except&&e.contains(f.except,a))||(f.only&&!e.contains(f.only,a))){continue}var c=f.attributes?f.attributes:f.events;for(var b in c){i.push(typeof c[b]!="string"?b:c[b])}}}}return i},doesAttributeNeedsValidation:function(a,b){return this._tags[a]&&((this._tags[a]["attributes"]&&this._tags[a]["attributes"][b])||(this._tags[a]["required"]&&WYMeditor.Helper.contains(this._tags[a]["required"],b)))},validateAttribute:function(a,b,c){if(this._tags[a]&&(this._tags[a]["attributes"]&&this._tags[a]["attributes"][b]&&c.length>0&&!c.match(this._tags[a]["attributes"][b]))||(this._tags[a]&&this._tags[a]["required"]&&WYMeditor.Helper.contains(this._tags[a]["required"],b)&&c.length==0)){return false}return typeof this._tags[a]!="undefined"},getPossibleTagAttributes:function(a){if(!this._possible_tag_attributes){this._possible_tag_attributes={}}if(!this._possible_tag_attributes[a]){this._possible_tag_attributes[a]=this.getUniqueAttributesAndEventsForTag(a).concat(this.getDefaultAttributesAndEventsForTag(a))}return this._possible_tag_attributes[a]}};WYMeditor.ParallelRegex=function(a){this._case=a;this._patterns=[];this._labels=[];this._regex=null;return this};WYMeditor.ParallelRegex.prototype.addPattern=function(c,a){a=a||true;var b=this._patterns.length;this._patterns[b]=c;this._labels[b]=a;this._regex=null};WYMeditor.ParallelRegex.prototype.match=function(c){if(this._patterns.length==0){return[false,""]}var d=c.match(this._getCompoundedRegex());if(!d){return[false,""]}var a=d[0];for(var b=1;b<d.length;b++){if(d[b]){return[this._labels[b-1],a]}}return[true,d[0]]};WYMeditor.ParallelRegex.prototype._getCompoundedRegex=function(){if(this._regex==null){for(var a=0,b=this._patterns.length;a<b;a++){this._patterns[a]="("+this._untokenizeRegex(this._tokenizeRegex(this._patterns[a]).replace(/([\/])/g,"\\$1"))+")"}this._regex=new RegExp(this._patterns.join("|"),this._getPerlMatchingFlags())}return this._regex};WYMeditor.ParallelRegex.prototype._tokenizeRegex=function(a){return a.replace(/$\?(i|m|s|x|U)$/,"~~~~~~Tk1$1~~~~~~").replace(/$\?(\-[i|m|s|x|U])$/,"~~~~~~Tk2$1~~~~~~").replace(/$\?\=(.*)$/,"~~~~~~Tk3$1~~~~~~").replace(/$\?\!(.*)$/,"~~~~~~Tk4$1~~~~~~").replace(/$\?\<\=(.*)$/,"~~~~~~Tk5$1~~~~~~").replace(/$\?\<\!(.*)$/,"~~~~~~Tk6$1~~~~~~").replace(/$\?\:(.*)$/,"~~~~~~Tk7$1~~~~~~")};WYMeditor.ParallelRegex.prototype._untokenizeRegex=function(a){return a.replace(/~~~~~~Tk1(.{1})~~~~~~/,"(?$1)").replace(/~~~~~~Tk2(.{2})~~~~~~/,"(?$1)").replace(/~~~~~~Tk3(.*)~~~~~~/,"(?=$1)").replace(/~~~~~~Tk4(.*)~~~~~~/,"(?!$1)").replace(/~~~~~~Tk5(.*)~~~~~~/,"(?<=$1)").replace(/~~~~~~Tk6(.*)~~~~~~/,"(?<!$1)").replace(/~~~~~~Tk7(.*)~~~~~~/,"(?:$1)")};WYMeditor.ParallelRegex.prototype._getPerlMatchingFlags=function(){return(this._case?"m":"mi")};WYMeditor.StateStack=function(a){this._stack=[a];return this};WYMeditor.StateStack.prototype.getCurrent=function(){return this._stack[this._stack.length-1]};WYMeditor.StateStack.prototype.enter=function(a){this._stack.push(a)};WYMeditor.StateStack.prototype.leave=function(){if(this._stack.length==1){return false}this._stack.pop();return true};WYMeditor.LEXER_ENTER=1;WYMeditor.LEXER_MATCHED=2;WYMeditor.LEXER_UNMATCHED=3;WYMeditor.LEXER_EXIT=4;WYMeditor.LEXER_SPECIAL=5;WYMeditor.Lexer=function(c,b,a){b=b||"accept";this._case=a||false;this._regexes={};this._parser=c;this._mode=new WYMeditor.StateStack(b);this._mode_handlers={};this._mode_handlers[b]=b;return this};WYMeditor.Lexer.prototype.addPattern=function(a,b){var b=b||"accept";if(typeof this._regexes[b]=="undefined"){this._regexes[b]=new WYMeditor.ParallelRegex(this._case)}this._regexes[b].addPattern(a);if(typeof this._mode_handlers[b]=="undefined"){this._mode_handlers[b]=b}};WYMeditor.Lexer.prototype.addEntryPattern=function(b,c,a){if(typeof this._regexes[c]=="undefined"){this._regexes[c]=new WYMeditor.ParallelRegex(this._case)}this._regexes[c].addPattern(b,a);if(typeof this._mode_handlers[a]=="undefined"){this._mode_handlers[a]=a}};WYMeditor.Lexer.prototype.addExitPattern=function(a,b){if(typeof this._regexes[b]=="undefined"){this._regexes[b]=new WYMeditor.ParallelRegex(this._case)}this._regexes[b].addPattern(a,"__exit");if(typeof this._mode_handlers[b]=="undefined"){this._mode_handlers[b]=b}};WYMeditor.Lexer.prototype.addSpecialPattern=function(b,c,a){if(typeof this._regexes[c]=="undefined"){this._regexes[c]=new WYMeditor.ParallelRegex(this._case)}this._regexes[c].addPattern(b,"_"+a);if(typeof this._mode_handlers[a]=="undefined"){this._mode_handlers[a]=a}};WYMeditor.Lexer.prototype.mapHandler=function(b,a){this._mode_handlers[b]=a};WYMeditor.Lexer.prototype.parse=function(d){if(typeof this._parser=="undefined"){return false}var e=d.length;var c;while(typeof(c=this._reduce(d))=="object"){var d=c[0];var b=c[1];var a=c[2];var f=c[3];if(!this._dispatchTokens(b,a,f)){return false}if(d==""){return true}if(d.length==e){return false}e=d.length}if(!c){return false}return this._invokeParser(d,WYMeditor.LEXER_UNMATCHED)};WYMeditor.Lexer.prototype._dispatchTokens=function(b,a,c){c=c||false;if(!this._invokeParser(b,WYMeditor.LEXER_UNMATCHED)){return false}if(typeof c=="boolean"){return this._invokeParser(a,WYMeditor.LEXER_MATCHED)}if(this._isModeEnd(c)){if(!this._invokeParser(a,WYMeditor.LEXER_EXIT)){return false}return this._mode.leave()}if(this._isSpecialMode(c)){this._mode.enter(this._decodeSpecial(c));if(!this._invokeParser(a,WYMeditor.LEXER_SPECIAL)){return false}return this._mode.leave()}this._mode.enter(c);return this._invokeParser(a,WYMeditor.LEXER_ENTER)};WYMeditor.Lexer.prototype._isModeEnd=function(a){return(a==="__exit")};WYMeditor.Lexer.prototype._isSpecialMode=function(a){return(a.substring(0,1)=="_")};WYMeditor.Lexer.prototype._decodeSpecial=function(a){return a.substring(1)};WYMeditor.Lexer.prototype._invokeParser=function(content,is_match){if(!/ +/.test(content)&&((content==="")||(content==false))){return true}var current=this._mode.getCurrent();var handler=this._mode_handlers[current];var result;eval("result = this._parser."+handler+"(content, is_match);");return result};WYMeditor.Lexer.prototype._reduce=function(c){var a=this._regexes[this._mode.getCurrent()].match(c);var b=a[1];var e=a[0];if(e){var f=c.indexOf(b);var d=c.substr(0,f);c=c.substring(f+b.length);return[c,d,b,e]}return true};WYMeditor.XhtmlLexer=function(a){jQuery.extend(this,new WYMeditor.Lexer(a,"Text"));this.mapHandler("Text","Text");this.addTokens();this.init();return this};WYMeditor.XhtmlLexer.prototype.init=function(){};WYMeditor.XhtmlLexer.prototype.addTokens=function(){this.addCommentTokens("Text");this.addScriptTokens("Text");this.addCssTokens("Text");this.addTagTokens("Text")};WYMeditor.XhtmlLexer.prototype.addCommentTokens=function(a){this.addEntryPattern("","Comment")};WYMeditor.XhtmlLexer.prototype.addScriptTokens=function(a){this.addEntryPattern("<script",a,"Script");this.addExitPattern("<\/script>","Script")};WYMeditor.XhtmlLexer.prototype.addCssTokens=function(a){this.addEntryPattern("<style",a,"Css");this.addExitPattern("</style>","Css")};WYMeditor.XhtmlLexer.prototype.addTagTokens=function(a){this.addSpecialPattern("<\\s*[a-z0-9:-]+\\s*>",a,"OpeningTag");this.addEntryPattern("<[a-z0-9:-]+[\\/ \\>]+",a,"OpeningTag");this.addInTagDeclarationTokens("OpeningTag");this.addSpecialPattern("</\\s*[a-z0-9:-]+\\s*>",a,"ClosingTag")};WYMeditor.XhtmlLexer.prototype.addInTagDeclarationTokens=function(a){this.addSpecialPattern("\\s+",a,"Ignore");this.addAttributeTokens(a);this.addExitPattern("/>",a);this.addExitPattern(">",a)};WYMeditor.XhtmlLexer.prototype.addAttributeTokens=function(a){this.addSpecialPattern("\\s*[a-z-_0-9]*:?[a-z-_0-9]+\\s*(?==)\\s*",a,"TagAttributes");this.addEntryPattern('=\\s*"',a,"DoubleQuotedAttribute");this.addPattern('\\\\"',"DoubleQuotedAttribute");this.addExitPattern('"',"DoubleQuotedAttribute");this.addEntryPattern("=\\s*'",a,"SingleQuotedAttribute");this.addPattern("\\\\'","SingleQuotedAttribute");this.addExitPattern("'","SingleQuotedAttribute");this.addSpecialPattern("=\\s*[^>\\s]*",a,"UnquotedAttribute")};WYMeditor.XhtmlParser=function(a,b){var b=b||"Text";this._Lexer=new WYMeditor.XhtmlLexer(this);this._Listener=a;this._mode=b;this._matches=[];this._last_match="";this._current_match="";return this};WYMeditor.XhtmlParser.prototype.parse=function(a){this._Lexer.parse(this.beforeParsing(a));return this.afterParsing(this._Listener.getResult())};WYMeditor.XhtmlParser.prototype.beforeParsing=function(a){if(a.match(/class="MsoNormal"/)||a.match(/ns = "urn:schemas-microsoft-com/)){this._Listener.avoidStylingTagsAndAttributes()}return this._Listener.beforeParsing(a)};WYMeditor.XhtmlParser.prototype.afterParsing=function(a){if(this._Listener._avoiding_tags_implicitly){this._Listener.allowStylingTagsAndAttributes()}return this._Listener.afterParsing(a)};WYMeditor.XhtmlParser.prototype.Ignore=function(a,b){return true};WYMeditor.XhtmlParser.prototype.Text=function(a){this._Listener.addContent(a);return true};WYMeditor.XhtmlParser.prototype.Comment=function(b,a){return this._addNonTagBlock(b,a,"addComment")};WYMeditor.XhtmlParser.prototype.Script=function(b,a){return this._addNonTagBlock(b,a,"addScript")};WYMeditor.XhtmlParser.prototype.Css=function(b,a){return this._addNonTagBlock(b,a,"addCss")};WYMeditor.XhtmlParser.prototype._addNonTagBlock=function(a,c,b){switch(c){case WYMeditor.LEXER_ENTER:this._non_tag=a;break;case WYMeditor.LEXER_UNMATCHED:this._non_tag+=a;break;case WYMeditor.LEXER_EXIT:switch(b){case"addComment":this._Listener.addComment(this._non_tag+a);break;case"addScript":this._Listener.addScript(this._non_tag+a);break;case"addCss":this._Listener.addCss(this._non_tag+a);break}}return true};WYMeditor.XhtmlParser.prototype.OpeningTag=function(a,b){switch(b){case WYMeditor.LEXER_ENTER:this._tag=this.normalizeTag(a);this._tag_attributes={};break;case WYMeditor.LEXER_SPECIAL:this._callOpenTagListener(this.normalizeTag(a));break;case WYMeditor.LEXER_EXIT:this._callOpenTagListener(this._tag,this._tag_attributes)}return true};WYMeditor.XhtmlParser.prototype.ClosingTag=function(a,b){this._callCloseTagListener(this.normalizeTag(a));return true};WYMeditor.XhtmlParser.prototype._callOpenTagListener=function(a,b){var b=b||{};this.autoCloseUnclosedBeforeNewOpening(a);if(this._Listener.isBlockTag(a)){this._Listener._tag_stack.push(a);this._Listener.fixNestingBeforeOpeningBlockTag(a,b);this._Listener.openBlockTag(a,b);this._increaseOpenTagCounter(a)}else{if(this._Listener.isInlineTag(a)){this._Listener.inlineTag(a,b)}else{this._Listener.openUnknownTag(a,b);this._increaseOpenTagCounter(a)}}this._Listener.last_tag=a;this._Listener.last_tag_opened=true;this._Listener.last_tag_attributes=b};WYMeditor.XhtmlParser.prototype._callCloseTagListener=function(a){if(this._decreaseOpenTagCounter(a)){this.autoCloseUnclosedBeforeTagClosing(a);if(this._Listener.isBlockTag(a)){var b=this._Listener._tag_stack.pop();if(b==false){return}else{if(b!=a){a=b}}this._Listener.closeBlockTag(a)}else{this._Listener.closeUnknownTag(a)}}else{this._Listener.closeUnopenedTag(a)}this._Listener.last_tag=a;this._Listener.last_tag_opened=false};WYMeditor.XhtmlParser.prototype._increaseOpenTagCounter=function(a){this._Listener._open_tags[a]=this._Listener._open_tags[a]||0;this._Listener._open_tags[a]++};WYMeditor.XhtmlParser.prototype._decreaseOpenTagCounter=function(a){if(this._Listener._open_tags[a]){this._Listener._open_tags[a]--;if(this._Listener._open_tags[a]==0){this._Listener._open_tags[a]=undefined}return true}return false};WYMeditor.XhtmlParser.prototype.autoCloseUnclosedBeforeNewOpening=function(a){this._autoCloseUnclosed(a,false)};WYMeditor.XhtmlParser.prototype.autoCloseUnclosedBeforeTagClosing=function(a){this._autoCloseUnclosed(a,true)};WYMeditor.XhtmlParser.prototype._autoCloseUnclosed=function(c,d){var d=d||false;if(this._Listener._open_tags){for(var a in this._Listener._open_tags){var b=this._Listener._open_tags[a];if(b>0&&this._Listener.shouldCloseTagAutomatically(a,c,d)){this._callCloseTagListener(a,true)}}}};WYMeditor.XhtmlParser.prototype.getTagReplacements=function(){return this._Listener.getTagReplacements()};WYMeditor.XhtmlParser.prototype.normalizeTag=function(a){a=a.replace(/^([\s<\/>]*)|([\s<\/>]*)$/gm,"").toLowerCase();var b=this._Listener.getTagReplacements();if(b[a]){return b[a]}return a};WYMeditor.XhtmlParser.prototype.TagAttributes=function(a,b){if(WYMeditor.LEXER_SPECIAL==b){this._current_attribute=a}return true};WYMeditor.XhtmlParser.prototype.DoubleQuotedAttribute=function(a,b){if(WYMeditor.LEXER_UNMATCHED==b){this._tag_attributes[this._current_attribute]=a}return true};WYMeditor.XhtmlParser.prototype.SingleQuotedAttribute=function(a,b){if(WYMeditor.LEXER_UNMATCHED==b){this._tag_attributes[this._current_attribute]=a}return true};WYMeditor.XhtmlParser.prototype.UnquotedAttribute=function(a,b){this._tag_attributes[this._current_attribute]=a.replace(/^=/,"");return true};WYMeditor.XhtmlSaxListener=function(){this.output="";this.helper=new WYMeditor.XmlHelper();this._open_tags={};this.validator=WYMeditor.XhtmlValidator;this._tag_stack=[];this.avoided_tags=[];this.entities={" ":" ","¡":"¡","¢":"¢","£":"£","¤":"¤","¥":"¥","¦":"¦","§":"§","¨":"¨","©":"©","ª":"ª","«":"«","¬":"¬","":"","®":"®","¯":"¯","°":"°","±":"±","²":"²","³":"³","´":"´","µ":"µ","¶":"¶","·":"·","¸":"¸","¹":"¹","º":"º","»":"»","¼":"¼","½":"½","¾":"¾","¿":"¿","À":"À","Á":"Á","Â":"Â","Ã":"Ã","Ä":"Ä","Å":"Å","Æ":"Æ","Ç":"Ç","È":"È","É":"É","Ê":"Ê","Ë":"Ë","Ì":"Ì","Í":"Í","Î":"Î","Ï":"Ï","Ð":"Ð","Ñ":"Ñ","Ò":"Ò","Ó":"Ó","Ô":"Ô","Õ":"Õ","Ö":"Ö","×":"×","Ø":"Ø","Ù":"Ù","Ú":"Ú","Û":"Û","Ü":"Ü","Ý":"Ý","Þ":"Þ","ß":"ß","à":"à","á":"á","â":"â","ã":"ã","ä":"ä","å":"å","æ":"æ","ç":"ç","è":"è","é":"é","ê":"ê","ë":"ë","ì":"ì","í":"í","î":"î","ï":"ï","ð":"ð","ñ":"ñ","ò":"ò","ó":"ó","ô":"ô","õ":"õ","ö":"ö","÷":"÷","ø":"ø","ù":"ù","ú":"ú","û":"û","ü":"ü","ý":"ý","þ":"þ","ÿ":"ÿ","&OElig;":"Œ","&oelig;":"œ","&Scaron;":"Š","&scaron;":"š","&Yuml;":"Ÿ","&fnof;":"ƒ","&circ;":"ˆ","&tilde;":"˜","Α":"Α","Β":"Β","Γ":"Γ","Δ":"Δ","Ε":"Ε","Ζ":"Ζ","Η":"Η","Θ":"Θ","Ι":"Ι","Κ":"Κ","Λ":"Λ","Μ":"Μ","Ν":"Ν","Ξ":"Ξ","Ο":"Ο","Π":"Π","Ρ":"Ρ","Σ":"Σ","Τ":"Τ","Υ":"Υ","Φ":"Φ","Χ":"Χ","Ψ":"Ψ","Ω":"Ω","α":"α","β":"β","γ":"γ","δ":"δ","ε":"ε","ζ":"ζ","η":"η","θ":"θ","ι":"ι","κ":"κ","λ":"λ","μ":"μ","ν":"ν","ξ":"ξ","ο":"ο","π":"π","ρ":"ρ","&sigmaf;":"ς","σ":"σ","τ":"τ","υ":"υ","φ":"φ","χ":"χ","ψ":"ψ","ω":"ω","&thetasym;":"ϑ","&upsih;":"ϒ","ϖ":"ϖ","&ensp;":" ","&emsp;":" "," ":" ","&zwnj;":"‌","&zwj;":"‍","&lrm;":"‎","&rlm;":"‏","–":"–","—":"—","‘":"‘","’":"’","&sbquo;":"‚","“":"“","”":"”","&bdquo;":"„","&dagger;":"†","&Dagger;":"‡","•":"•","…":"…","&permil;":"‰","′":"′","″":"″","&lsaquo;":"‹","&rsaquo;":"›","&oline;":"‾","&frasl;":"⁄","€":"€","&image;":"ℑ","&weierp;":"℘","&real;":"ℜ","™":"™","&alefsym;":"ℵ","←":"←","↑":"↑","→":"→","↓":"↓","↔":"↔","&crarr;":"↵","⇐":"⇐","&uArr;":"⇑","⇒":"⇒","&dArr;":"⇓","⇔":"⇔","∀":"∀","∂":"∂","∃":"∃","∅":"∅","∇":"∇","∈":"∈","∉":"∉","&ni;":"∋","∏":"∏","∑":"∑","−":"−","&lowast;":"∗","√":"√","&prop;":"∝","∞":"∞","&ang;":"∠","&and;":"∧","&or;":"∨","∩":"∩","∪":"∪","∫":"∫","&there4;":"∴","&sim;":"∼","&cong;":"≅","≈":"≈","≠":"≠","&equiv;":"≡","≤":"≤","≥":"≥","⊂":"⊂","⊃":"⊃","&nsub;":"⊄","&sube;":"⊆","&supe;":"⊇","&oplus;":"⊕","&otimes;":"⊗","&perp;":"⊥","⋅":"⋅","&lceil;":"⌈","&rceil;":"⌉","&lfloor;":"⌊","&rfloor;":"⌋","&lang;":"〈","&rang;":"〉","&loz;":"◊","&spades;":"♠","&clubs;":"♣","&hearts;":"♥","&diams;":"♦"};this.block_tags=["a","abbr","acronym","address","area","b","base","bdo","big","blockquote","body","button","caption","cite","code","col","colgroup","dd","del","div","dfn","dl","dt","em","fieldset","form","head","h1","h2","h3","h4","h5","h6","html","i","ins","kbd","label","legend","li","map","noscript","object","ol","optgroup","option","p","param","pre","q","samp","script","select","small","span","strong","style","sub","sup","table","tbody","td","textarea","tfoot","th","thead","title","tr","tt","ul","var","extends"];this.inline_tags=["br","hr","img","input"];return this};WYMeditor.XhtmlSaxListener.prototype.shouldCloseTagAutomatically=function(a,c,b){var b=b||false;if(a=="td"){if((b&&c=="tr")||(!b&&c=="td")){return true}}if(a=="option"){if((b&&c=="select")||(!b&&c=="option")){return true}}return false};WYMeditor.XhtmlSaxListener.prototype.beforeParsing=function(a){this.output="";return a};WYMeditor.XhtmlSaxListener.prototype.afterParsing=function(a){a=this.replaceNamedEntities(a);a=this.joinRepeatedEntities(a);a=this.removeEmptyTags(a);a=this.removeBrInPre(a);return a};WYMeditor.XhtmlSaxListener.prototype.replaceNamedEntities=function(b){for(var a in this.entities){b=b.replace(new RegExp(a,"g"),this.entities[a])}return b};WYMeditor.XhtmlSaxListener.prototype.joinRepeatedEntities=function(b){var a="em|strong|sub|sup|acronym|pre|del|address";return b.replace(new RegExp("</("+a+")><\\1>",""),"").replace(new RegExp("(s*<("+a+")>s*){2}(.*)(s*</\\2>s*){2}",""),"<$2>$3<$2>")};WYMeditor.XhtmlSaxListener.prototype.removeEmptyTags=function(a){return a.replace(new RegExp("<("+this.block_tags.join("|").replace(/\|td/,"").replace(/\|th/,"")+")>(<br />| | |\\s)*</\\1>","g"),"")};WYMeditor.XhtmlSaxListener.prototype.removeBrInPre=function(c){var b=c.match(new RegExp("<pre[^>]*>(.*?)</pre>","gmi"));if(b){for(var a=0;a<b.length;a++){c=c.replace(b[a],b[a].replace(new RegExp("<br />","g"),String.fromCharCode(13,10)))}}return c};WYMeditor.XhtmlSaxListener.prototype.getResult=function(){return this.output};WYMeditor.XhtmlSaxListener.prototype.getTagReplacements=function(){return{b:"strong",i:"em"}};WYMeditor.XhtmlSaxListener.prototype.addContent=function(a){this.output+=a};WYMeditor.XhtmlSaxListener.prototype.addComment=function(a){if(this.remove_comments){this.output+=a}};WYMeditor.XhtmlSaxListener.prototype.addScript=function(a){if(!this.remove_scripts){this.output+=a}};WYMeditor.XhtmlSaxListener.prototype.addCss=function(a){if(!this.remove_embeded_styles){this.output+=a}};WYMeditor.XhtmlSaxListener.prototype.openBlockTag=function(a,b){this.output+=this.helper.tag(a,this.validator.getValidTagAttributes(a,b),true)};WYMeditor.XhtmlSaxListener.prototype.inlineTag=function(a,b){this.output+=this.helper.tag(a,this.validator.getValidTagAttributes(a,b))};WYMeditor.XhtmlSaxListener.prototype.openUnknownTag=function(a,b){};WYMeditor.XhtmlSaxListener.prototype.closeBlockTag=function(a){this.output=this.output.replace(/<br \/>$/,"")+this._getClosingTagContent("before",a)+"</"+a+">"+this._getClosingTagContent("after",a)};WYMeditor.XhtmlSaxListener.prototype.closeUnknownTag=function(a){};WYMeditor.XhtmlSaxListener.prototype.closeUnopenedTag=function(a){this.output+="</"+a+">"};WYMeditor.XhtmlSaxListener.prototype.avoidStylingTagsAndAttributes=function(){this.avoided_tags=["div","span"];this.validator.skiped_attributes=["style"];this.validator.skiped_attribute_values=["MsoNormal","main1"];this._avoiding_tags_implicitly=true};WYMeditor.XhtmlSaxListener.prototype.allowStylingTagsAndAttributes=function(){this.avoided_tags=[];this.validator.skiped_attributes=[];this.validator.skiped_attribute_values=[];this._avoiding_tags_implicitly=false};WYMeditor.XhtmlSaxListener.prototype.isBlockTag=function(a){return !WYMeditor.Helper.contains(this.avoided_tags,a)&&WYMeditor.Helper.contains(this.block_tags,a)};WYMeditor.XhtmlSaxListener.prototype.isInlineTag=function(a){return !WYMeditor.Helper.contains(this.avoided_tags,a)&&WYMeditor.Helper.contains(this.inline_tags,a)};WYMeditor.XhtmlSaxListener.prototype.insertContentAfterClosingTag=function(a,b){this._insertContentWhenClosingTag("after",a,b)};WYMeditor.XhtmlSaxListener.prototype.insertContentBeforeClosingTag=function(a,b){this._insertContentWhenClosingTag("before",a,b)};WYMeditor.XhtmlSaxListener.prototype.fixNestingBeforeOpeningBlockTag=function(a,b){if(a!="li"&&(a=="ul"||a=="ol")&&this.last_tag&&!this.last_tag_opened&&this.last_tag=="li"){this.output=this.output.replace(/<\/li>$/,"");this.insertContentAfterClosingTag(a,"</li>")}};WYMeditor.XhtmlSaxListener.prototype._insertContentWhenClosingTag=function(b,a,c){if(!this["_insert_"+b+"_closing"]){this["_insert_"+b+"_closing"]=[]}if(!this["_insert_"+b+"_closing"][a]){this["_insert_"+b+"_closing"][a]=[]}this["_insert_"+b+"_closing"][a].push(c)};WYMeditor.XhtmlSaxListener.prototype._getClosingTagContent=function(b,a){if(this["_insert_"+b+"_closing"]&&this["_insert_"+b+"_closing"][a]&&this["_insert_"+b+"_closing"][a].length>0){return this["_insert_"+b+"_closing"][a].pop()}return""};WYMeditor.WymCssLexer=function(b,a){var a=(typeof a=="undefined"?true:a);jQuery.extend(this,new WYMeditor.Lexer(b,(a?"Ignore":"WymCss")));this.mapHandler("WymCss","Ignore");if(a==true){this.addEntryPattern("/\\\x2a[<\\s]*WYMeditor[>\\s]*\\\x2a/","Ignore","WymCss");this.addExitPattern("/\\\x2a[</\\s]*WYMeditor[>\\s]*\\\x2a/","WymCss")}this.addSpecialPattern("[\\sa-z1-6]*\\\x2e[a-z-_0-9]+","WymCss","WymCssStyleDeclaration");this.addEntryPattern("/\\\x2a","WymCss","WymCssComment");this.addExitPattern("\\\x2a/","WymCssComment");this.addEntryPattern("\x7b","WymCss","WymCssStyle");this.addExitPattern("\x7d","WymCssStyle");this.addEntryPattern("/\\\x2a","WymCssStyle","WymCssFeedbackStyle");this.addExitPattern("\\\x2a/","WymCssFeedbackStyle");return this};WYMeditor.WymCssParser=function(){this._in_style=false;this._has_title=false;this.only_wym_blocks=true;this.css_settings={classesItems:[],editorStyles:[],dialogStyles:[]};return this};WYMeditor.WymCssParser.prototype.parse=function(a,b){var b=(typeof b=="undefined"?this.only_wym_blocks:b);this._Lexer=new WYMeditor.WymCssLexer(this,b);this._Lexer.parse(a)};WYMeditor.WymCssParser.prototype.Ignore=function(a,b){return true};WYMeditor.WymCssParser.prototype.WymCssComment=function(b,a){if(b.match(/end[a-z0-9\s]*wym[a-z0-9\s]*/mi)){return false}if(a==WYMeditor.LEXER_UNMATCHED){if(!this._in_style){this._has_title=true;this._current_item={title:WYMeditor.Helper.trim(b)}}else{if(this._current_item[this._current_element]){if(!this._current_item[this._current_element].expressions){this._current_item[this._current_element].expressions=[b]}else{this._current_item[this._current_element].expressions.push(b)}}}this._in_style=true}return true};WYMeditor.WymCssParser.prototype.WymCssStyle=function(b,a){if(a==WYMeditor.LEXER_UNMATCHED){b=WYMeditor.Helper.trim(b);if(b!=""){this._current_item[this._current_element].style=b}}else{if(a==WYMeditor.LEXER_EXIT){this._in_style=false;this._has_title=false;this.addStyleSetting(this._current_item)}}return true};WYMeditor.WymCssParser.prototype.WymCssFeedbackStyle=function(b,a){if(a==WYMeditor.LEXER_UNMATCHED){this._current_item[this._current_element].feedback_style=b.replace(/^([\s\/\*]*)|([\s\/\*]*)$/gm,"")}return true};WYMeditor.WymCssParser.prototype.WymCssStyleDeclaration=function(b){b=b.replace(/^([\s\.]*)|([\s\.*]*)$/gm,"");var a="";if(b.indexOf(".")>0){var c=b.split(".");this._current_element=c[1];var a=c[0]}else{this._current_element=b}if(!this._has_title){this._current_item={title:(!a?"":a.toUpperCase()+": ")+this._current_element};this._has_title=true}if(!this._current_item[this._current_element]){this._current_item[this._current_element]={name:this._current_element}}if(a){if(!this._current_item[this._current_element].tags){this._current_item[this._current_element].tags=[a]}else{this._current_item[this._current_element].tags.push(a)}}return true};WYMeditor.WymCssParser.prototype.addStyleSetting=function(a){for(var b in a){var c=a[b];if(typeof c=="object"&&b!="title"){this.css_settings.classesItems.push({name:WYMeditor.Helper.trim(c.name),title:a.title,expr:WYMeditor.Helper.trim((c.expressions||c.tags).join(", "))});if(c.feedback_style){this.css_settings.editorStyles.push({name:"."+WYMeditor.Helper.trim(c.name),css:c.feedback_style})}if(c.style){this.css_settings.dialogStyles.push({name:"."+WYMeditor.Helper.trim(c.name),css:c.style})}}}};jQuery.fn.isPhantomNode=function(){if(this[0].nodeType==3){return !(/[^\t\n\r ]/.test(this[0].data))}return false};WYMeditor.isPhantomNode=function(a){if(a.nodeType==3){return !(/[^\t\n\r ]/.test(a.data))}return false};WYMeditor.isPhantomString=function(a){return !(/[^\t\n\r ]/.test(a))};jQuery.fn.parentsOrSelf=function(b){var a=this;if(a[0].nodeType==3){a=a.parents().slice(0,1)}if(a.filter(b).size()==1){return a}else{return a.parents(b).slice(0,1)}};WYMeditor.Helper={replaceAll:function(d,a,c){var b=new RegExp(a,"g");return(d.replace(b,c))},insertAt:function(b,a,c){return(b.substr(0,c)+a+b.substring(c))},trim:function(a){return a.replace(/^(\s*)|(\s*)$/gm,"")},contains:function(a,c){for(var b=0;b<a.length;b++){if(a[b]===c){return true}}return false},indexOf:function(a,d){var b=-1;for(var c=0;c<a.length;c++){if(a[c]==d){b=c;break}}return(b)},findByName:function(a,b){for(var c=0;c<a.length;c++){var d=a[c];if(d.name==b){return(d)}}return(null)}};WYMeditor.WymClassExplorer=function(a){this._wym=a;this._class="className";this._newLine="\r\n"};WYMeditor.WymClassExplorer.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentWindow.document;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);jQuery(this._doc.body).html(this._wym._html);var wym=this;this._doc.body.onfocus=function(){wym._doc.designMode="on";wym._doc=iframe.contentWindow.document};this._doc.onbeforedeactivate=function(){wym.saveCaret()};this._doc.onkeyup=function(){wym.saveCaret();wym.keyup()};this._doc.onclick=function(){wym.saveCaret()};this._doc.body.onbeforepaste=function(){wym._iframe.contentWindow.event.returnValue=false};this._doc.body.onpaste=function(){wym._iframe.contentWindow.event.returnValue=false;wym.paste(window.clipboardData.getData("Text"))};if(this._initialized){if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()}this._initialized=true;this._doc.designMode="on";try{this._doc=iframe.contentWindow.document}catch(e){}};WYMeditor.WymClassExplorer.prototype._exec=function(c,d){switch(c){case WYMeditor.INDENT:case WYMeditor.OUTDENT:var a=this.findUp(this.container(),WYMeditor.LI);if(a){var b=a.parentNode.parentNode;if(a.parentNode.childNodes.length>1||b.tagName.toLowerCase()==WYMeditor.OL||b.tagName.toLowerCase()==WYMeditor.UL){this._doc.execCommand(c)}}break;default:if(d){this._doc.execCommand(c,false,d)}else{this._doc.execCommand(c)}break}this.listen()};WYMeditor.WymClassExplorer.prototype.selected=function(){var a=this._iframe.contentWindow.document.caretPos;if(a!=null){if(a.parentElement!=undefined){return(a.parentElement())}}};WYMeditor.WymClassExplorer.prototype.saveCaret=function(){this._doc.caretPos=this._doc.selection.createRange()};WYMeditor.WymClassExplorer.prototype.addCssRule=function(a,b){a.addRule(b.name,b.css)};WYMeditor.WymClassExplorer.prototype.insert=function(b){var a=this._doc.selection.createRange();if(jQuery(a.parentElement()).parents(this._options.iframeBodySelector).is("*")){try{a.pasteHTML(b)}catch(c){}}else{this.paste(b)}};WYMeditor.WymClassExplorer.prototype.wrap=function(d,b){var a=this._doc.selection.createRange();if(jQuery(a.parentElement()).parents(this._options.iframeBodySelector).is("*")){try{a.pasteHTML(d+a.text+b)}catch(c){}}};WYMeditor.WymClassExplorer.prototype.unwrap=function(){var a=this._doc.selection.createRange();if(jQuery(a.parentElement()).parents(this._options.iframeBodySelector).is("*")){try{var c=a.text;this._exec("Cut");a.pasteHTML(c)}catch(b){}}};WYMeditor.WymClassExplorer.prototype.keyup=function(){this._selected_image=null};WYMeditor.WymClassExplorer.prototype.setFocusToNode=function(b){var a=this._doc.selection.createRange();a.moveToElementText(b);a.collapse(false);a.move("character",-1);a.select();b.focus()};WYMeditor.WymClassMozilla=function(a){this._wym=a;this._class="class";this._newLine="\n"};WYMeditor.WymClassMozilla.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentDocument;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);this.html(this._wym._html);this.enableDesignMode();if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();jQuery(this._doc).bind("keydown",this.keydown);jQuery(this._doc).bind("keyup",this.keyup);jQuery(this._doc).bind("focus",this.enableDesignMode);if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()};WYMeditor.WymClassMozilla.prototype.html=function(a){if(typeof a==="string"){try{this._doc.designMode="off"}catch(b){}a=a.replace(/<em(\b[^>]*)>/gi,"<i$1>").replace(/<\/em>/gi,"</i>").replace(/<strong(\b[^>]*)>/gi,"<b$1>").replace(/<\/strong>/gi,"</b>");jQuery(this._doc.body).html(a);this.enableDesignMode()}else{return(jQuery(this._doc.body).html())}};WYMeditor.WymClassMozilla.prototype._exec=function(e,g){if(!this.selected()){return(false)}switch(e){case WYMeditor.INDENT:case WYMeditor.OUTDENT:var f=this.selected();var d=this._iframe.contentWindow.getSelection();var b=d.anchorNode;if(b.nodeName=="#text"){b=b.parentNode}f=this.findUp(f,WYMeditor.BLOCKS);b=this.findUp(b,WYMeditor.BLOCKS);if(f&&f==b&&f.tagName.toLowerCase()==WYMeditor.LI){var c=f.parentNode.parentNode;if(f.parentNode.childNodes.length>1||c.tagName.toLowerCase()==WYMeditor.OL||c.tagName.toLowerCase()==WYMeditor.UL){this._doc.execCommand(e,"",null)}}break;default:if(g){this._doc.execCommand(e,"",g)}else{this._doc.execCommand(e,"",null)}}var a=this.selected();if(a.tagName.toLowerCase()==WYMeditor.BODY){this._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}this.listen()};WYMeditor.WymClassMozilla.prototype.selected=function(){var b=this._iframe.contentWindow.getSelection();var a=b.focusNode;if(a){if(a.nodeName=="#text"){return(a.parentNode)}else{return(a)}}else{return(null)}};WYMeditor.WymClassMozilla.prototype.addCssRule=function(a,b){a.insertRule(b.name+" {"+b.css+"}",a.cssRules.length)};WYMeditor.WymClassMozilla.prototype.keydown=function(b){var c=WYMeditor.INSTANCES[this.title];var a=null;if(b.ctrlKey){if(b.keyCode==66){c._exec(WYMeditor.BOLD);return false}if(b.keyCode==73){c._exec(WYMeditor.ITALIC);return false}}else{if(b.keyCode==13){if(!b.shiftKey){a=c.selected();if(a&&a.tagName.toLowerCase()==WYMeditor.PRE){b.preventDefault();c.insert("<p></p>")}}}}};WYMeditor.WymClassMozilla.prototype.keyup=function(b){var d=WYMeditor.INSTANCES[this.title];d._selected_image=null;var a=null;if(b.keyCode==13&&!b.shiftKey){jQuery(d._doc.body).children(WYMeditor.BR).remove()}else{if(b.keyCode!=8&&b.keyCode!=17&&b.keyCode!=46&&b.keyCode!=224&&!b.metaKey&&!b.ctrlKey){a=d.selected();var c=a.tagName.toLowerCase();if(c=="strong"||c=="b"||c=="em"||c=="i"||c=="sub"||c=="sup"||c=="a"){c=a.parentNode.tagName.toLowerCase()}if(c==WYMeditor.BODY){d._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}}}};WYMeditor.WymClassMozilla.prototype.enableDesignMode=function(){if(this.designMode=="off"){try{this.designMode="on";this.execCommand("styleWithCSS","",false)}catch(a){}}};WYMeditor.WymClassMozilla.prototype.setFocusToNode=function(c){var a=document.createRange();a.selectNode(c);var b=this._iframe.contentWindow.getSelection();b.addRange(a);b.collapse(c,c.childNodes.length);this._iframe.contentWindow.focus()};WYMeditor.WymClassMozilla.prototype.openBlockTag=function(a,c){var c=this.validator.getValidTagAttributes(a,c);if(a=="span"&&c.style){var b=this.getTagForStyle(c.style);if(b){this._tag_stack.pop();var a=b;this._tag_stack.push(b);c.style=""}else{return}}this.output+=this.helper.tag(a,c,true)};WYMeditor.WymClassMozilla.prototype.getTagForStyle=function(a){if(/bold/.test(a)){return"strong"}if(/italic/.test(a)){return"em"}if(/sub/.test(a)){return"sub"}if(/sub/.test(a)){return"super"}return false};WYMeditor.WymClassOpera=function(a){this._wym=a;this._class="class";this._newLine="\r\n"};WYMeditor.WymClassOpera.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentWindow.document;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);this._doc.designMode="on";this.html(this._wym._html);if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();jQuery(this._doc).bind("keydown",this.keydown);jQuery(this._doc).bind("keyup",this.keyup);if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()};WYMeditor.WymClassOpera.prototype._exec=function(a,b){if(b){this._doc.execCommand(a,false,b)}else{this._doc.execCommand(a)}this.listen()};WYMeditor.WymClassOpera.prototype.selected=function(){var b=this._iframe.contentWindow.getSelection();var a=b.focusNode;if(a){if(a.nodeName=="#text"){return(a.parentNode)}else{return(a)}}else{return(null)}};WYMeditor.WymClassOpera.prototype.addCssRule=function(a,b){a.insertRule(b.name+" {"+b.css+"}",a.cssRules.length)};WYMeditor.WymClassOpera.prototype.keydown=function(a){var c=WYMeditor.INSTANCES[this.title];var b=c._iframe.contentWindow.getSelection();startNode=b.getRangeAt(0).startContainer;if(!jQuery(startNode).parentsOrSelf(WYMeditor.MAIN_CONTAINERS.join(","))[0]&&!jQuery(startNode).parentsOrSelf("li")&&a.keyCode!=WYMeditor.KEY.ENTER&&a.keyCode!=WYMeditor.KEY.LEFT&&a.keyCode!=WYMeditor.KEY.UP&&a.keyCode!=WYMeditor.KEY.RIGHT&&a.keyCode!=WYMeditor.KEY.DOWN&&a.keyCode!=WYMeditor.KEY.BACKSPACE&&a.keyCode!=WYMeditor.KEY.DELETE){c._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}};WYMeditor.WymClassOpera.prototype.keyup=function(a){var b=WYMeditor.INSTANCES[this.title];b._selected_image=null};WYMeditor.WymClassOpera.prototype.setFocusToNode=function(a){};WYMeditor.WymClassSafari=function(a){this._wym=a;this._class="class";this._newLine="\n"};WYMeditor.WymClassSafari.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentDocument;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);this._doc.designMode="on";this.html(this._wym._html);if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();jQuery(this._doc).bind("keydown",this.keydown);jQuery(this._doc).bind("keyup",this.keyup);if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()};WYMeditor.WymClassSafari.prototype._exec=function(e,g){if(!this.selected()){return(false)}switch(e){case WYMeditor.INDENT:case WYMeditor.OUTDENT:var f=this.selected();var d=this._iframe.contentWindow.getSelection();var b=d.anchorNode;if(b.nodeName=="#text"){b=b.parentNode}f=this.findUp(f,WYMeditor.BLOCKS);b=this.findUp(b,WYMeditor.BLOCKS);if(f&&f==b&&f.tagName.toLowerCase()==WYMeditor.LI){var c=f.parentNode.parentNode;if(f.parentNode.childNodes.length>1||c.tagName.toLowerCase()==WYMeditor.OL||c.tagName.toLowerCase()==WYMeditor.UL){this._doc.execCommand(e,"",null)}}break;case WYMeditor.INSERT_ORDEREDLIST:case WYMeditor.INSERT_UNORDEREDLIST:this._doc.execCommand(e,"",null);var f=this.selected();var a=this.findUp(f,WYMeditor.MAIN_CONTAINERS);if(a){jQuery(a).replaceWith(jQuery(a).html())}break;default:if(g){this._doc.execCommand(e,"",g)}else{this._doc.execCommand(e,"",null)}}var a=this.selected();if(a&&a.tagName.toLowerCase()==WYMeditor.BODY){this._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}this.listen()};WYMeditor.WymClassSafari.prototype.selected=function(){var b=this._iframe.contentWindow.getSelection();var a=b.focusNode;if(a){if(a.nodeName=="#text"){return(a.parentNode)}else{return(a)}}else{return(null)}};WYMeditor.WymClassSafari.prototype.addCssRule=function(a,b){a.insertRule(b.name+" {"+b.css+"}",a.cssRules.length)};WYMeditor.WymClassSafari.prototype.keydown=function(a){var b=WYMeditor.INSTANCES[this.title];if(a.ctrlKey){if(a.keyCode==66){b._exec(WYMeditor.BOLD);return false}if(a.keyCode==73){b._exec(WYMeditor.ITALIC);return false}}};WYMeditor.WymClassSafari.prototype.keyup=function(b){var d=WYMeditor.INSTANCES[this.title];d._selected_image=null;var a=null;if(b.keyCode==13&&!b.shiftKey){jQuery(d._doc.body).children(WYMeditor.BR).remove();a=d.selected();if(a&&a.tagName.toLowerCase()==WYMeditor.PRE){d._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}}if(b.keyCode==13&&b.shiftKey){d._exec("InsertLineBreak")}if(b.keyCode!=8&&b.keyCode!=17&&b.keyCode!=46&&b.keyCode!=224&&!b.metaKey&&!b.ctrlKey){a=d.selected();var c=a.tagName.toLowerCase();if(c=="strong"||c=="b"||c=="em"||c=="i"||c=="sub"||c=="sup"||c=="a"||c=="span"){c=a.parentNode.tagName.toLowerCase()}if(c==WYMeditor.BODY||c==WYMeditor.DIV){d._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}}};WYMeditor.WymClassSafari.prototype.setFocusToNode=function(c){var a=this._iframe.contentDocument.createRange();a.selectNode(c);var b=this._iframe.contentWindow.getSelection();b.addRange(a);b.collapse(c,c.childNodes.length);this._iframe.contentWindow.focus()};WYMeditor.WymClassSafari.prototype.openBlockTag=function(a,c){var c=this.validator.getValidTagAttributes(a,c);if(a=="span"&&c.style){var b=this.getTagForStyle(c.style);if(b){this._tag_stack.pop();var a=b;this._tag_stack.push(b);c.style="";if(typeof c["class"]=="string"){c["class"]=c["class"].replace(/apple-style-span/gi,"")}}else{return}}this.output+=this.helper.tag(a,c,true)};WYMeditor.WymClassSafari.prototype.getTagForStyle=function(a){if(/bold/.test(a)){return"strong"}if(/italic/.test(a)){return"em"}if(/sub/.test(a)){return"sub"}if(/super/.test(a)){return"sup"}return false}; \ No newline at end of file +if(!WYMeditor){var WYMeditor={}}(function(){if(!window.console||!console.firebug){var b=["log","debug","info","warn","error","assert","dir","dirxml","group","groupEnd","time","timeEnd","count","trace","profile","profileEnd"];WYMeditor.console={};for(var a=0;a<b.length;++a){WYMeditor.console[b[a]]=function(){}}}else{WYMeditor.console=window.console}})();jQuery.extend(WYMeditor,{VERSION:"0.5-rc1",INSTANCES:[],STRINGS:[],SKINS:[],NAME:"name",INDEX:"{Wym_Index}",WYM_INDEX:"wym_index",BASE_PATH:"{Wym_Base_Path}",CSS_PATH:"{Wym_Css_Path}",WYM_PATH:"{Wym_Wym_Path}",SKINS_DEFAULT_PATH:"skins/",SKINS_DEFAULT_CSS:"skin.css",SKINS_DEFAULT_JS:"skin.js",LANG_DEFAULT_PATH:"lang/",IFRAME_BASE_PATH:"{Wym_Iframe_Base_Path}",IFRAME_DEFAULT:"iframe/default/",JQUERY_PATH:"{Wym_Jquery_Path}",DIRECTION:"{Wym_Direction}",LOGO:"{Wym_Logo}",TOOLS:"{Wym_Tools}",TOOLS_ITEMS:"{Wym_Tools_Items}",TOOL_NAME:"{Wym_Tool_Name}",TOOL_TITLE:"{Wym_Tool_Title}",TOOL_CLASS:"{Wym_Tool_Class}",CLASSES:"{Wym_Classes}",CLASSES_ITEMS:"{Wym_Classes_Items}",CLASS_NAME:"{Wym_Class_Name}",CLASS_TITLE:"{Wym_Class_Title}",CONTAINERS:"{Wym_Containers}",CONTAINERS_ITEMS:"{Wym_Containers_Items}",CONTAINER_NAME:"{Wym_Container_Name}",CONTAINER_TITLE:"{Wym_Containers_Title}",CONTAINER_CLASS:"{Wym_Container_Class}",HTML:"{Wym_Html}",IFRAME:"{Wym_Iframe}",STATUS:"{Wym_Status}",DIALOG_TITLE:"{Wym_Dialog_Title}",DIALOG_BODY:"{Wym_Dialog_Body}",STRING:"string",BODY:"body",DIV:"div",P:"p",H1:"h1",H2:"h2",H3:"h3",H4:"h4",H5:"h5",H6:"h6",PRE:"pre",BLOCKQUOTE:"blockquote",A:"a",BR:"br",IMG:"img",TABLE:"table",TD:"td",TH:"th",UL:"ul",OL:"ol",LI:"li",CLASS:"class",HREF:"href",SRC:"src",TITLE:"title",ALT:"alt",DIALOG_LINK:"Link",DIALOG_IMAGE:"Image",DIALOG_TABLE:"Table",DIALOG_PASTE:"Paste_From_Word",BOLD:"Bold",ITALIC:"Italic",CREATE_LINK:"CreateLink",INSERT_IMAGE:"InsertImage",INSERT_TABLE:"InsertTable",INSERT_HTML:"InsertHTML",PASTE:"Paste",INDENT:"Indent",OUTDENT:"Outdent",TOGGLE_HTML:"ToggleHtml",FORMAT_BLOCK:"FormatBlock",PREVIEW:"Preview",UNLINK:"Unlink",INSERT_UNORDEREDLIST:"InsertUnorderedList",INSERT_ORDEREDLIST:"InsertOrderedList",MAIN_CONTAINERS:new Array("p","h1","h2","h3","h4","h5","h6","pre","blockquote"),BLOCKS:new Array("address","blockquote","div","dl","fieldset","form","h1","h2","h3","h4","h5","h6","hr","noscript","ol","p","pre","table","ul","dd","dt","li","tbody","td","tfoot","th","thead","tr"),KEY:{BACKSPACE:8,ENTER:13,END:35,HOME:36,LEFT:37,UP:38,RIGHT:39,DOWN:40,CURSOR:new Array(37,38,39,40),DELETE:46},NODE:{ELEMENT:1,ATTRIBUTE:2,TEXT:3},editor:function(b,a){this._index=WYMeditor.INSTANCES.push(this)-1;this._element=b;this._options=a;this._html=jQuery(b).val();if(this._options.html){this._html=this._options.html}this._options.basePath=this._options.basePath||this.computeBasePath();this._options.skinPath=this._options.skinPath||this._options.basePath+WYMeditor.SKINS_DEFAULT_PATH+this._options.skin+"/";this._options.wymPath=this._options.wymPath||this.computeWymPath();this._options.langPath=this._options.langPath||this._options.basePath+WYMeditor.LANG_DEFAULT_PATH;this._options.iframeBasePath=this._options.iframeBasePath||this._options.basePath+WYMeditor.IFRAME_DEFAULT;this._options.jQueryPath=this._options.jQueryPath||this.computeJqueryPath();this.init()}});jQuery.fn.wymeditor=function(a){a=jQuery.extend({html:"",basePath:false,skinPath:false,wymPath:false,iframeBasePath:false,jQueryPath:false,styles:false,stylesheet:false,skin:"default",initSkin:true,loadSkin:true,lang:"en",direction:"ltr",boxHtml:"<div class='wym_box'><div class='wym_area_top'>"+WYMeditor.TOOLS+"</div><div class='wym_area_left'></div><div class='wym_area_right'>"+WYMeditor.CONTAINERS+WYMeditor.CLASSES+"</div><div class='wym_area_main'>"+WYMeditor.HTML+WYMeditor.IFRAME+WYMeditor.STATUS+"</div><div class='wym_area_bottom'>"+WYMeditor.LOGO+"</div></div>",logoHtml:"<a class='wym_wymeditor_link' href='http://www.wymeditor.org/'>WYMeditor</a>",iframeHtml:"<div class='wym_iframe wym_section'><iframe src='/page/get_editor_iframe' onload='this.contentWindow.parent.WYMeditor.INSTANCES["+WYMeditor.INDEX+"].initIframe(this)'></iframe></div>",editorStyles:[],toolsHtml:"<div class='wym_tools wym_section'><h2>{Tools}</h2><ul>"+WYMeditor.TOOLS_ITEMS+"</ul></div>",toolsItemHtml:"<li class='"+WYMeditor.TOOL_CLASS+"'><a href='#' name='"+WYMeditor.TOOL_NAME+"' title='"+WYMeditor.TOOL_TITLE+"'>"+WYMeditor.TOOL_TITLE+"</a></li>",toolsItems:[{name:"Bold",title:"Strong",css:"wym_tools_strong"},{name:"Italic",title:"Emphasis",css:"wym_tools_emphasis"},{name:"Superscript",title:"Superscript",css:"wym_tools_superscript"},{name:"Subscript",title:"Subscript",css:"wym_tools_subscript"},{name:"InsertOrderedList",title:"Ordered_List",css:"wym_tools_ordered_list"},{name:"InsertUnorderedList",title:"Unordered_List",css:"wym_tools_unordered_list"},{name:"Indent",title:"Indent",css:"wym_tools_indent"},{name:"Outdent",title:"Outdent",css:"wym_tools_outdent"},{name:"Undo",title:"Undo",css:"wym_tools_undo"},{name:"Redo",title:"Redo",css:"wym_tools_redo"},{name:"CreateLink",title:"Link",css:"wym_tools_link"},{name:"Unlink",title:"Unlink",css:"wym_tools_unlink"},{name:"InsertImage",title:"Image",css:"wym_tools_image"},{name:"InsertTable",title:"Table",css:"wym_tools_table"},{name:"Paste",title:"Paste_From_Word",css:"wym_tools_paste"},{name:"ToggleHtml",title:"HTML",css:"wym_tools_html"},{name:"Preview",title:"Preview",css:"wym_tools_preview"}],containersHtml:"<div class='wym_containers wym_section'><h2>{Containers}</h2><ul>"+WYMeditor.CONTAINERS_ITEMS+"</ul></div>",containersItemHtml:"<li class='"+WYMeditor.CONTAINER_CLASS+"'><a href='#' name='"+WYMeditor.CONTAINER_NAME+"'>"+WYMeditor.CONTAINER_TITLE+"</a></li>",containersItems:[{name:"P",title:"Paragraph",css:"wym_containers_p"},{name:"H1",title:"Heading_1",css:"wym_containers_h1"},{name:"H2",title:"Heading_2",css:"wym_containers_h2"},{name:"H3",title:"Heading_3",css:"wym_containers_h3"},{name:"H4",title:"Heading_4",css:"wym_containers_h4"},{name:"H5",title:"Heading_5",css:"wym_containers_h5"},{name:"H6",title:"Heading_6",css:"wym_containers_h6"},{name:"PRE",title:"Preformatted",css:"wym_containers_pre"},{name:"BLOCKQUOTE",title:"Blockquote",css:"wym_containers_blockquote"},{name:"TH",title:"Table_Header",css:"wym_containers_th"}],classesHtml:"<div class='wym_classes wym_section'><h2>{Classes}</h2><ul>"+WYMeditor.CLASSES_ITEMS+"</ul></div>",classesItemHtml:"<li><a href='#' name='"+WYMeditor.CLASS_NAME+"'>"+WYMeditor.CLASS_TITLE+"</a></li>",classesItems:[],statusHtml:"<div class='wym_status wym_section'><h2>{Status}</h2></div>",htmlHtml:"<div class='wym_html wym_section'><h2>{Source_Code}</h2><textarea class='wym_html_val'></textarea></div>",boxSelector:".wym_box",toolsSelector:".wym_tools",toolsListSelector:" ul",containersSelector:".wym_containers",classesSelector:".wym_classes",htmlSelector:".wym_html",iframeSelector:".wym_iframe iframe",iframeBodySelector:".wym_iframe",statusSelector:".wym_status",toolSelector:".wym_tools a",containerSelector:".wym_containers a",classSelector:".wym_classes a",htmlValSelector:".wym_html_val",hrefSelector:".wym_href",srcSelector:".wym_src",titleSelector:".wym_title",altSelector:".wym_alt",textSelector:".wym_text",rowsSelector:".wym_rows",colsSelector:".wym_cols",captionSelector:".wym_caption",summarySelector:".wym_summary",submitSelector:".wym_submit",cancelSelector:".wym_cancel",previewSelector:"",dialogTypeSelector:".wym_dialog_type",dialogLinkSelector:".wym_dialog_link",dialogImageSelector:".wym_dialog_image",dialogTableSelector:".wym_dialog_table",dialogPasteSelector:".wym_dialog_paste",dialogPreviewSelector:".wym_dialog_preview",updateSelector:".wymupdate",updateEvent:"click",dialogFeatures:"menubar=no,titlebar=no,toolbar=no,resizable=no,width=560,height=300,top=0,left=0",dialogFeaturesPreview:"menubar=no,titlebar=no,toolbar=no,resizable=no,scrollbars=yes,width=560,height=300,top=0,left=0",dialogHtml:"<!DOCTYPE html PUBLIC '-//W3C//DTD XHTML 1.0 Strict//EN' 'http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd'><html dir='"+WYMeditor.DIRECTION+"'><head><link rel='stylesheet' type='text/css' media='screen' href='"+WYMeditor.CSS_PATH+"' /><title>"+WYMeditor.DIALOG_TITLE+"</title><script type='text/javascript' src='"+WYMeditor.JQUERY_PATH+"'><\/script><script type='text/javascript' src='"+WYMeditor.WYM_PATH+"'><\/script></head>"+WYMeditor.DIALOG_BODY+"</html>",dialogLinkHtml:"<body class='wym_dialog wym_dialog_link' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><fieldset><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_LINK+"' /><legend>{Link}</legend><div class='row'><label>{URL}</label><input type='text' class='wym_href' value='' size='40' /></div><div class='row'><label>{Title}</label><input type='text' class='wym_title' value='' size='40' /></div><div class='row row-indent'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogImageHtml:"<body class='wym_dialog wym_dialog_image' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><fieldset><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_IMAGE+"' /><legend>{Image}</legend><div class='row'><label>{URL}</label><input type='text' class='wym_src' value='' size='40' /></div><div class='row'><label>{Alternative_Text}</label><input type='text' class='wym_alt' value='' size='40' /></div><div class='row'><label>{Title}</label><input type='text' class='wym_title' value='' size='40' /></div><div class='row row-indent'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogTableHtml:"<body class='wym_dialog wym_dialog_table' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><fieldset><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_TABLE+"' /><legend>{Table}</legend><div class='row'><label>{Caption}</label><input type='text' class='wym_caption' value='' size='40' /></div><div class='row'><label>{Summary}</label><input type='text' class='wym_summary' value='' size='40' /></div><div class='row'><label>{Number_Of_Rows}</label><input type='text' class='wym_rows' value='3' size='3' /></div><div class='row'><label>{Number_Of_Cols}</label><input type='text' class='wym_cols' value='2' size='3' /></div><div class='row row-indent'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogPasteHtml:"<body class='wym_dialog wym_dialog_paste' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_PASTE+"' /><fieldset><legend>{Paste_From_Word}</legend><div class='row'><textarea class='wym_text' rows='10' cols='50'></textarea></div><div class='row'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogPreviewHtml:"<body class='wym_dialog wym_dialog_preview' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'></body>",dialogStyles:[],stringDelimiterLeft:"{",stringDelimiterRight:"}",preInit:null,preBind:null,postInit:null,preInitDialog:null,postInitDialog:null},a);return this.each(function(){new WYMeditor.editor(jQuery(this),a)})};jQuery.extend({wymeditors:function(a){return(WYMeditor.INSTANCES[a])}});WYMeditor.editor.prototype.init=function(){if(jQuery.browser.msie){var WymClass=new WYMeditor.WymClassExplorer(this)}else{if(jQuery.browser.mozilla){var WymClass=new WYMeditor.WymClassMozilla(this)}else{if(jQuery.browser.opera){var WymClass=new WYMeditor.WymClassOpera(this)}else{if(jQuery.browser.safari||jQuery.browser.chrome){var WymClass=new WYMeditor.WymClassSafari(this)}}}}if(WymClass){if(jQuery.isFunction(this._options.preInit)){this._options.preInit(this)}var SaxListener=new WYMeditor.XhtmlSaxListener();jQuery.extend(SaxListener,WymClass);this.parser=new WYMeditor.XhtmlParser(SaxListener);if(this._options.styles||this._options.stylesheet){this.configureEditorUsingRawCss()}this.helper=new WYMeditor.XmlHelper();for(var prop in WymClass){this[prop]=WymClass[prop]}this._box=jQuery(this._element).hide().after(this._options.boxHtml).next().addClass("wym_box_"+this._index);if(jQuery.isFunction(jQuery.fn.data)){jQuery.data(this._box.get(0),WYMeditor.WYM_INDEX,this._index);jQuery.data(this._element.get(0),WYMeditor.WYM_INDEX,this._index)}var h=WYMeditor.Helper;var iframeHtml=this._options.iframeHtml;iframeHtml=h.replaceAll(iframeHtml,WYMeditor.INDEX,this._index);iframeHtml=h.replaceAll(iframeHtml,WYMeditor.IFRAME_BASE_PATH,this._options.iframeBasePath);var boxHtml=jQuery(this._box).html();boxHtml=h.replaceAll(boxHtml,WYMeditor.LOGO,this._options.logoHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.TOOLS,this._options.toolsHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.CONTAINERS,this._options.containersHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.CLASSES,this._options.classesHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.HTML,this._options.htmlHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.IFRAME,iframeHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.STATUS,this._options.statusHtml);var aTools=eval(this._options.toolsItems);var sTools="";for(var i=0;i<aTools.length;i++){var oTool=aTools[i];if(oTool.name&&oTool.title){var sTool=this._options.toolsItemHtml}var sTool=h.replaceAll(sTool,WYMeditor.TOOL_NAME,oTool.name);sTool=h.replaceAll(sTool,WYMeditor.TOOL_TITLE,this._options.stringDelimiterLeft+oTool.title+this._options.stringDelimiterRight);sTool=h.replaceAll(sTool,WYMeditor.TOOL_CLASS,oTool.css);sTools+=sTool}boxHtml=h.replaceAll(boxHtml,WYMeditor.TOOLS_ITEMS,sTools);var aClasses=eval(this._options.classesItems);var sClasses="";for(var i=0;i<aClasses.length;i++){var oClass=aClasses[i];if(oClass.name&&oClass.title){var sClass=this._options.classesItemHtml}sClass=h.replaceAll(sClass,WYMeditor.CLASS_NAME,oClass.name);sClass=h.replaceAll(sClass,WYMeditor.CLASS_TITLE,oClass.title);sClasses+=sClass}boxHtml=h.replaceAll(boxHtml,WYMeditor.CLASSES_ITEMS,sClasses);var aContainers=eval(this._options.containersItems);var sContainers="";for(var i=0;i<aContainers.length;i++){var oContainer=aContainers[i];if(oContainer.name&&oContainer.title){var sContainer=this._options.containersItemHtml}sContainer=h.replaceAll(sContainer,WYMeditor.CONTAINER_NAME,oContainer.name);sContainer=h.replaceAll(sContainer,WYMeditor.CONTAINER_TITLE,this._options.stringDelimiterLeft+oContainer.title+this._options.stringDelimiterRight);sContainer=h.replaceAll(sContainer,WYMeditor.CONTAINER_CLASS,oContainer.css);sContainers+=sContainer}boxHtml=h.replaceAll(boxHtml,WYMeditor.CONTAINERS_ITEMS,sContainers);boxHtml=this.replaceStrings(boxHtml);jQuery(this._box).html(boxHtml);jQuery(this._box).find(this._options.htmlSelector).hide();this.loadSkin()}};WYMeditor.editor.prototype.bindEvents=function(){var wym=this;jQuery(this._box).find(this._options.toolSelector).click(function(){wym._iframe.contentWindow.focus();wym.exec(jQuery(this).attr(WYMeditor.NAME));return(false)});jQuery(this._box).find(this._options.containerSelector).click(function(){wym.container(jQuery(this).attr(WYMeditor.NAME));return(false)});jQuery(this._box).find(this._options.htmlValSelector).keyup(function(){jQuery(wym._doc.body).html(jQuery(this).val())}).focus(function(){jQuery(this).toggleClass("hasfocus")}).blur(function(){jQuery(this).toggleClass("hasfocus")});jQuery(this._box).find(this._options.classSelector).click(function(){var aClasses=eval(wym._options.classesItems);var sName=jQuery(this).attr(WYMeditor.NAME);var oClass=WYMeditor.Helper.findByName(aClasses,sName);if(oClass){var jqexpr=oClass.expr;wym.toggleClass(sName,jqexpr)}wym._iframe.contentWindow.focus();return(false)});jQuery(this._options.updateSelector).bind(this._options.updateEvent,function(){wym.update()})};WYMeditor.editor.prototype.ready=function(){return(this._doc!=null)};WYMeditor.editor.prototype.box=function(){return(this._box)};WYMeditor.editor.prototype.html=function(a){if(typeof a==="string"){jQuery(this._doc.body).html(a)}else{return(jQuery(this._doc.body).html())}};WYMeditor.editor.prototype.xhtml=function(){return this.parser.parse(this.html())};WYMeditor.editor.prototype.exec=function(b){switch(b){case WYMeditor.CREATE_LINK:var a=this.container();if(a||this._selected_image){this.dialog(WYMeditor.DIALOG_LINK)}break;case WYMeditor.INSERT_IMAGE:this.dialog(WYMeditor.DIALOG_IMAGE);break;case WYMeditor.INSERT_TABLE:this.dialog(WYMeditor.DIALOG_TABLE);break;case WYMeditor.PASTE:this.dialog(WYMeditor.DIALOG_PASTE);break;case WYMeditor.TOGGLE_HTML:this.update();this.toggleHtml();if(!jQuery(this._box).find(this._options.htmlSelector).is(":visible")){this.listen()}break;case WYMeditor.PREVIEW:this.dialog(WYMeditor.PREVIEW,this._options.dialogFeaturesPreview);break;default:this._exec(b);break}};WYMeditor.editor.prototype.container=function(a){if(a){var d=null;if(a.toLowerCase()==WYMeditor.TH){d=this.container();switch(d.tagName.toLowerCase()){case WYMeditor.TD:case WYMeditor.TH:break;default:var e=new Array(WYMeditor.TD,WYMeditor.TH);d=this.findUp(this.container(),e);break}if(d!=null){a=(d.tagName.toLowerCase()==WYMeditor.TD)?WYMeditor.TH:WYMeditor.TD;this.switchTo(d,a);this.update()}}else{var e=new Array(WYMeditor.P,WYMeditor.H1,WYMeditor.H2,WYMeditor.H3,WYMeditor.H4,WYMeditor.H5,WYMeditor.H6,WYMeditor.PRE,WYMeditor.BLOCKQUOTE);d=this.findUp(this.container(),e);if(d){var i=null;if(a.toLowerCase()==WYMeditor.BLOCKQUOTE){var f=this.findUp(this.container(),WYMeditor.BLOCKQUOTE);if(f==null){i=this._doc.createElement(a);d.parentNode.insertBefore(i,d);i.appendChild(d);this.setFocusToNode(i.firstChild)}else{var c=f.childNodes;var g=c.length;var b=null;if(g>0){b=c.item(0)}for(var h=0;h<g;h++){f.parentNode.insertBefore(c.item(0),f)}f.parentNode.removeChild(f);if(b){this.setFocusToNode(b)}}}else{this.switchTo(d,a)}this.update()}}}else{return(this.selected())}};WYMeditor.editor.prototype.toggleClass=function(c,b){var a=(this._selected_image?this._selected_image:jQuery(this.selected()));a=jQuery(a).parentsOrSelf(b);jQuery(a).toggleClass(c);if(!jQuery(a).attr(WYMeditor.CLASS)){jQuery(a).removeAttr(this._class)}};WYMeditor.editor.prototype.findUp=function(d,c){if(d){var e=d.tagName.toLowerCase();if(typeof(c)==WYMeditor.STRING){while(e!=c&&e!=WYMeditor.BODY){d=d.parentNode;e=d.tagName.toLowerCase()}}else{var b=false;while(!b&&e!=WYMeditor.BODY){for(var a=0;a<c.length;a++){if(e==c[a]){b=true;break}}if(!b){d=d.parentNode;e=d.tagName.toLowerCase()}}}if(e!=WYMeditor.BODY){return(d)}else{return(null)}}else{return(null)}};WYMeditor.editor.prototype.switchTo=function(c,d){var b=this._doc.createElement(d);var a=jQuery(c).html();c.parentNode.replaceChild(b,c);jQuery(b).html(a);this.setFocusToNode(b)};WYMeditor.editor.prototype.replaceStrings=function(sVal){if(!WYMeditor.STRINGS[this._options.lang]){try{eval(jQuery.ajax({url:this._options.langPath+this._options.lang+".js",async:false}).responseText)}catch(e){WYMeditor.console.error("WYMeditor: error while parsing language file.");return sVal}}for(var key in WYMeditor.STRINGS[this._options.lang]){sVal=WYMeditor.Helper.replaceAll(sVal,this._options.stringDelimiterLeft+key+this._options.stringDelimiterRight,WYMeditor.STRINGS[this._options.lang][key])}return(sVal)};WYMeditor.editor.prototype.encloseString=function(a){return(this._options.stringDelimiterLeft+a+this._options.stringDelimiterRight)};WYMeditor.editor.prototype.status=function(a){jQuery(this._box).find(this._options.statusSelector).html(a)};WYMeditor.editor.prototype.update=function(){var a=this.xhtml();jQuery(this._element).val(a);jQuery(this._box).find(this._options.htmlValSelector).not(".hasfocus").val(a)};WYMeditor.editor.prototype.dialog=function(j,c,f){var a=c||this._wym._options.dialogFeatures;var d=window.open("","dialog",a);if(d){var b="";switch(j){case (WYMeditor.DIALOG_LINK):b=this._options.dialogLinkHtml;break;case (WYMeditor.DIALOG_IMAGE):b=this._options.dialogImageHtml;break;case (WYMeditor.DIALOG_TABLE):b=this._options.dialogTableHtml;break;case (WYMeditor.DIALOG_PASTE):b=this._options.dialogPasteHtml;break;case (WYMeditor.PREVIEW):b=this._options.dialogPreviewHtml;break;default:b=f}var e=WYMeditor.Helper;var g=this._options.dialogHtml;g=e.replaceAll(g,WYMeditor.BASE_PATH,this._options.basePath);g=e.replaceAll(g,WYMeditor.DIRECTION,this._options.direction);g=e.replaceAll(g,WYMeditor.CSS_PATH,this._options.skinPath+WYMeditor.SKINS_DEFAULT_CSS);g=e.replaceAll(g,WYMeditor.WYM_PATH,this._options.wymPath);g=e.replaceAll(g,WYMeditor.JQUERY_PATH,this._options.jQueryPath);g=e.replaceAll(g,WYMeditor.DIALOG_TITLE,this.encloseString(j));g=e.replaceAll(g,WYMeditor.DIALOG_BODY,b);g=e.replaceAll(g,WYMeditor.INDEX,this._index);g=this.replaceStrings(g);var i=d.document;i.write(g);i.close()}};WYMeditor.editor.prototype.toggleHtml=function(){jQuery(this._box).find(this._options.htmlSelector).toggle()};WYMeditor.editor.prototype.uniqueStamp=function(){var a=new Date();return("wym-"+a.getTime())};WYMeditor.editor.prototype.paste=function(b){var e;var a=this.selected();var c=b.split(this._newLine+this._newLine);var d=new RegExp(this._newLine,"g");if(a&&a.tagName.toLowerCase()!=WYMeditor.BODY){for(x=c.length-1;x>=0;x--){e=c[x];e=e.replace(d,"<br />");jQuery(a).after("<p>"+e+"</p>")}}else{for(x=0;x<c.length;x++){e=c[x];e=e.replace(d,"<br />");jQuery(this._doc.body).append("<p>"+e+"</p>")}}};WYMeditor.editor.prototype.insert=function(a){if(this._iframe.contentWindow.getSelection().focusNode!=null){this._exec(WYMeditor.INSERT_HTML,a)}else{this.paste(a)}};WYMeditor.editor.prototype.wrap=function(b,a){if(this._iframe.contentWindow.getSelection().focusNode!=null){this._exec(WYMeditor.INSERT_HTML,b+this._iframe.contentWindow.getSelection().toString()+a)}};WYMeditor.editor.prototype.unwrap=function(){if(this._iframe.contentWindow.getSelection().focusNode!=null){this._exec(WYMeditor.INSERT_HTML,this._iframe.contentWindow.getSelection().toString())}};WYMeditor.editor.prototype.addCssRules=function(e,c){var b=e.styleSheets[0];if(b){for(var a=0;a<c.length;a++){var d=c[a];if(d.name&&d.css){this.addCssRule(b,d)}}}};WYMeditor.editor.prototype.computeBasePath=function(){return jQuery(jQuery.grep(jQuery("script"),function(a){return(a.src&&a.src.match(/jquery\.wymeditor(\.pack|\.min|\.packed)?\.js(\?.*)?$/))})).attr("src").replace(/jquery\.wymeditor(\.pack|\.min|\.packed)?\.js(\?.*)?$/,"")};WYMeditor.editor.prototype.computeWymPath=function(){return jQuery(jQuery.grep(jQuery("script"),function(a){return(a.src&&a.src.match(/jquery\.wymeditor(\.pack|\.min|\.packed)?\.js(\?.*)?$/))})).attr("src")};WYMeditor.editor.prototype.computeJqueryPath=function(){return jQuery(jQuery.grep(jQuery("script"),function(a){return(a.src&&a.src.match(/jquery(-(.*)){0,1}(\.pack|\.min|\.packed)?\.js(\?.*)?$/))})).attr("src")};WYMeditor.editor.prototype.computeCssPath=function(){return jQuery(jQuery.grep(jQuery("link"),function(a){return(a.href&&a.href.match(/wymeditor\/skins\/(.*)screen\.css(\?.*)?$/))})).attr("href")};WYMeditor.editor.prototype.configureEditorUsingRawCss=function(){var a=new WYMeditor.WymCssParser();if(this._options.stylesheet){a.parse(jQuery.ajax({url:this._options.stylesheet,async:false}).responseText)}else{a.parse(this._options.styles,false)}if(this._options.classesItems.length==0){this._options.classesItems=a.css_settings.classesItems}if(this._options.editorStyles.length==0){this._options.editorStyles=a.css_settings.editorStyles}if(this._options.dialogStyles.length==0){this._options.dialogStyles=a.css_settings.dialogStyles}};WYMeditor.editor.prototype.listen=function(){jQuery(this._doc.body).bind("mousedown",this.mousedown);var a=this._doc.body.getElementsByTagName("img");for(var b=0;b<a.length;b++){jQuery(a[b]).bind("mousedown",this.mousedown)}};WYMeditor.editor.prototype.mousedown=function(a){var b=WYMeditor.INSTANCES[this.ownerDocument.title];b._selected_image=(this.tagName.toLowerCase()==WYMeditor.IMG)?this:null;a.stopPropagation()};WYMeditor.loadCss=function(a){var c=document.createElement("link");c.rel="stylesheet";c.href=a;var b=jQuery("head").get(0);b.appendChild(c)};WYMeditor.editor.prototype.loadSkin=function(){if(this._options.loadSkin&&!WYMeditor.SKINS[this._options.skin]){var found=false;var rExp=new RegExp(this._options.skin+"/"+WYMeditor.SKINS_DEFAULT_CSS+"$");jQuery("link").each(function(){if(this.href.match(rExp)){found=true}});if(!found){WYMeditor.loadCss(this._options.skinPath+WYMeditor.SKINS_DEFAULT_CSS)}}jQuery(this._box).addClass("wym_skin_"+this._options.skin);if(this._options.initSkin&&!WYMeditor.SKINS[this._options.skin]){eval(jQuery.ajax({url:this._options.skinPath+WYMeditor.SKINS_DEFAULT_JS,async:false}).responseText)}if(WYMeditor.SKINS[this._options.skin]&&WYMeditor.SKINS[this._options.skin].init){WYMeditor.SKINS[this._options.skin].init(this)}};WYMeditor.INIT_DIALOG=function(index){var wym=window.opener.WYMeditor.INSTANCES[index];var doc=window.document;var selected=wym.selected();var dialogType=jQuery(wym._options.dialogTypeSelector).val();var sStamp=wym.uniqueStamp();switch(dialogType){case WYMeditor.DIALOG_LINK:if(selected&&selected.tagName&&selected.tagName.toLowerCase!=WYMeditor.A){selected=jQuery(selected).parentsOrSelf(WYMeditor.A)}if(!selected&&wym._selected_image){selected=jQuery(wym._selected_image).parentsOrSelf(WYMeditor.A)}break}if(jQuery.isFunction(wym._options.preInitDialog)){wym._options.preInitDialog(wym,window)}var styles=doc.styleSheets[0];var aCss=eval(wym._options.dialogStyles);wym.addCssRules(doc,aCss);if(selected){jQuery(wym._options.hrefSelector).val(jQuery(selected).attr(WYMeditor.HREF));jQuery(wym._options.srcSelector).val(jQuery(selected).attr(WYMeditor.SRC));jQuery(wym._options.titleSelector).val(jQuery(selected).attr(WYMeditor.TITLE));jQuery(wym._options.altSelector).val(jQuery(selected).attr(WYMeditor.ALT))}if(wym._selected_image){jQuery(wym._options.dialogImageSelector+" "+wym._options.srcSelector).val(jQuery(wym._selected_image).attr(WYMeditor.SRC));jQuery(wym._options.dialogImageSelector+" "+wym._options.titleSelector).val(jQuery(wym._selected_image).attr(WYMeditor.TITLE));jQuery(wym._options.dialogImageSelector+" "+wym._options.altSelector).val(jQuery(wym._selected_image).attr(WYMeditor.ALT))}jQuery(wym._options.dialogLinkSelector+" "+wym._options.submitSelector).click(function(){var sUrl=jQuery(wym._options.hrefSelector).val();if(sUrl.length>0){wym._exec(WYMeditor.CREATE_LINK,sStamp);jQuery("a[href="+sStamp+"]",wym._doc.body).attr(WYMeditor.HREF,sUrl).attr(WYMeditor.TITLE,jQuery(wym._options.titleSelector).val())}window.close()});jQuery(wym._options.dialogImageSelector+" "+wym._options.submitSelector).click(function(){var sUrl=jQuery(wym._options.srcSelector).val();if(sUrl.length>0){wym._exec(WYMeditor.INSERT_IMAGE,sStamp);jQuery("img[src$="+sStamp+"]",wym._doc.body).attr(WYMeditor.SRC,sUrl).attr(WYMeditor.TITLE,jQuery(wym._options.titleSelector).val()).attr(WYMeditor.ALT,jQuery(wym._options.altSelector).val())}window.close()});jQuery(wym._options.dialogTableSelector+" 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c={};var g=this.getPossibleTagAttributes(a);for(var e in b){var f=b[e];var d=WYMeditor.Helper;if(!d.contains(this.skiped_attributes,e)&&!d.contains(this.skiped_attribute_values,f)){if(typeof f!="function"&&d.contains(g,e)){if(this.doesAttributeNeedsValidation(a,e)){if(this.validateAttribute(a,e,f)){c[e]=f}}else{c[e]=f}}}}return c},getUniqueAttributesAndEventsForTag:function(b){var a=[];if(this._tags[b]&&this._tags[b]["attributes"]){for(k in this._tags[b]["attributes"]){a.push(parseInt(k)==k?this._tags[b]["attributes"][k]:k)}}return a},getDefaultAttributesAndEventsForTags:function(){var a=[];for(var b in this._events){a.push(this._events[b])}for(var b in this._attributes){a.push(this._attributes[b])}return a},isValidTag:function(a){if(this._tags[a]){return true}for(var b in this._tags){if(this._tags[b]==a){return true}}return false},getDefaultAttributesAndEventsForTag:function(a){var i=[];if(this.isValidTag(a)){var g=this.getDefaultAttributesAndEventsForTags();for(var d in g){var f=g[d];if(typeof f=="object"){var e=WYMeditor.Helper;if((f.except&&e.contains(f.except,a))||(f.only&&!e.contains(f.only,a))){continue}var c=f.attributes?f.attributes:f.events;for(var b in c){i.push(typeof c[b]!="string"?b:c[b])}}}}return i},doesAttributeNeedsValidation:function(a,b){return this._tags[a]&&((this._tags[a]["attributes"]&&this._tags[a]["attributes"][b])||(this._tags[a]["required"]&&WYMeditor.Helper.contains(this._tags[a]["required"],b)))},validateAttribute:function(a,b,c){if(this._tags[a]&&(this._tags[a]["attributes"]&&this._tags[a]["attributes"][b]&&c.length>0&&!c.match(this._tags[a]["attributes"][b]))||(this._tags[a]&&this._tags[a]["required"]&&WYMeditor.Helper.contains(this._tags[a]["required"],b)&&c.length==0)){return false}return typeof this._tags[a]!="undefined"},getPossibleTagAttributes:function(a){if(!this._possible_tag_attributes){this._possible_tag_attributes={}}if(!this._possible_tag_attributes[a]){this._possible_tag_attributes[a]=this.getUniqueAttributesAndEventsForTag(a).concat(this.getDefaultAttributesAndEventsForTag(a))}return this._possible_tag_attributes[a]}};WYMeditor.ParallelRegex=function(a){this._case=a;this._patterns=[];this._labels=[];this._regex=null;return this};WYMeditor.ParallelRegex.prototype.addPattern=function(c,a){a=a||true;var b=this._patterns.length;this._patterns[b]=c;this._labels[b]=a;this._regex=null};WYMeditor.ParallelRegex.prototype.match=function(c){if(this._patterns.length==0){return[false,""]}var d=c.match(this._getCompoundedRegex());if(!d){return[false,""]}var a=d[0];for(var b=1;b<d.length;b++){if(d[b]){return[this._labels[b-1],a]}}return[true,d[0]]};WYMeditor.ParallelRegex.prototype._getCompoundedRegex=function(){if(this._regex==null){for(var a=0,b=this._patterns.length;a<b;a++){this._patterns[a]="("+this._untokenizeRegex(this._tokenizeRegex(this._patterns[a]).replace(/([\/])/g,"\\$1"))+")"}this._regex=new RegExp(this._patterns.join("|"),this._getPerlMatchingFlags())}return this._regex};WYMeditor.ParallelRegex.prototype._tokenizeRegex=function(a){return a.replace(/$\?(i|m|s|x|U)$/,"~~~~~~Tk1$1~~~~~~").replace(/$\?(\-[i|m|s|x|U])$/,"~~~~~~Tk2$1~~~~~~").replace(/$\?\=(.*)$/,"~~~~~~Tk3$1~~~~~~").replace(/$\?\!(.*)$/,"~~~~~~Tk4$1~~~~~~").replace(/$\?\<\=(.*)$/,"~~~~~~Tk5$1~~~~~~").replace(/$\?\<\!(.*)$/,"~~~~~~Tk6$1~~~~~~").replace(/$\?\:(.*)$/,"~~~~~~Tk7$1~~~~~~")};WYMeditor.ParallelRegex.prototype._untokenizeRegex=function(a){return a.replace(/~~~~~~Tk1(.{1})~~~~~~/,"(?$1)").replace(/~~~~~~Tk2(.{2})~~~~~~/,"(?$1)").replace(/~~~~~~Tk3(.*)~~~~~~/,"(?=$1)").replace(/~~~~~~Tk4(.*)~~~~~~/,"(?!$1)").replace(/~~~~~~Tk5(.*)~~~~~~/,"(?<=$1)").replace(/~~~~~~Tk6(.*)~~~~~~/,"(?<!$1)").replace(/~~~~~~Tk7(.*)~~~~~~/,"(?:$1)")};WYMeditor.ParallelRegex.prototype._getPerlMatchingFlags=function(){return(this._case?"m":"mi")};WYMeditor.StateStack=function(a){this._stack=[a];return this};WYMeditor.StateStack.prototype.getCurrent=function(){return this._stack[this._stack.length-1]};WYMeditor.StateStack.prototype.enter=function(a){this._stack.push(a)};WYMeditor.StateStack.prototype.leave=function(){if(this._stack.length==1){return false}this._stack.pop();return true};WYMeditor.LEXER_ENTER=1;WYMeditor.LEXER_MATCHED=2;WYMeditor.LEXER_UNMATCHED=3;WYMeditor.LEXER_EXIT=4;WYMeditor.LEXER_SPECIAL=5;WYMeditor.Lexer=function(c,b,a){b=b||"accept";this._case=a||false;this._regexes={};this._parser=c;this._mode=new WYMeditor.StateStack(b);this._mode_handlers={};this._mode_handlers[b]=b;return this};WYMeditor.Lexer.prototype.addPattern=function(a,b){var b=b||"accept";if(typeof this._regexes[b]=="undefined"){this._regexes[b]=new WYMeditor.ParallelRegex(this._case)}this._regexes[b].addPattern(a);if(typeof this._mode_handlers[b]=="undefined"){this._mode_handlers[b]=b}};WYMeditor.Lexer.prototype.addEntryPattern=function(b,c,a){if(typeof this._regexes[c]=="undefined"){this._regexes[c]=new WYMeditor.ParallelRegex(this._case)}this._regexes[c].addPattern(b,a);if(typeof this._mode_handlers[a]=="undefined"){this._mode_handlers[a]=a}};WYMeditor.Lexer.prototype.addExitPattern=function(a,b){if(typeof this._regexes[b]=="undefined"){this._regexes[b]=new WYMeditor.ParallelRegex(this._case)}this._regexes[b].addPattern(a,"__exit");if(typeof this._mode_handlers[b]=="undefined"){this._mode_handlers[b]=b}};WYMeditor.Lexer.prototype.addSpecialPattern=function(b,c,a){if(typeof this._regexes[c]=="undefined"){this._regexes[c]=new WYMeditor.ParallelRegex(this._case)}this._regexes[c].addPattern(b,"_"+a);if(typeof this._mode_handlers[a]=="undefined"){this._mode_handlers[a]=a}};WYMeditor.Lexer.prototype.mapHandler=function(b,a){this._mode_handlers[b]=a};WYMeditor.Lexer.prototype.parse=function(d){if(typeof this._parser=="undefined"){return false}var e=d.length;var c;while(typeof(c=this._reduce(d))=="object"){var d=c[0];var b=c[1];var a=c[2];var f=c[3];if(!this._dispatchTokens(b,a,f)){return false}if(d==""){return true}if(d.length==e){return false}e=d.length}if(!c){return false}return this._invokeParser(d,WYMeditor.LEXER_UNMATCHED)};WYMeditor.Lexer.prototype._dispatchTokens=function(b,a,c){c=c||false;if(!this._invokeParser(b,WYMeditor.LEXER_UNMATCHED)){return false}if(typeof c=="boolean"){return this._invokeParser(a,WYMeditor.LEXER_MATCHED)}if(this._isModeEnd(c)){if(!this._invokeParser(a,WYMeditor.LEXER_EXIT)){return false}return this._mode.leave()}if(this._isSpecialMode(c)){this._mode.enter(this._decodeSpecial(c));if(!this._invokeParser(a,WYMeditor.LEXER_SPECIAL)){return false}return this._mode.leave()}this._mode.enter(c);return this._invokeParser(a,WYMeditor.LEXER_ENTER)};WYMeditor.Lexer.prototype._isModeEnd=function(a){return(a==="__exit")};WYMeditor.Lexer.prototype._isSpecialMode=function(a){return(a.substring(0,1)=="_")};WYMeditor.Lexer.prototype._decodeSpecial=function(a){return a.substring(1)};WYMeditor.Lexer.prototype._invokeParser=function(content,is_match){if(!/ +/.test(content)&&((content==="")||(content==false))){return true}var current=this._mode.getCurrent();var handler=this._mode_handlers[current];var result;eval("result = this._parser."+handler+"(content, is_match);");return result};WYMeditor.Lexer.prototype._reduce=function(c){var a=this._regexes[this._mode.getCurrent()].match(c);var b=a[1];var e=a[0];if(e){var f=c.indexOf(b);var d=c.substr(0,f);c=c.substring(f+b.length);return[c,d,b,e]}return true};WYMeditor.XhtmlLexer=function(a){jQuery.extend(this,new WYMeditor.Lexer(a,"Text"));this.mapHandler("Text","Text");this.addTokens();this.init();return this};WYMeditor.XhtmlLexer.prototype.init=function(){};WYMeditor.XhtmlLexer.prototype.addTokens=function(){this.addCommentTokens("Text");this.addScriptTokens("Text");this.addCssTokens("Text");this.addTagTokens("Text")};WYMeditor.XhtmlLexer.prototype.addCommentTokens=function(a){this.addEntryPattern("","Comment")};WYMeditor.XhtmlLexer.prototype.addScriptTokens=function(a){this.addEntryPattern("<script",a,"Script");this.addExitPattern("<\/script>","Script")};WYMeditor.XhtmlLexer.prototype.addCssTokens=function(a){this.addEntryPattern("<style",a,"Css");this.addExitPattern("</style>","Css")};WYMeditor.XhtmlLexer.prototype.addTagTokens=function(a){this.addSpecialPattern("<\\s*[a-z0-9:-]+\\s*>",a,"OpeningTag");this.addEntryPattern("<[a-z0-9:-]+[\\/ \\>]+",a,"OpeningTag");this.addInTagDeclarationTokens("OpeningTag");this.addSpecialPattern("</\\s*[a-z0-9:-]+\\s*>",a,"ClosingTag")};WYMeditor.XhtmlLexer.prototype.addInTagDeclarationTokens=function(a){this.addSpecialPattern("\\s+",a,"Ignore");this.addAttributeTokens(a);this.addExitPattern("/>",a);this.addExitPattern(">",a)};WYMeditor.XhtmlLexer.prototype.addAttributeTokens=function(a){this.addSpecialPattern("\\s*[a-z-_0-9]*:?[a-z-_0-9]+\\s*(?==)\\s*",a,"TagAttributes");this.addEntryPattern('=\\s*"',a,"DoubleQuotedAttribute");this.addPattern('\\\\"',"DoubleQuotedAttribute");this.addExitPattern('"',"DoubleQuotedAttribute");this.addEntryPattern("=\\s*'",a,"SingleQuotedAttribute");this.addPattern("\\\\'","SingleQuotedAttribute");this.addExitPattern("'","SingleQuotedAttribute");this.addSpecialPattern("=\\s*[^>\\s]*",a,"UnquotedAttribute")};WYMeditor.XhtmlParser=function(a,b){var b=b||"Text";this._Lexer=new WYMeditor.XhtmlLexer(this);this._Listener=a;this._mode=b;this._matches=[];this._last_match="";this._current_match="";return this};WYMeditor.XhtmlParser.prototype.parse=function(a){this._Lexer.parse(this.beforeParsing(a));return this.afterParsing(this._Listener.getResult())};WYMeditor.XhtmlParser.prototype.beforeParsing=function(a){if(a.match(/class="MsoNormal"/)||a.match(/ns = "urn:schemas-microsoft-com/)){this._Listener.avoidStylingTagsAndAttributes()}return this._Listener.beforeParsing(a)};WYMeditor.XhtmlParser.prototype.afterParsing=function(a){if(this._Listener._avoiding_tags_implicitly){this._Listener.allowStylingTagsAndAttributes()}return this._Listener.afterParsing(a)};WYMeditor.XhtmlParser.prototype.Ignore=function(a,b){return true};WYMeditor.XhtmlParser.prototype.Text=function(a){this._Listener.addContent(a);return true};WYMeditor.XhtmlParser.prototype.Comment=function(b,a){return this._addNonTagBlock(b,a,"addComment")};WYMeditor.XhtmlParser.prototype.Script=function(b,a){return this._addNonTagBlock(b,a,"addScript")};WYMeditor.XhtmlParser.prototype.Css=function(b,a){return this._addNonTagBlock(b,a,"addCss")};WYMeditor.XhtmlParser.prototype._addNonTagBlock=function(a,c,b){switch(c){case WYMeditor.LEXER_ENTER:this._non_tag=a;break;case WYMeditor.LEXER_UNMATCHED:this._non_tag+=a;break;case WYMeditor.LEXER_EXIT:switch(b){case"addComment":this._Listener.addComment(this._non_tag+a);break;case"addScript":this._Listener.addScript(this._non_tag+a);break;case"addCss":this._Listener.addCss(this._non_tag+a);break}}return true};WYMeditor.XhtmlParser.prototype.OpeningTag=function(a,b){switch(b){case WYMeditor.LEXER_ENTER:this._tag=this.normalizeTag(a);this._tag_attributes={};break;case WYMeditor.LEXER_SPECIAL:this._callOpenTagListener(this.normalizeTag(a));break;case WYMeditor.LEXER_EXIT:this._callOpenTagListener(this._tag,this._tag_attributes)}return true};WYMeditor.XhtmlParser.prototype.ClosingTag=function(a,b){this._callCloseTagListener(this.normalizeTag(a));return true};WYMeditor.XhtmlParser.prototype._callOpenTagListener=function(a,b){var b=b||{};this.autoCloseUnclosedBeforeNewOpening(a);if(this._Listener.isBlockTag(a)){this._Listener._tag_stack.push(a);this._Listener.fixNestingBeforeOpeningBlockTag(a,b);this._Listener.openBlockTag(a,b);this._increaseOpenTagCounter(a)}else{if(this._Listener.isInlineTag(a)){this._Listener.inlineTag(a,b)}else{this._Listener.openUnknownTag(a,b);this._increaseOpenTagCounter(a)}}this._Listener.last_tag=a;this._Listener.last_tag_opened=true;this._Listener.last_tag_attributes=b};WYMeditor.XhtmlParser.prototype._callCloseTagListener=function(a){if(this._decreaseOpenTagCounter(a)){this.autoCloseUnclosedBeforeTagClosing(a);if(this._Listener.isBlockTag(a)){var b=this._Listener._tag_stack.pop();if(b==false){return}else{if(b!=a){a=b}}this._Listener.closeBlockTag(a)}else{this._Listener.closeUnknownTag(a)}}else{this._Listener.closeUnopenedTag(a)}this._Listener.last_tag=a;this._Listener.last_tag_opened=false};WYMeditor.XhtmlParser.prototype._increaseOpenTagCounter=function(a){this._Listener._open_tags[a]=this._Listener._open_tags[a]||0;this._Listener._open_tags[a]++};WYMeditor.XhtmlParser.prototype._decreaseOpenTagCounter=function(a){if(this._Listener._open_tags[a]){this._Listener._open_tags[a]--;if(this._Listener._open_tags[a]==0){this._Listener._open_tags[a]=undefined}return true}return false};WYMeditor.XhtmlParser.prototype.autoCloseUnclosedBeforeNewOpening=function(a){this._autoCloseUnclosed(a,false)};WYMeditor.XhtmlParser.prototype.autoCloseUnclosedBeforeTagClosing=function(a){this._autoCloseUnclosed(a,true)};WYMeditor.XhtmlParser.prototype._autoCloseUnclosed=function(c,d){var d=d||false;if(this._Listener._open_tags){for(var a in this._Listener._open_tags){var b=this._Listener._open_tags[a];if(b>0&&this._Listener.shouldCloseTagAutomatically(a,c,d)){this._callCloseTagListener(a,true)}}}};WYMeditor.XhtmlParser.prototype.getTagReplacements=function(){return this._Listener.getTagReplacements()};WYMeditor.XhtmlParser.prototype.normalizeTag=function(a){a=a.replace(/^([\s<\/>]*)|([\s<\/>]*)$/gm,"").toLowerCase();var b=this._Listener.getTagReplacements();if(b[a]){return b[a]}return a};WYMeditor.XhtmlParser.prototype.TagAttributes=function(a,b){if(WYMeditor.LEXER_SPECIAL==b){this._current_attribute=a}return true};WYMeditor.XhtmlParser.prototype.DoubleQuotedAttribute=function(a,b){if(WYMeditor.LEXER_UNMATCHED==b){this._tag_attributes[this._current_attribute]=a}return true};WYMeditor.XhtmlParser.prototype.SingleQuotedAttribute=function(a,b){if(WYMeditor.LEXER_UNMATCHED==b){this._tag_attributes[this._current_attribute]=a}return true};WYMeditor.XhtmlParser.prototype.UnquotedAttribute=function(a,b){this._tag_attributes[this._current_attribute]=a.replace(/^=/,"");return true};WYMeditor.XhtmlSaxListener=function(){this.output="";this.helper=new WYMeditor.XmlHelper();this._open_tags={};this.validator=WYMeditor.XhtmlValidator;this._tag_stack=[];this.avoided_tags=[];this.entities={" ":" ","¡":"¡","¢":"¢","£":"£","¤":"¤","¥":"¥","¦":"¦","§":"§","¨":"¨","©":"©","ª":"ª","«":"«","¬":"¬","":"","®":"®","¯":"¯","°":"°","±":"±","²":"²","³":"³","´":"´","µ":"µ","¶":"¶","·":"·","¸":"¸","¹":"¹","º":"º","»":"»","¼":"¼","½":"½","¾":"¾","¿":"¿","À":"À","Á":"Á","Â":"Â","Ã":"Ã","Ä":"Ä","Å":"Å","Æ":"Æ","Ç":"Ç","È":"È","É":"É","Ê":"Ê","Ë":"Ë","Ì":"Ì","Í":"Í","Î":"Î","Ï":"Ï","Ð":"Ð","Ñ":"Ñ","Ò":"Ò","Ó":"Ó","Ô":"Ô","Õ":"Õ","Ö":"Ö","×":"×","Ø":"Ø","Ù":"Ù","Ú":"Ú","Û":"Û","Ü":"Ü","Ý":"Ý","Þ":"Þ","ß":"ß","à":"à","á":"á","â":"â","ã":"ã","ä":"ä","å":"å","æ":"æ","ç":"ç","è":"è","é":"é","ê":"ê","ë":"ë","ì":"ì","í":"í","î":"î","ï":"ï","ð":"ð","ñ":"ñ","ò":"ò","ó":"ó","ô":"ô","õ":"õ","ö":"ö","÷":"÷","ø":"ø","ù":"ù","ú":"ú","û":"û","ü":"ü","ý":"ý","þ":"þ","ÿ":"ÿ","&OElig;":"Œ","&oelig;":"œ","&Scaron;":"Š","&scaron;":"š","&Yuml;":"Ÿ","&fnof;":"ƒ","&circ;":"ˆ","&tilde;":"˜","Α":"Α","Β":"Β","Γ":"Γ","Δ":"Δ","Ε":"Ε","Ζ":"Ζ","Η":"Η","Θ":"Θ","Ι":"Ι","Κ":"Κ","Λ":"Λ","Μ":"Μ","Ν":"Ν","Ξ":"Ξ","Ο":"Ο","Π":"Π","Ρ":"Ρ","Σ":"Σ","Τ":"Τ","Υ":"Υ","Φ":"Φ","Χ":"Χ","Ψ":"Ψ","Ω":"Ω","α":"α","β":"β","γ":"γ","δ":"δ","ε":"ε","ζ":"ζ","η":"η","θ":"θ","ι":"ι","κ":"κ","λ":"λ","μ":"μ","ν":"ν","ξ":"ξ","ο":"ο","π":"π","ρ":"ρ","&sigmaf;":"ς","σ":"σ","τ":"τ","υ":"υ","φ":"φ","χ":"χ","ψ":"ψ","ω":"ω","&thetasym;":"ϑ","&upsih;":"ϒ","ϖ":"ϖ","&ensp;":" ","&emsp;":" "," ":" ","&zwnj;":"‌","&zwj;":"‍","&lrm;":"‎","&rlm;":"‏","–":"–","—":"—","‘":"‘","’":"’","&sbquo;":"‚","“":"“","”":"”","&bdquo;":"„","&dagger;":"†","&Dagger;":"‡","•":"•","…":"…","&permil;":"‰","′":"′","″":"″","&lsaquo;":"‹","&rsaquo;":"›","&oline;":"‾","&frasl;":"⁄","€":"€","&image;":"ℑ","&weierp;":"℘","&real;":"ℜ","™":"™","&alefsym;":"ℵ","←":"←","↑":"↑","→":"→","↓":"↓","↔":"↔","&crarr;":"↵","⇐":"⇐","&uArr;":"⇑","⇒":"⇒","&dArr;":"⇓","⇔":"⇔","∀":"∀","∂":"∂","∃":"∃","∅":"∅","∇":"∇","∈":"∈","∉":"∉","&ni;":"∋","∏":"∏","∑":"∑","−":"−","&lowast;":"∗","√":"√","&prop;":"∝","∞":"∞","&ang;":"∠","&and;":"∧","&or;":"∨","∩":"∩","∪":"∪","∫":"∫","&there4;":"∴","&sim;":"∼","&cong;":"≅","≈":"≈","≠":"≠","&equiv;":"≡","≤":"≤","≥":"≥","⊂":"⊂","⊃":"⊃","&nsub;":"⊄","&sube;":"⊆","&supe;":"⊇","&oplus;":"⊕","&otimes;":"⊗","&perp;":"⊥","⋅":"⋅","&lceil;":"⌈","&rceil;":"⌉","&lfloor;":"⌊","&rfloor;":"⌋","&lang;":"〈","&rang;":"〉","&loz;":"◊","&spades;":"♠","&clubs;":"♣","&hearts;":"♥","&diams;":"♦"};this.block_tags=["a","abbr","acronym","address","area","b","base","bdo","big","blockquote","body","button","caption","cite","code","col","colgroup","dd","del","div","dfn","dl","dt","em","fieldset","form","head","h1","h2","h3","h4","h5","h6","html","i","ins","kbd","label","legend","li","map","noscript","object","ol","optgroup","option","p","param","pre","q","samp","script","select","small","span","strong","style","sub","sup","table","tbody","td","textarea","tfoot","th","thead","title","tr","tt","ul","var","extends"];this.inline_tags=["br","hr","img","input"];return this};WYMeditor.XhtmlSaxListener.prototype.shouldCloseTagAutomatically=function(a,c,b){var b=b||false;if(a=="td"){if((b&&c=="tr")||(!b&&c=="td")){return true}}if(a=="option"){if((b&&c=="select")||(!b&&c=="option")){return true}}return false};WYMeditor.XhtmlSaxListener.prototype.beforeParsing=function(a){this.output="";return a};WYMeditor.XhtmlSaxListener.prototype.afterParsing=function(a){a=this.replaceNamedEntities(a);a=this.joinRepeatedEntities(a);a=this.removeEmptyTags(a);a=this.removeBrInPre(a);return a};WYMeditor.XhtmlSaxListener.prototype.replaceNamedEntities=function(b){for(var a in this.entities){b=b.replace(new RegExp(a,"g"),this.entities[a])}return b};WYMeditor.XhtmlSaxListener.prototype.joinRepeatedEntities=function(b){var a="em|strong|sub|sup|acronym|pre|del|address";return b.replace(new RegExp("</("+a+")><\\1>",""),"").replace(new RegExp("(s*<("+a+")>s*){2}(.*)(s*</\\2>s*){2}",""),"<$2>$3<$2>")};WYMeditor.XhtmlSaxListener.prototype.removeEmptyTags=function(a){return a.replace(new RegExp("<("+this.block_tags.join("|").replace(/\|td/,"").replace(/\|p/,"").replace(/\|th/,"")+")>(<br />| | |\\s)*</\\1>","g"),"")};WYMeditor.XhtmlSaxListener.prototype.removeBrInPre=function(c){var b=c.match(new RegExp("<pre[^>]*>(.*?)</pre>","gmi"));if(b){for(var a=0;a<b.length;a++){c=c.replace(b[a],b[a].replace(new RegExp("<br />","g"),String.fromCharCode(13,10)))}}return c};WYMeditor.XhtmlSaxListener.prototype.getResult=function(){return this.output};WYMeditor.XhtmlSaxListener.prototype.getTagReplacements=function(){return{b:"strong",i:"em"}};WYMeditor.XhtmlSaxListener.prototype.addContent=function(a){this.output+=a};WYMeditor.XhtmlSaxListener.prototype.addComment=function(a){if(this.remove_comments){this.output+=a}};WYMeditor.XhtmlSaxListener.prototype.addScript=function(a){if(!this.remove_scripts){this.output+=a}};WYMeditor.XhtmlSaxListener.prototype.addCss=function(a){if(!this.remove_embeded_styles){this.output+=a}};WYMeditor.XhtmlSaxListener.prototype.openBlockTag=function(a,b){this.output+=this.helper.tag(a,this.validator.getValidTagAttributes(a,b),true)};WYMeditor.XhtmlSaxListener.prototype.inlineTag=function(a,b){this.output+=this.helper.tag(a,this.validator.getValidTagAttributes(a,b))};WYMeditor.XhtmlSaxListener.prototype.openUnknownTag=function(a,b){};WYMeditor.XhtmlSaxListener.prototype.closeBlockTag=function(a){this.output=this.output.replace(/<br \/>$/,"")+this._getClosingTagContent("before",a)+"</"+a+">"+this._getClosingTagContent("after",a)};WYMeditor.XhtmlSaxListener.prototype.closeUnknownTag=function(a){};WYMeditor.XhtmlSaxListener.prototype.closeUnopenedTag=function(a){this.output+="</"+a+">"};WYMeditor.XhtmlSaxListener.prototype.avoidStylingTagsAndAttributes=function(){this.avoided_tags=["div","span"];this.validator.skiped_attributes=["style"];this.validator.skiped_attribute_values=["MsoNormal","main1"];this._avoiding_tags_implicitly=true};WYMeditor.XhtmlSaxListener.prototype.allowStylingTagsAndAttributes=function(){this.avoided_tags=[];this.validator.skiped_attributes=[];this.validator.skiped_attribute_values=[];this._avoiding_tags_implicitly=false};WYMeditor.XhtmlSaxListener.prototype.isBlockTag=function(a){return !WYMeditor.Helper.contains(this.avoided_tags,a)&&WYMeditor.Helper.contains(this.block_tags,a)};WYMeditor.XhtmlSaxListener.prototype.isInlineTag=function(a){return !WYMeditor.Helper.contains(this.avoided_tags,a)&&WYMeditor.Helper.contains(this.inline_tags,a)};WYMeditor.XhtmlSaxListener.prototype.insertContentAfterClosingTag=function(a,b){this._insertContentWhenClosingTag("after",a,b)};WYMeditor.XhtmlSaxListener.prototype.insertContentBeforeClosingTag=function(a,b){this._insertContentWhenClosingTag("before",a,b)};WYMeditor.XhtmlSaxListener.prototype.fixNestingBeforeOpeningBlockTag=function(a,b){if(a!="li"&&(a=="ul"||a=="ol")&&this.last_tag&&!this.last_tag_opened&&this.last_tag=="li"){this.output=this.output.replace(/<\/li>$/,"");this.insertContentAfterClosingTag(a,"</li>")}};WYMeditor.XhtmlSaxListener.prototype._insertContentWhenClosingTag=function(b,a,c){if(!this["_insert_"+b+"_closing"]){this["_insert_"+b+"_closing"]=[]}if(!this["_insert_"+b+"_closing"][a]){this["_insert_"+b+"_closing"][a]=[]}this["_insert_"+b+"_closing"][a].push(c)};WYMeditor.XhtmlSaxListener.prototype._getClosingTagContent=function(b,a){if(this["_insert_"+b+"_closing"]&&this["_insert_"+b+"_closing"][a]&&this["_insert_"+b+"_closing"][a].length>0){return this["_insert_"+b+"_closing"][a].pop()}return""};WYMeditor.WymCssLexer=function(b,a){var a=(typeof a=="undefined"?true:a);jQuery.extend(this,new WYMeditor.Lexer(b,(a?"Ignore":"WymCss")));this.mapHandler("WymCss","Ignore");if(a==true){this.addEntryPattern("/\\\x2a[<\\s]*WYMeditor[>\\s]*\\\x2a/","Ignore","WymCss");this.addExitPattern("/\\\x2a[</\\s]*WYMeditor[>\\s]*\\\x2a/","WymCss")}this.addSpecialPattern("[\\sa-z1-6]*\\\x2e[a-z-_0-9]+","WymCss","WymCssStyleDeclaration");this.addEntryPattern("/\\\x2a","WymCss","WymCssComment");this.addExitPattern("\\\x2a/","WymCssComment");this.addEntryPattern("\x7b","WymCss","WymCssStyle");this.addExitPattern("\x7d","WymCssStyle");this.addEntryPattern("/\\\x2a","WymCssStyle","WymCssFeedbackStyle");this.addExitPattern("\\\x2a/","WymCssFeedbackStyle");return this};WYMeditor.WymCssParser=function(){this._in_style=false;this._has_title=false;this.only_wym_blocks=true;this.css_settings={classesItems:[],editorStyles:[],dialogStyles:[]};return this};WYMeditor.WymCssParser.prototype.parse=function(a,b){var b=(typeof b=="undefined"?this.only_wym_blocks:b);this._Lexer=new WYMeditor.WymCssLexer(this,b);this._Lexer.parse(a)};WYMeditor.WymCssParser.prototype.Ignore=function(a,b){return true};WYMeditor.WymCssParser.prototype.WymCssComment=function(b,a){if(b.match(/end[a-z0-9\s]*wym[a-z0-9\s]*/mi)){return false}if(a==WYMeditor.LEXER_UNMATCHED){if(!this._in_style){this._has_title=true;this._current_item={title:WYMeditor.Helper.trim(b)}}else{if(this._current_item[this._current_element]){if(!this._current_item[this._current_element].expressions){this._current_item[this._current_element].expressions=[b]}else{this._current_item[this._current_element].expressions.push(b)}}}this._in_style=true}return true};WYMeditor.WymCssParser.prototype.WymCssStyle=function(b,a){if(a==WYMeditor.LEXER_UNMATCHED){b=WYMeditor.Helper.trim(b);if(b!=""){this._current_item[this._current_element].style=b}}else{if(a==WYMeditor.LEXER_EXIT){this._in_style=false;this._has_title=false;this.addStyleSetting(this._current_item)}}return true};WYMeditor.WymCssParser.prototype.WymCssFeedbackStyle=function(b,a){if(a==WYMeditor.LEXER_UNMATCHED){this._current_item[this._current_element].feedback_style=b.replace(/^([\s\/\*]*)|([\s\/\*]*)$/gm,"")}return true};WYMeditor.WymCssParser.prototype.WymCssStyleDeclaration=function(b){b=b.replace(/^([\s\.]*)|([\s\.*]*)$/gm,"");var a="";if(b.indexOf(".")>0){var c=b.split(".");this._current_element=c[1];var a=c[0]}else{this._current_element=b}if(!this._has_title){this._current_item={title:(!a?"":a.toUpperCase()+": ")+this._current_element};this._has_title=true}if(!this._current_item[this._current_element]){this._current_item[this._current_element]={name:this._current_element}}if(a){if(!this._current_item[this._current_element].tags){this._current_item[this._current_element].tags=[a]}else{this._current_item[this._current_element].tags.push(a)}}return true};WYMeditor.WymCssParser.prototype.addStyleSetting=function(a){for(var b in a){var c=a[b];if(typeof c=="object"&&b!="title"){this.css_settings.classesItems.push({name:WYMeditor.Helper.trim(c.name),title:a.title,expr:WYMeditor.Helper.trim((c.expressions||c.tags).join(", "))});if(c.feedback_style){this.css_settings.editorStyles.push({name:"."+WYMeditor.Helper.trim(c.name),css:c.feedback_style})}if(c.style){this.css_settings.dialogStyles.push({name:"."+WYMeditor.Helper.trim(c.name),css:c.style})}}}};jQuery.fn.isPhantomNode=function(){if(this[0].nodeType==3){return !(/[^\t\n\r ]/.test(this[0].data))}return false};WYMeditor.isPhantomNode=function(a){if(a.nodeType==3){return !(/[^\t\n\r ]/.test(a.data))}return false};WYMeditor.isPhantomString=function(a){return !(/[^\t\n\r ]/.test(a))};jQuery.fn.parentsOrSelf=function(b){var a=this;if(a[0].nodeType==3){a=a.parents().slice(0,1)}if(a.filter(b).size()==1){return a}else{return a.parents(b).slice(0,1)}};WYMeditor.Helper={replaceAll:function(d,a,c){var b=new RegExp(a,"g");return(d.replace(b,c))},insertAt:function(b,a,c){return(b.substr(0,c)+a+b.substring(c))},trim:function(a){return a.replace(/^(\s*)|(\s*)$/gm,"")},contains:function(a,c){for(var b=0;b<a.length;b++){if(a[b]===c){return true}}return false},indexOf:function(a,d){var b=-1;for(var c=0;c<a.length;c++){if(a[c]==d){b=c;break}}return(b)},findByName:function(a,b){for(var c=0;c<a.length;c++){var d=a[c];if(d.name==b){return(d)}}return(null)}};WYMeditor.WymClassExplorer=function(a){this._wym=a;this._class="className";this._newLine="\r\n"};WYMeditor.WymClassExplorer.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentWindow.document;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);jQuery(this._doc.body).html(this._wym._html);var wym=this;this._doc.body.onfocus=function(){wym._doc.designMode="on";wym._doc=iframe.contentWindow.document};this._doc.onbeforedeactivate=function(){wym.saveCaret()};this._doc.onkeyup=function(){wym.saveCaret();wym.keyup()};this._doc.onclick=function(){wym.saveCaret()};this._doc.body.onbeforepaste=function(){wym._iframe.contentWindow.event.returnValue=false};this._doc.body.onpaste=function(){wym._iframe.contentWindow.event.returnValue=false;wym.paste(window.clipboardData.getData("Text"))};if(this._initialized){if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()}this._initialized=true;this._doc.designMode="on";try{this._doc=iframe.contentWindow.document}catch(e){}};WYMeditor.WymClassExplorer.prototype._exec=function(c,d){switch(c){case WYMeditor.INDENT:case WYMeditor.OUTDENT:var a=this.findUp(this.container(),WYMeditor.LI);if(a){var b=a.parentNode.parentNode;if(a.parentNode.childNodes.length>1||b.tagName.toLowerCase()==WYMeditor.OL||b.tagName.toLowerCase()==WYMeditor.UL){this._doc.execCommand(c)}}break;default:if(d){this._doc.execCommand(c,false,d)}else{this._doc.execCommand(c)}break}this.listen()};WYMeditor.WymClassExplorer.prototype.selected=function(){var a=this._iframe.contentWindow.document.caretPos;if(a!=null){if(a.parentElement!=undefined){return(a.parentElement())}}};WYMeditor.WymClassExplorer.prototype.saveCaret=function(){this._doc.caretPos=this._doc.selection.createRange()};WYMeditor.WymClassExplorer.prototype.addCssRule=function(a,b){a.addRule(b.name,b.css)};WYMeditor.WymClassExplorer.prototype.insert=function(b){var a=this._doc.selection.createRange();if(jQuery(a.parentElement()).parents(this._options.iframeBodySelector).is("*")){try{a.pasteHTML(b)}catch(c){}}else{this.paste(b)}};WYMeditor.WymClassExplorer.prototype.wrap=function(d,b){var a=this._doc.selection.createRange();if(jQuery(a.parentElement()).parents(this._options.iframeBodySelector).is("*")){try{a.pasteHTML(d+a.text+b)}catch(c){}}};WYMeditor.WymClassExplorer.prototype.unwrap=function(){var a=this._doc.selection.createRange();if(jQuery(a.parentElement()).parents(this._options.iframeBodySelector).is("*")){try{var c=a.text;this._exec("Cut");a.pasteHTML(c)}catch(b){}}};WYMeditor.WymClassExplorer.prototype.keyup=function(){this._selected_image=null};WYMeditor.WymClassExplorer.prototype.setFocusToNode=function(b){var a=this._doc.selection.createRange();a.moveToElementText(b);a.collapse(false);a.move("character",-1);a.select();b.focus()};WYMeditor.WymClassMozilla=function(a){this._wym=a;this._class="class";this._newLine="\n"};WYMeditor.WymClassMozilla.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentDocument;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);this.html(this._wym._html);this.enableDesignMode();if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();jQuery(this._doc).bind("keydown",this.keydown);jQuery(this._doc).bind("keyup",this.keyup);jQuery(this._doc).bind("focus",this.enableDesignMode);if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()};WYMeditor.WymClassMozilla.prototype.html=function(a){if(typeof a==="string"){try{this._doc.designMode="off"}catch(b){}a=a.replace(/<em(\b[^>]*)>/gi,"<i$1>").replace(/<\/em>/gi,"</i>").replace(/<strong(\b[^>]*)>/gi,"<b$1>").replace(/<\/strong>/gi,"</b>");jQuery(this._doc.body).html(a);this.enableDesignMode()}else{return(jQuery(this._doc.body).html())}};WYMeditor.WymClassMozilla.prototype._exec=function(e,g){if(!this.selected()){return(false)}switch(e){case WYMeditor.INDENT:case WYMeditor.OUTDENT:var f=this.selected();var d=this._iframe.contentWindow.getSelection();var b=d.anchorNode;if(b.nodeName=="#text"){b=b.parentNode}f=this.findUp(f,WYMeditor.BLOCKS);b=this.findUp(b,WYMeditor.BLOCKS);if(f&&f==b&&f.tagName.toLowerCase()==WYMeditor.LI){var c=f.parentNode.parentNode;if(f.parentNode.childNodes.length>1||c.tagName.toLowerCase()==WYMeditor.OL||c.tagName.toLowerCase()==WYMeditor.UL){this._doc.execCommand(e,"",null)}}break;default:if(g){this._doc.execCommand(e,"",g)}else{this._doc.execCommand(e,"",null)}}var a=this.selected();if(a.tagName.toLowerCase()==WYMeditor.BODY){this._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}this.listen()};WYMeditor.WymClassMozilla.prototype.selected=function(){var b=this._iframe.contentWindow.getSelection();var a=b.focusNode;if(a){if(a.nodeName=="#text"){return(a.parentNode)}else{return(a)}}else{return(null)}};WYMeditor.WymClassMozilla.prototype.addCssRule=function(a,b){a.insertRule(b.name+" {"+b.css+"}",a.cssRules.length)};WYMeditor.WymClassMozilla.prototype.keydown=function(b){var f=WYMeditor.INSTANCES[this.title];var a=null;if(b.keyCode===WYMeditor.KEY.ENTER){a=f.selected();if(a){var g=$(a),e=g.parent(),d=g.parents(".embedded-item");if(d.size()){var c=$("<p/>");if(g.hasClass("title")){d.before(c)}else{if(g.hasClass("content")){d.after(c)}}f.setFocusToNode(c.get(0));return false}}}if(b.ctrlKey){if(b.keyCode==66){f._exec(WYMeditor.BOLD);return false}if(b.keyCode==73){f._exec(WYMeditor.ITALIC);return false}}else{if(b.keyCode==13){if(!b.shiftKey){a=f.selected();if(a&&a.tagName.toLowerCase()==WYMeditor.PRE){b.preventDefault();f.insert("<p></p>")}}}}};WYMeditor.WymClassMozilla.prototype.keyup=function(b){var d=WYMeditor.INSTANCES[this.title];d._selected_image=null;var a=null;if(b.keyCode==13&&!b.shiftKey){jQuery(d._doc.body).children(WYMeditor.BR).remove()}else{if(b.keyCode!=8&&b.keyCode!=17&&b.keyCode!=46&&b.keyCode!=224&&!b.metaKey&&!b.ctrlKey){a=d.selected();var c=a.tagName.toLowerCase();if(c=="strong"||c=="b"||c=="em"||c=="i"||c=="sub"||c=="sup"||c=="a"){c=a.parentNode.tagName.toLowerCase()}if(c==WYMeditor.BODY){d._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}}}};WYMeditor.WymClassMozilla.prototype.enableDesignMode=function(){if(this.designMode=="off"){try{this.designMode="on";this.execCommand("styleWithCSS","",false)}catch(a){}}};WYMeditor.WymClassMozilla.prototype.setFocusToNode=function(c){var a=document.createRange();a.selectNode(c);var b=this._iframe.contentWindow.getSelection();b.addRange(a);b.collapse(c,c.childNodes.length);this._iframe.contentWindow.focus()};WYMeditor.WymClassMozilla.prototype.openBlockTag=function(a,c){var c=this.validator.getValidTagAttributes(a,c);if(a=="span"&&c.style){var b=this.getTagForStyle(c.style);if(b){this._tag_stack.pop();var a=b;this._tag_stack.push(b);c.style=""}else{return}}this.output+=this.helper.tag(a,c,true)};WYMeditor.WymClassMozilla.prototype.getTagForStyle=function(a){if(/bold/.test(a)){return"strong"}if(/italic/.test(a)){return"em"}if(/sub/.test(a)){return"sub"}if(/sub/.test(a)){return"super"}return false};WYMeditor.WymClassOpera=function(a){this._wym=a;this._class="class";this._newLine="\r\n"};WYMeditor.WymClassOpera.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentWindow.document;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);this._doc.designMode="on";this.html(this._wym._html);if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();jQuery(this._doc).bind("keydown",this.keydown);jQuery(this._doc).bind("keyup",this.keyup);if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()};WYMeditor.WymClassOpera.prototype._exec=function(a,b){if(b){this._doc.execCommand(a,false,b)}else{this._doc.execCommand(a)}this.listen()};WYMeditor.WymClassOpera.prototype.selected=function(){var b=this._iframe.contentWindow.getSelection();var a=b.focusNode;if(a){if(a.nodeName=="#text"){return(a.parentNode)}else{return(a)}}else{return(null)}};WYMeditor.WymClassOpera.prototype.addCssRule=function(a,b){a.insertRule(b.name+" {"+b.css+"}",a.cssRules.length)};WYMeditor.WymClassOpera.prototype.keydown=function(a){var c=WYMeditor.INSTANCES[this.title];var b=c._iframe.contentWindow.getSelection();startNode=b.getRangeAt(0).startContainer;if(!jQuery(startNode).parentsOrSelf(WYMeditor.MAIN_CONTAINERS.join(","))[0]&&!jQuery(startNode).parentsOrSelf("li")&&a.keyCode!=WYMeditor.KEY.ENTER&&a.keyCode!=WYMeditor.KEY.LEFT&&a.keyCode!=WYMeditor.KEY.UP&&a.keyCode!=WYMeditor.KEY.RIGHT&&a.keyCode!=WYMeditor.KEY.DOWN&&a.keyCode!=WYMeditor.KEY.BACKSPACE&&a.keyCode!=WYMeditor.KEY.DELETE){c._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}};WYMeditor.WymClassOpera.prototype.keyup=function(a){var b=WYMeditor.INSTANCES[this.title];b._selected_image=null};WYMeditor.WymClassOpera.prototype.setFocusToNode=function(a){};WYMeditor.WymClassSafari=function(a){this._wym=a;this._class="class";this._newLine="\n"};WYMeditor.WymClassSafari.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentDocument;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);this._doc.designMode="on";this.html(this._wym._html);if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();jQuery(this._doc).bind("keydown",this.keydown);jQuery(this._doc).bind("keyup",this.keyup);if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()};WYMeditor.WymClassSafari.prototype._exec=function(e,g){if(!this.selected()){return(false)}switch(e){case WYMeditor.INDENT:case WYMeditor.OUTDENT:var f=this.selected();var d=this._iframe.contentWindow.getSelection();var b=d.anchorNode;if(b.nodeName=="#text"){b=b.parentNode}f=this.findUp(f,WYMeditor.BLOCKS);b=this.findUp(b,WYMeditor.BLOCKS);if(f&&f==b&&f.tagName.toLowerCase()==WYMeditor.LI){var c=f.parentNode.parentNode;if(f.parentNode.childNodes.length>1||c.tagName.toLowerCase()==WYMeditor.OL||c.tagName.toLowerCase()==WYMeditor.UL){this._doc.execCommand(e,"",null)}}break;case WYMeditor.INSERT_ORDEREDLIST:case WYMeditor.INSERT_UNORDEREDLIST:this._doc.execCommand(e,"",null);var f=this.selected();var a=this.findUp(f,WYMeditor.MAIN_CONTAINERS);if(a){jQuery(a).replaceWith(jQuery(a).html())}break;default:if(g){this._doc.execCommand(e,"",g)}else{this._doc.execCommand(e,"",null)}}var a=this.selected();if(a&&a.tagName.toLowerCase()==WYMeditor.BODY){this._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}this.listen()};WYMeditor.WymClassSafari.prototype.selected=function(){var b=this._iframe.contentWindow.getSelection();var a=b.focusNode;if(a){if(a.nodeName=="#text"){return(a.parentNode)}else{return(a)}}else{return(null)}};WYMeditor.WymClassSafari.prototype.addCssRule=function(a,b){a.insertRule(b.name+" {"+b.css+"}",a.cssRules.length)};WYMeditor.WymClassSafari.prototype.keydown=function(b){var f=WYMeditor.INSTANCES[this.title];if(b.keyCode===WYMeditor.KEY.ENTER){var a=f.selected();if(a){var g=$(a),e=g.parent(),d=g.parents(".embedded-item");if(d.size()){var c=$("<p/>");if(g.hasClass("title")){d.before(c)}else{if(g.hasClass("content")){d.after(c)}}f.setFocusToNode(c.get(0));return false}}}if(b.ctrlKey){if(b.keyCode==66){f._exec(WYMeditor.BOLD);return false}if(b.keyCode==73){f._exec(WYMeditor.ITALIC);return false}}};WYMeditor.WymClassSafari.prototype.keyup=function(b){var d=WYMeditor.INSTANCES[this.title];d._selected_image=null;var a=null;if(b.keyCode==13&&!b.shiftKey){jQuery(d._doc.body).children(WYMeditor.BR).remove();a=d.selected();if(a&&a.tagName.toLowerCase()==WYMeditor.PRE){d._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}}if(b.keyCode==13&&b.shiftKey){d._exec("InsertLineBreak")}if(b.keyCode!=8&&b.keyCode!=17&&b.keyCode!=46&&b.keyCode!=224&&!b.metaKey&&!b.ctrlKey){a=d.selected();var c=a.tagName.toLowerCase();if(c=="strong"||c=="b"||c=="em"||c=="i"||c=="sub"||c=="sup"||c=="a"||c=="span"){c=a.parentNode.tagName.toLowerCase()}if(c==WYMeditor.BODY||c==WYMeditor.DIV){d._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}}};WYMeditor.WymClassSafari.prototype.setFocusToNode=function(c){var a=this._iframe.contentDocument.createRange();a.selectNode(c);var b=this._iframe.contentWindow.getSelection();b.addRange(a);b.collapse(c,c.childNodes.length);this._iframe.contentWindow.focus()};WYMeditor.WymClassSafari.prototype.openBlockTag=function(a,c){var c=this.validator.getValidTagAttributes(a,c);if(a=="span"&&c.style){var b=this.getTagForStyle(c.style);if(b){this._tag_stack.pop();var a=b;this._tag_stack.push(b);c.style="";if(typeof c["class"]=="string"){c["class"]=c["class"].replace(/apple-style-span/gi,"")}}else{return}}this.output+=this.helper.tag(a,c,true)};WYMeditor.WymClassSafari.prototype.getTagForStyle=function(a){if(/bold/.test(a)){return"strong"}if(/italic/.test(a)){return"em"}if(/sub/.test(a)){return"sub"}if(/super/.test(a)){return"sup"}return false}; \ No newline at end of file https://bitbucket.org/galaxy/galaxy-central/commits/2295745a2888/ Changeset: 2295745a2888 User: carlfeberhard Date: 2014-02-26 16:53:13 Summary: merge Affected #: 4 files diff -r a24050956e787690b7a37564a932fdfb194cdb6a -r 2295745a2888e74a518bdd6d7189d10031cbbf7d static/scripts/galaxy.pages.js --- a/static/scripts/galaxy.pages.js +++ b/static/scripts/galaxy.pages.js @@ -452,14 +452,14 @@ // item_class='History'). var item_elt_id = item_info.iclass + "-" + item_id; var item_embed_html = - "<p><div id='" + item_elt_id + "' class='embedded-item " + item_info.singular.toLowerCase() + + "<div id='" + item_elt_id + "' class='embedded-item " + item_info.singular.toLowerCase() + " placeholder'> \ <p class='title'>Embedded Galaxy " + item_info.singular + " '" + item_name + "'</p> \ <p class='content'> \ [Do not edit this block; Galaxy will fill it in with the annotated " + item_info.singular.toLowerCase() + " when it is displayed.] \ </p> \ - </div></p>"; + </div>"; // Insert embedded item into document. wym.insert(" "); // Needed to prevent insertion from occurring in child element in webkit browsers. @@ -468,18 +468,18 @@ // TODO: can we fix this? // Due to oddities of wym.insert() [likely due to inserting a <div> and/or a complete paragraph], an // empty paragraph (or two!) may be included either before an embedded item. Remove these paragraphs. - $("#" + item_elt_id, wym._doc.body).each( function() { - // Remove previous empty paragraphs. - var removing = true; - while (removing) - { - var prev_elt = $(this).prev(); - if ( prev_elt.length != 0 && jQuery.trim(prev_elt.text()) == "" ) - prev_elt.remove(); - else - removing = false; - } - }); + //$("#" + item_elt_id, wym._doc.body).each( function() { + // // Remove previous empty paragraphs. + // var removing = true; + // while (removing) + // { + // var prev_elt = $(this).prev(); + // if ( prev_elt.length != 0 && jQuery.trim(prev_elt.text()) == "" ) + // prev_elt.remove(); + // else + // removing = false; + // } + //}); }); hide_modal(); @@ -706,4 +706,4 @@ // editor.dialog(Galaxy.DIALOG_EMBED_PAGE); //} }); -}); \ No newline at end of file +}); diff -r a24050956e787690b7a37564a932fdfb194cdb6a -r 2295745a2888e74a518bdd6d7189d10031cbbf7d static/scripts/libs/jquery/jquery.wymeditor.js --- a/static/scripts/libs/jquery/jquery.wymeditor.js +++ b/static/scripts/libs/jquery/jquery.wymeditor.js @@ -3432,9 +3432,17 @@ replace(new RegExp('(\s*<('+tags+')>\s*){2}(.*)(\s*<\/\\2>\s*){2}' ,''),'<\$2>\$3<\$2>'); }; +// keep empty paragraphs +// from: http://forum.wymeditor.org/forum/viewtopic.php?f=2&t=711#p2430 +//WYMeditor.XhtmlSaxListener.prototype.removeEmptyTags = function(xhtml) +//{ +// return xhtml.replace(new RegExp('<('+this.block_tags.join("|").replace(/\|td/,'') +// .replace(/\|th/, '')+')>(<br \/>| | |\\s)*<\/\\1>' ,'g'),''); +//}; WYMeditor.XhtmlSaxListener.prototype.removeEmptyTags = function(xhtml) { - return xhtml.replace(new RegExp('<('+this.block_tags.join("|").replace(/\|td/,'').replace(/\|th/, '')+')>(<br \/>| | |\\s)*<\/\\1>' ,'g'),''); + return xhtml.replace(new RegExp('<('+this.block_tags.join("|").replace(/\|td/,'').replace(/\|p/,'') + .replace(/\|th/, '')+')>(<br \/>| | |\\s)*<\/\\1>' ,'g'),''); }; WYMeditor.XhtmlSaxListener.prototype.removeBrInPre = function(xhtml) @@ -4197,6 +4205,28 @@ var wym = WYMeditor.INSTANCES[this.title]; var container = null; + if( evt.keyCode === WYMeditor.KEY.ENTER ){ + container = wym.selected(); + if( container ){ + var $container = $( container ), + $parent = $container.parent(), + $embedded = $container.parents( '.embedded-item' ); + if( $embedded.size() ){ + // if the cursor is in the title, add a para before + var $newNode = $( '<p/>' ); + if( $container.hasClass( 'title' ) ){ + $embedded.before( $newNode ); + // if the cursor is in the content, add after + } else if( $container.hasClass( 'content' ) ){ + $embedded.after( $newNode ); + } + wym.setFocusToNode( $newNode.get(0) ); + // prevent the default - wym's chop the text and split it up into paras + return false; + } + } + } + if(evt.ctrlKey){ if(evt.keyCode == 66){ //CTRL+b => STRONG @@ -4227,27 +4257,27 @@ //'this' is the doc var wym = WYMeditor.INSTANCES[this.title]; - + wym._selected_image = null; var container = null; if(evt.keyCode == 13 && !evt.shiftKey) { - + //RETURN key //cleanup <br><br> between paragraphs jQuery(wym._doc.body).children(WYMeditor.BR).remove(); } - + else if(evt.keyCode != 8 && evt.keyCode != 17 && evt.keyCode != 46 && evt.keyCode != 224 && !evt.metaKey && !evt.ctrlKey) { - + //NOT BACKSPACE, NOT DELETE, NOT CTRL, NOT COMMAND //text nodes replaced by P - + container = wym.selected(); var name = container.tagName.toLowerCase(); @@ -4301,7 +4331,7 @@ return; } } - + this.output += this.helper.tag(tag, attributes, true); }; @@ -4343,9 +4373,9 @@ this._iframe = iframe; this._doc = iframe.contentWindow.document; - + //add css rules from options - var styles = this._doc.styleSheets[0]; + var styles = this._doc.styleSheets[0]; var aCss = eval(this._options.editorStyles); this.addCssRules(this._doc, aCss); @@ -4354,28 +4384,28 @@ //set the text direction jQuery('html', this._doc).attr('dir', this._options.direction); - + //init designMode this._doc.designMode = "on"; //init html value this.html(this._wym._html); - + //pre-bind functions if(jQuery.isFunction(this._options.preBind)) this._options.preBind(this); - + //bind external events this._wym.bindEvents(); - + //bind editor keydown events jQuery(this._doc).bind("keydown", this.keydown); - + //bind editor events jQuery(this._doc).bind("keyup", this.keyup); - + //post-init functions if(jQuery.isFunction(this._options.postInit)) this._options.postInit(this); - + //add event listeners to doc elements, e.g. images this.listen(); }; @@ -4384,7 +4414,7 @@ if(param) this._doc.execCommand(cmd,false,param); else this._doc.execCommand(cmd); - + this.listen(); }; @@ -4406,7 +4436,7 @@ //keydown handler WYMeditor.WymClassOpera.prototype.keydown = function(evt) { - + //'this' is the doc var wym = WYMeditor.INSTANCES[this.title]; var sel = wym._iframe.contentWindow.getSelection(); @@ -4470,12 +4500,12 @@ this._iframe = iframe; this._doc = iframe.contentDocument; - + //add css rules from options - - var styles = this._doc.styleSheets[0]; + + var styles = this._doc.styleSheets[0]; var aCss = eval(this._options.editorStyles); - + this.addCssRules(this._doc, aCss); this._doc.title = this._wym._index; @@ -4485,25 +4515,25 @@ //init designMode this._doc.designMode = "on"; - + //init html value this.html(this._wym._html); - + //pre-bind functions if(jQuery.isFunction(this._options.preBind)) this._options.preBind(this); - + //bind external events this._wym.bindEvents(); - + //bind editor keydown events jQuery(this._doc).bind("keydown", this.keydown); - + //bind editor keyup events jQuery(this._doc).bind("keyup", this.keyup); - + //post-init functions if(jQuery.isFunction(this._options.postInit)) this._options.postInit(this); - + //add event listeners to doc elements, e.g. images this.listen(); }; @@ -4513,17 +4543,17 @@ if(!this.selected()) return(false); switch(cmd) { - + case WYMeditor.INDENT: case WYMeditor.OUTDENT: - - var focusNode = this.selected(); + + var focusNode = this.selected(); var sel = this._iframe.contentWindow.getSelection(); var anchorNode = sel.anchorNode; if(anchorNode.nodeName == "#text") anchorNode = anchorNode.parentNode; - + focusNode = this.findUp(focusNode, WYMeditor.BLOCKS); anchorNode = this.findUp(anchorNode, WYMeditor.BLOCKS); - + if(focusNode && focusNode == anchorNode && focusNode.tagName.toLowerCase() == WYMeditor.LI) { @@ -4548,13 +4578,13 @@ if(container) jQuery(container).replaceWith(jQuery(container).html()); break; - + default: if(param) this._doc.execCommand(cmd,'',param); else this._doc.execCommand(cmd,'',null); } - + //set to P if parent = BODY var container = this.selected(); if(container && container.tagName.toLowerCase() == WYMeditor.BODY) @@ -4586,9 +4616,31 @@ //keydown handler, mainly used for keyboard shortcuts WYMeditor.WymClassSafari.prototype.keydown = function(evt) { - + //'this' is the doc var wym = WYMeditor.INSTANCES[this.title]; + + if( evt.keyCode === WYMeditor.KEY.ENTER ){ + var container = wym.selected(); + if( container ){ + var $container = $( container ), + $parent = $container.parent(), + $embedded = $container.parents( '.embedded-item' ); + if( $embedded.size() ){ + // if the cursor is in the title, add a para before + var $newNode = $( '<p/>' ); + if( $container.hasClass( 'title' ) ){ + $embedded.before( $newNode ); + // if the cursor is in the content, add after + } else if( $container.hasClass( 'content' ) ){ + $embedded.after( $newNode ); + } + wym.setFocusToNode( $newNode.get(0) ); + // prevent the default - wym's chop the text and split it up into paras + return false; + } + } + } if(evt.ctrlKey){ if(evt.keyCode == 66){ diff -r a24050956e787690b7a37564a932fdfb194cdb6a -r 2295745a2888e74a518bdd6d7189d10031cbbf7d static/scripts/packed/galaxy.pages.js --- a/static/scripts/packed/galaxy.pages.js +++ b/static/scripts/packed/galaxy.pages.js @@ -1,1 +1,1 @@ -var Galaxy={ITEM_HISTORY:"item_history",ITEM_DATASET:"item_dataset",ITEM_WORKFLOW:"item_workflow",ITEM_PAGE:"item_page",ITEM_VISUALIZATION:"item_visualization",DIALOG_HISTORY_LINK:"link_history",DIALOG_DATASET_LINK:"link_dataset",DIALOG_WORKFLOW_LINK:"link_workflow",DIALOG_PAGE_LINK:"link_page",DIALOG_VISUALIZATION_LINK:"link_visualization",DIALOG_EMBED_HISTORY:"embed_history",DIALOG_EMBED_DATASET:"embed_dataset",DIALOG_EMBED_WORKFLOW:"embed_workflow",DIALOG_EMBED_PAGE:"embed_page",DIALOG_EMBED_VISUALIZATION:"embed_visualization",DIALOG_HISTORY_ANNOTATE:"history_annotate",};function init_galaxy_elts(a){$(".annotation",a._doc.body).each(function(){$(this).click(function(){var b=a._doc.createRange();b.selectNodeContents(this);var d=window.getSelection();d.removeAllRanges();d.addRange(b);var c=""})})}function get_item_info(d){var f,c,b;switch(d){case (Galaxy.ITEM_HISTORY):f="History";c="Histories";b="history";item_class="History";break;case (Galaxy.ITEM_DATASET):f="Dataset";c="Datasets";b="dataset";item_class="HistoryDatasetAssociation";break;case (Galaxy.ITEM_WORKFLOW):f="Workflow";c="Workflows";b="workflow";item_class="StoredWorkflow";break;case (Galaxy.ITEM_PAGE):f="Page";c="Pages";b="page";item_class="Page";break;case (Galaxy.ITEM_VISUALIZATION):f="Visualization";c="Visualizations";b="visualization";item_class="Visualization";break}var e="list_"+c.toLowerCase()+"_for_selection";var a=list_objects_url.replace("LIST_ACTION",e);return{singular:f,plural:c,controller:b,iclass:item_class,list_ajax_url:a}}function make_item_importable(a,c,b){ajax_url=set_accessible_url.replace("ITEM_CONTROLLER",a);$.ajax({type:"POST",url:ajax_url,data:{id:c,accessible:"True"},error:function(){alert("Making "+b+" accessible failed")}})}WYMeditor.editor.prototype.dialog=function(i,e,g){var a=this;var b=a.uniqueStamp();var f=a.selected();function h(){$("#set_link_id").click(function(){$("#link_attribute_label").text("ID/Name");var k=$(".wym_href");k.addClass("wym_id").removeClass("wym_href");if(f){k.val($(f).attr("id"))}$(this).remove()})}if(i==WYMeditor.DIALOG_LINK){if(f){$(a._options.hrefSelector).val($(f).attr(WYMeditor.HREF));$(a._options.srcSelector).val($(f).attr(WYMeditor.SRC));$(a._options.titleSelector).val($(f).attr(WYMeditor.TITLE));$(a._options.altSelector).val($(f).attr(WYMeditor.ALT))}var c,d;if(f){c=$(f).attr("href");if(c==undefined){c=""}d=$(f).attr("title");if(d==undefined){d=""}}show_modal("Create Link","<div><div><label id='link_attribute_label'>URL <span style='float: right; font-size: 90%'><a href='#' id='set_link_id'>Create in-page anchor</a></span></label><br><input type='text' class='wym_href' value='"+c+"' size='40' /></div><div><label>Title</label><br><input type='text' class='wym_title' value='"+d+"' size='40' /></div><div>",{"Make link":function(){var m=$(a._options.hrefSelector).val()||"",k=$(".wym_id").val()||"",n=$(a._options.titleSelector).val()||"";if(m||k){a._exec(WYMeditor.CREATE_LINK,b);var l=$("a[href="+b+"]",a._doc.body);l.attr(WYMeditor.HREF,m).attr(WYMeditor.TITLE,n).attr("id",k);if(l.text().indexOf("wym-")===0){l.text(n)}}hide_modal()},Cancel:function(){hide_modal()}},{},h)}if(i==WYMeditor.DIALOG_IMAGE){if(a._selected_image){$(a._options.dialogImageSelector+" "+a._options.srcSelector).val($(a._selected_image).attr(WYMeditor.SRC));$(a._options.dialogImageSelector+" "+a._options.titleSelector).val($(a._selected_image).attr(WYMeditor.TITLE));$(a._options.dialogImageSelector+" "+a._options.altSelector).val($(a._selected_image).attr(WYMeditor.ALT))}show_modal("Image","<div class='row'><label>URL</label><br><input type='text' class='wym_src' value='' size='40' /></div><div class='row'><label>Alt text</label><br><input type='text' class='wym_alt' value='' size='40' /></div><div class='row'><label>Title</label><br><input type='text' class='wym_title' value='' size='40' /></div>",{Insert:function(){var k=$(a._options.srcSelector).val();if(k.length>0){a._exec(WYMeditor.INSERT_IMAGE,b);$("img[src$="+b+"]",a._doc.body).attr(WYMeditor.SRC,k).attr(WYMeditor.TITLE,$(a._options.titleSelector).val()).attr(WYMeditor.ALT,$(a._options.altSelector).val())}hide_modal()},Cancel:function(){hide_modal()}});return}if(i==WYMeditor.DIALOG_TABLE){show_modal("Table","<div class='row'><label>Caption</label><br><input type='text' class='wym_caption' value='' size='40' /></div><div class='row'><label>Summary</label><br><input type='text' class='wym_summary' value='' size='40' /></div><div class='row'><label>Number Of Rows<br></label><input type='text' class='wym_rows' value='3' size='3' /></div><div class='row'><label>Number Of Cols<br></label><input type='text' class='wym_cols' value='2' size='3' /></div>",{Insert:function(){var o=$(a._options.rowsSelector).val();var r=$(a._options.colsSelector).val();if(o>0&&r>0){var n=a._doc.createElement(WYMeditor.TABLE);var l=null;var q=null;var k=$(a._options.captionSelector).val();var p=n.createCaption();p.innerHTML=k;for(x=0;x<o;x++){l=n.insertRow(x);for(y=0;y<r;y++){l.insertCell(y)}}$(n).attr("summary",$(a._options.summarySelector).val());var m=$(a.findUp(a.container(),WYMeditor.MAIN_CONTAINERS)).get(0);if(!m||!m.parentNode){$(a._doc.body).append(n)}else{$(m).after(n)}}hide_modal()},Cancel:function(){hide_modal()}})}if(i==Galaxy.DIALOG_HISTORY_LINK||i==Galaxy.DIALOG_DATASET_LINK||i==Galaxy.DIALOG_WORKFLOW_LINK||i==Galaxy.DIALOG_PAGE_LINK||i==Galaxy.DIALOG_VISUALIZATION_LINK){var j;switch(i){case (Galaxy.DIALOG_HISTORY_LINK):j=get_item_info(Galaxy.ITEM_HISTORY);break;case (Galaxy.DIALOG_DATASET_LINK):j=get_item_info(Galaxy.ITEM_DATASET);break;case (Galaxy.DIALOG_WORKFLOW_LINK):j=get_item_info(Galaxy.ITEM_WORKFLOW);break;case (Galaxy.DIALOG_PAGE_LINK):j=get_item_info(Galaxy.ITEM_PAGE);break;case (Galaxy.DIALOG_VISUALIZATION_LINK):j=get_item_info(Galaxy.ITEM_VISUALIZATION);break}$.ajax({url:j.list_ajax_url,data:{},error:function(){alert("Failed to list "+j.plural.toLowerCase()+" for selection")},success:function(k){show_modal("Insert Link to "+j.singular,k+"<div><input id='make-importable' type='checkbox' checked/>Make the selected "+j.plural.toLowerCase()+" accessible so that they can viewed by everyone.</div>",{Insert:function(){var m=false;if($("#make-importable:checked").val()!==null){m=true}var l=new Array();$("input[name=id]:checked").each(function(){var n=$(this).val();if(m){make_item_importable(j.controller,n,j.singular)}url_template=get_name_and_link_url+n;ajax_url=url_template.replace("ITEM_CONTROLLER",j.controller);$.getJSON(ajax_url,function(p){a._exec(WYMeditor.CREATE_LINK,b);var o=$("a[href="+b+"]",a._doc.body).text();if(o==""||o==b){a.insert("<a href='"+p.link+"'>"+j.singular+" '"+p.name+"'</a>")}else{$("a[href="+b+"]",a._doc.body).attr(WYMeditor.HREF,p.link).attr(WYMeditor.TITLE,j.singular+n)}})});hide_modal()},Cancel:function(){hide_modal()}})}})}if(i==Galaxy.DIALOG_EMBED_HISTORY||i==Galaxy.DIALOG_EMBED_DATASET||i==Galaxy.DIALOG_EMBED_WORKFLOW||i==Galaxy.DIALOG_EMBED_PAGE||i==Galaxy.DIALOG_EMBED_VISUALIZATION){var j;switch(i){case (Galaxy.DIALOG_EMBED_HISTORY):j=get_item_info(Galaxy.ITEM_HISTORY);break;case (Galaxy.DIALOG_EMBED_DATASET):j=get_item_info(Galaxy.ITEM_DATASET);break;case (Galaxy.DIALOG_EMBED_WORKFLOW):j=get_item_info(Galaxy.ITEM_WORKFLOW);break;case (Galaxy.DIALOG_EMBED_PAGE):j=get_item_info(Galaxy.ITEM_PAGE);break;case (Galaxy.DIALOG_EMBED_VISUALIZATION):j=get_item_info(Galaxy.ITEM_VISUALIZATION);break}$.ajax({url:j.list_ajax_url,data:{},error:function(){alert("Failed to list "+j.plural.toLowerCase()+" for selection")},success:function(k){if(i==Galaxy.DIALOG_EMBED_HISTORY||i==Galaxy.DIALOG_EMBED_WORKFLOW||i==Galaxy.DIALOG_EMBED_VISUALIZATION){k=k+"<div><input id='make-importable' type='checkbox' checked/>Make the selected "+j.plural.toLowerCase()+" accessible so that they can viewed by everyone.</div>"}show_modal("Embed "+j.plural,k,{Embed:function(){var l=false;if($("#make-importable:checked").val()!=null){l=true}$("input[name=id]:checked").each(function(){var m=$(this).val();var p=$("label[for='"+m+"']:first").text();if(l){make_item_importable(j.controller,m,j.singular)}var n=j.iclass+"-"+m;var o="<p><div id='"+n+"' class='embedded-item "+j.singular.toLowerCase()+" placeholder'><p class='title'>Embedded Galaxy "+j.singular+" '"+p+"'</p><p class='content'> [Do not edit this block; Galaxy will fill it in with the annotated "+j.singular.toLowerCase()+" when it is displayed.] </p></div></p>";a.insert(" ");a.insert(o);$("#"+n,a._doc.body).each(function(){var q=true;while(q){var r=$(this).prev();if(r.length!=0&&jQuery.trim(r.text())==""){r.remove()}else{q=false}}})});hide_modal()},Cancel:function(){hide_modal()}})}})}if(i==Galaxy.DIALOG_ANNOTATE_HISTORY){$.ajax({url:list_histories_for_selection_url,data:{},error:function(){alert("Grid refresh failed")},success:function(k){show_modal("Insert Link to History",k,{Annotate:function(){var l=new Array();$("input[name=id]:checked").each(function(){var m=$(this).val();$.ajax({url:get_history_annotation_table_url,data:{id:m},error:function(){alert("Grid refresh failed")},success:function(n){a.insert(n);init_galaxy_elts(a)}})});hide_modal()},Cancel:function(){hide_modal()}})}})}};$(function(){$(document).ajaxError(function(i,g){var h=g.responseText||g.statusText||"Could not connect to server";show_modal("Server error",h,{"Ignore error":hide_modal});return false});$("[name=page_content]").wymeditor({skin:"galaxy",basePath:editor_base_path,iframeBasePath:iframe_base_path,boxHtml:"<table class='wym_box' width='100%' height='100%'><tr><td><div class='wym_area_top'>"+WYMeditor.TOOLS+"</div></td></tr><tr height='100%'><td><div class='wym_area_main' style='height: 100%;'>"+WYMeditor.IFRAME+WYMeditor.STATUS+"</div></div></td></tr></table>",toolsItems:[{name:"Bold",title:"Strong",css:"wym_tools_strong"},{name:"Italic",title:"Emphasis",css:"wym_tools_emphasis"},{name:"Superscript",title:"Superscript",css:"wym_tools_superscript"},{name:"Subscript",title:"Subscript",css:"wym_tools_subscript"},{name:"InsertOrderedList",title:"Ordered_List",css:"wym_tools_ordered_list"},{name:"InsertUnorderedList",title:"Unordered_List",css:"wym_tools_unordered_list"},{name:"Indent",title:"Indent",css:"wym_tools_indent"},{name:"Outdent",title:"Outdent",css:"wym_tools_outdent"},{name:"Undo",title:"Undo",css:"wym_tools_undo"},{name:"Redo",title:"Redo",css:"wym_tools_redo"},{name:"CreateLink",title:"Link",css:"wym_tools_link"},{name:"Unlink",title:"Unlink",css:"wym_tools_unlink"},{name:"InsertImage",title:"Image",css:"wym_tools_image"},{name:"InsertTable",title:"Table",css:"wym_tools_table"},]});var d=$.wymeditors(0);var f=function(g){show_modal("Saving page","progress");$.ajax({url:save_url,type:"POST",data:{id:page_id,content:d.xhtml(),annotations:JSON.stringify(new Object()),_:"true"},success:function(){g()}})};$("#save-button").click(function(){f(function(){hide_modal()})});$("#close-button").click(function(){var h=false;if(h){var g=function(){window.onbeforeunload=undefined;window.document.location=page_list_url};show_modal("Close editor","There are unsaved changes to your page which will be lost.",{Cancel:hide_modal,"Save Changes":function(){f(g)}},{"Don't Save":g})}else{window.document.location=page_list_url}});var a=$("<div class='galaxy-page-editor-button'><a id='insert-galaxy-link' class='action-button popup' href='#'>Paragraph type</a></div>");$(".wym_area_top").append(a);var b={};$.each(d._options.containersItems,function(h,g){var i=g.name;b[g.title.replace("_"," ")]=function(){d.container(i)}});make_popupmenu(a,b);var c=$("<div><a id='insert-galaxy-link' class='action-button popup' href='#'>Insert Link to Galaxy Object</a></div>").addClass("galaxy-page-editor-button");$(".wym_area_top").append(c);make_popupmenu(c,{"Insert History Link":function(){d.dialog(Galaxy.DIALOG_HISTORY_LINK)},"Insert Dataset Link":function(){d.dialog(Galaxy.DIALOG_DATASET_LINK)},"Insert Workflow Link":function(){d.dialog(Galaxy.DIALOG_WORKFLOW_LINK)},"Insert Page Link":function(){d.dialog(Galaxy.DIALOG_PAGE_LINK)},"Insert Visualization Link":function(){d.dialog(Galaxy.DIALOG_VISUALIZATION_LINK)},});var e=$("<div><a id='embed-galaxy-object' class='action-button popup' href='#'>Embed Galaxy Object</a></div>").addClass("galaxy-page-editor-button");$(".wym_area_top").append(e);make_popupmenu(e,{"Embed History":function(){d.dialog(Galaxy.DIALOG_EMBED_HISTORY)},"Embed Dataset":function(){d.dialog(Galaxy.DIALOG_EMBED_DATASET)},"Embed Workflow":function(){d.dialog(Galaxy.DIALOG_EMBED_WORKFLOW)},"Embed Visualization":function(){d.dialog(Galaxy.DIALOG_EMBED_VISUALIZATION)},})}); \ No newline at end of file +var Galaxy={ITEM_HISTORY:"item_history",ITEM_DATASET:"item_dataset",ITEM_WORKFLOW:"item_workflow",ITEM_PAGE:"item_page",ITEM_VISUALIZATION:"item_visualization",DIALOG_HISTORY_LINK:"link_history",DIALOG_DATASET_LINK:"link_dataset",DIALOG_WORKFLOW_LINK:"link_workflow",DIALOG_PAGE_LINK:"link_page",DIALOG_VISUALIZATION_LINK:"link_visualization",DIALOG_EMBED_HISTORY:"embed_history",DIALOG_EMBED_DATASET:"embed_dataset",DIALOG_EMBED_WORKFLOW:"embed_workflow",DIALOG_EMBED_PAGE:"embed_page",DIALOG_EMBED_VISUALIZATION:"embed_visualization",DIALOG_HISTORY_ANNOTATE:"history_annotate",};function init_galaxy_elts(a){$(".annotation",a._doc.body).each(function(){$(this).click(function(){var b=a._doc.createRange();b.selectNodeContents(this);var d=window.getSelection();d.removeAllRanges();d.addRange(b);var c=""})})}function get_item_info(d){var f,c,b;switch(d){case (Galaxy.ITEM_HISTORY):f="History";c="Histories";b="history";item_class="History";break;case (Galaxy.ITEM_DATASET):f="Dataset";c="Datasets";b="dataset";item_class="HistoryDatasetAssociation";break;case (Galaxy.ITEM_WORKFLOW):f="Workflow";c="Workflows";b="workflow";item_class="StoredWorkflow";break;case (Galaxy.ITEM_PAGE):f="Page";c="Pages";b="page";item_class="Page";break;case (Galaxy.ITEM_VISUALIZATION):f="Visualization";c="Visualizations";b="visualization";item_class="Visualization";break}var e="list_"+c.toLowerCase()+"_for_selection";var a=list_objects_url.replace("LIST_ACTION",e);return{singular:f,plural:c,controller:b,iclass:item_class,list_ajax_url:a}}function make_item_importable(a,c,b){ajax_url=set_accessible_url.replace("ITEM_CONTROLLER",a);$.ajax({type:"POST",url:ajax_url,data:{id:c,accessible:"True"},error:function(){alert("Making "+b+" accessible failed")}})}WYMeditor.editor.prototype.dialog=function(i,e,g){var a=this;var b=a.uniqueStamp();var f=a.selected();function h(){$("#set_link_id").click(function(){$("#link_attribute_label").text("ID/Name");var 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a",htmlValSelector:".wym_html_val",hrefSelector:".wym_href",srcSelector:".wym_src",titleSelector:".wym_title",altSelector:".wym_alt",textSelector:".wym_text",rowsSelector:".wym_rows",colsSelector:".wym_cols",captionSelector:".wym_caption",summarySelector:".wym_summary",submitSelector:".wym_submit",cancelSelector:".wym_cancel",previewSelector:"",dialogTypeSelector:".wym_dialog_type",dialogLinkSelector:".wym_dialog_link",dialogImageSelector:".wym_dialog_image",dialogTableSelector:".wym_dialog_table",dialogPasteSelector:".wym_dialog_paste",dialogPreviewSelector:".wym_dialog_preview",updateSelector:".wymupdate",updateEvent:"click",dialogFeatures:"menubar=no,titlebar=no,toolbar=no,resizable=no,width=560,height=300,top=0,left=0",dialogFeaturesPreview:"menubar=no,titlebar=no,toolbar=no,resizable=no,scrollbars=yes,width=560,height=300,top=0,left=0",dialogHtml:"<!DOCTYPE html PUBLIC '-//W3C//DTD XHTML 1.0 Strict//EN' 'http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd'><html dir='"+WYMeditor.DIRECTION+"'><head><link rel='stylesheet' type='text/css' media='screen' href='"+WYMeditor.CSS_PATH+"' /><title>"+WYMeditor.DIALOG_TITLE+"</title><script type='text/javascript' src='"+WYMeditor.JQUERY_PATH+"'><\/script><script type='text/javascript' src='"+WYMeditor.WYM_PATH+"'><\/script></head>"+WYMeditor.DIALOG_BODY+"</html>",dialogLinkHtml:"<body class='wym_dialog wym_dialog_link' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><fieldset><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_LINK+"' /><legend>{Link}</legend><div class='row'><label>{URL}</label><input type='text' class='wym_href' value='' size='40' /></div><div class='row'><label>{Title}</label><input type='text' class='wym_title' value='' size='40' /></div><div class='row row-indent'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogImageHtml:"<body class='wym_dialog wym_dialog_image' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><fieldset><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_IMAGE+"' /><legend>{Image}</legend><div class='row'><label>{URL}</label><input type='text' class='wym_src' value='' size='40' /></div><div class='row'><label>{Alternative_Text}</label><input type='text' class='wym_alt' value='' size='40' /></div><div class='row'><label>{Title}</label><input type='text' class='wym_title' value='' size='40' /></div><div class='row row-indent'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogTableHtml:"<body class='wym_dialog wym_dialog_table' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><fieldset><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_TABLE+"' /><legend>{Table}</legend><div class='row'><label>{Caption}</label><input type='text' class='wym_caption' value='' size='40' /></div><div class='row'><label>{Summary}</label><input type='text' class='wym_summary' value='' size='40' /></div><div class='row'><label>{Number_Of_Rows}</label><input type='text' class='wym_rows' value='3' size='3' /></div><div class='row'><label>{Number_Of_Cols}</label><input type='text' class='wym_cols' value='2' size='3' /></div><div class='row row-indent'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogPasteHtml:"<body class='wym_dialog wym_dialog_paste' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_PASTE+"' /><fieldset><legend>{Paste_From_Word}</legend><div class='row'><textarea class='wym_text' rows='10' cols='50'></textarea></div><div class='row'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogPreviewHtml:"<body class='wym_dialog wym_dialog_preview' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'></body>",dialogStyles:[],stringDelimiterLeft:"{",stringDelimiterRight:"}",preInit:null,preBind:null,postInit:null,preInitDialog:null,postInitDialog:null},a);return this.each(function(){new WYMeditor.editor(jQuery(this),a)})};jQuery.extend({wymeditors:function(a){return(WYMeditor.INSTANCES[a])}});WYMeditor.editor.prototype.init=function(){if(jQuery.browser.msie){var WymClass=new WYMeditor.WymClassExplorer(this)}else{if(jQuery.browser.mozilla){var WymClass=new WYMeditor.WymClassMozilla(this)}else{if(jQuery.browser.opera){var WymClass=new WYMeditor.WymClassOpera(this)}else{if(jQuery.browser.safari||jQuery.browser.chrome){var WymClass=new WYMeditor.WymClassSafari(this)}}}}if(WymClass){if(jQuery.isFunction(this._options.preInit)){this._options.preInit(this)}var SaxListener=new WYMeditor.XhtmlSaxListener();jQuery.extend(SaxListener,WymClass);this.parser=new WYMeditor.XhtmlParser(SaxListener);if(this._options.styles||this._options.stylesheet){this.configureEditorUsingRawCss()}this.helper=new WYMeditor.XmlHelper();for(var prop in WymClass){this[prop]=WymClass[prop]}this._box=jQuery(this._element).hide().after(this._options.boxHtml).next().addClass("wym_box_"+this._index);if(jQuery.isFunction(jQuery.fn.data)){jQuery.data(this._box.get(0),WYMeditor.WYM_INDEX,this._index);jQuery.data(this._element.get(0),WYMeditor.WYM_INDEX,this._index)}var h=WYMeditor.Helper;var iframeHtml=this._options.iframeHtml;iframeHtml=h.replaceAll(iframeHtml,WYMeditor.INDEX,this._index);iframeHtml=h.replaceAll(iframeHtml,WYMeditor.IFRAME_BASE_PATH,this._options.iframeBasePath);var boxHtml=jQuery(this._box).html();boxHtml=h.replaceAll(boxHtml,WYMeditor.LOGO,this._options.logoHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.TOOLS,this._options.toolsHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.CONTAINERS,this._options.containersHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.CLASSES,this._options.classesHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.HTML,this._options.htmlHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.IFRAME,iframeHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.STATUS,this._options.statusHtml);var aTools=eval(this._options.toolsItems);var sTools="";for(var i=0;i<aTools.length;i++){var oTool=aTools[i];if(oTool.name&&oTool.title){var sTool=this._options.toolsItemHtml}var sTool=h.replaceAll(sTool,WYMeditor.TOOL_NAME,oTool.name);sTool=h.replaceAll(sTool,WYMeditor.TOOL_TITLE,this._options.stringDelimiterLeft+oTool.title+this._options.stringDelimiterRight);sTool=h.replaceAll(sTool,WYMeditor.TOOL_CLASS,oTool.css);sTools+=sTool}boxHtml=h.replaceAll(boxHtml,WYMeditor.TOOLS_ITEMS,sTools);var aClasses=eval(this._options.classesItems);var sClasses="";for(var i=0;i<aClasses.length;i++){var oClass=aClasses[i];if(oClass.name&&oClass.title){var sClass=this._options.classesItemHtml}sClass=h.replaceAll(sClass,WYMeditor.CLASS_NAME,oClass.name);sClass=h.replaceAll(sClass,WYMeditor.CLASS_TITLE,oClass.title);sClasses+=sClass}boxHtml=h.replaceAll(boxHtml,WYMeditor.CLASSES_ITEMS,sClasses);var aContainers=eval(this._options.containersItems);var sContainers="";for(var i=0;i<aContainers.length;i++){var oContainer=aContainers[i];if(oContainer.name&&oContainer.title){var sContainer=this._options.containersItemHtml}sContainer=h.replaceAll(sContainer,WYMeditor.CONTAINER_NAME,oContainer.name);sContainer=h.replaceAll(sContainer,WYMeditor.CONTAINER_TITLE,this._options.stringDelimiterLeft+oContainer.title+this._options.stringDelimiterRight);sContainer=h.replaceAll(sContainer,WYMeditor.CONTAINER_CLASS,oContainer.css);sContainers+=sContainer}boxHtml=h.replaceAll(boxHtml,WYMeditor.CONTAINERS_ITEMS,sContainers);boxHtml=this.replaceStrings(boxHtml);jQuery(this._box).html(boxHtml);jQuery(this._box).find(this._options.htmlSelector).hide();this.loadSkin()}};WYMeditor.editor.prototype.bindEvents=function(){var wym=this;jQuery(this._box).find(this._options.toolSelector).click(function(){wym._iframe.contentWindow.focus();wym.exec(jQuery(this).attr(WYMeditor.NAME));return(false)});jQuery(this._box).find(this._options.containerSelector).click(function(){wym.container(jQuery(this).attr(WYMeditor.NAME));return(false)});jQuery(this._box).find(this._options.htmlValSelector).keyup(function(){jQuery(wym._doc.body).html(jQuery(this).val())}).focus(function(){jQuery(this).toggleClass("hasfocus")}).blur(function(){jQuery(this).toggleClass("hasfocus")});jQuery(this._box).find(this._options.classSelector).click(function(){var aClasses=eval(wym._options.classesItems);var sName=jQuery(this).attr(WYMeditor.NAME);var oClass=WYMeditor.Helper.findByName(aClasses,sName);if(oClass){var jqexpr=oClass.expr;wym.toggleClass(sName,jqexpr)}wym._iframe.contentWindow.focus();return(false)});jQuery(this._options.updateSelector).bind(this._options.updateEvent,function(){wym.update()})};WYMeditor.editor.prototype.ready=function(){return(this._doc!=null)};WYMeditor.editor.prototype.box=function(){return(this._box)};WYMeditor.editor.prototype.html=function(a){if(typeof a==="string"){jQuery(this._doc.body).html(a)}else{return(jQuery(this._doc.body).html())}};WYMeditor.editor.prototype.xhtml=function(){return this.parser.parse(this.html())};WYMeditor.editor.prototype.exec=function(b){switch(b){case WYMeditor.CREATE_LINK:var a=this.container();if(a||this._selected_image){this.dialog(WYMeditor.DIALOG_LINK)}break;case WYMeditor.INSERT_IMAGE:this.dialog(WYMeditor.DIALOG_IMAGE);break;case WYMeditor.INSERT_TABLE:this.dialog(WYMeditor.DIALOG_TABLE);break;case WYMeditor.PASTE:this.dialog(WYMeditor.DIALOG_PASTE);break;case WYMeditor.TOGGLE_HTML:this.update();this.toggleHtml();if(!jQuery(this._box).find(this._options.htmlSelector).is(":visible")){this.listen()}break;case WYMeditor.PREVIEW:this.dialog(WYMeditor.PREVIEW,this._options.dialogFeaturesPreview);break;default:this._exec(b);break}};WYMeditor.editor.prototype.container=function(a){if(a){var d=null;if(a.toLowerCase()==WYMeditor.TH){d=this.container();switch(d.tagName.toLowerCase()){case WYMeditor.TD:case WYMeditor.TH:break;default:var e=new Array(WYMeditor.TD,WYMeditor.TH);d=this.findUp(this.container(),e);break}if(d!=null){a=(d.tagName.toLowerCase()==WYMeditor.TD)?WYMeditor.TH:WYMeditor.TD;this.switchTo(d,a);this.update()}}else{var e=new Array(WYMeditor.P,WYMeditor.H1,WYMeditor.H2,WYMeditor.H3,WYMeditor.H4,WYMeditor.H5,WYMeditor.H6,WYMeditor.PRE,WYMeditor.BLOCKQUOTE);d=this.findUp(this.container(),e);if(d){var i=null;if(a.toLowerCase()==WYMeditor.BLOCKQUOTE){var f=this.findUp(this.container(),WYMeditor.BLOCKQUOTE);if(f==null){i=this._doc.createElement(a);d.parentNode.insertBefore(i,d);i.appendChild(d);this.setFocusToNode(i.firstChild)}else{var c=f.childNodes;var g=c.length;var b=null;if(g>0){b=c.item(0)}for(var h=0;h<g;h++){f.parentNode.insertBefore(c.item(0),f)}f.parentNode.removeChild(f);if(b){this.setFocusToNode(b)}}}else{this.switchTo(d,a)}this.update()}}}else{return(this.selected())}};WYMeditor.editor.prototype.toggleClass=function(c,b){var a=(this._selected_image?this._selected_image:jQuery(this.selected()));a=jQuery(a).parentsOrSelf(b);jQuery(a).toggleClass(c);if(!jQuery(a).attr(WYMeditor.CLASS)){jQuery(a).removeAttr(this._class)}};WYMeditor.editor.prototype.findUp=function(d,c){if(d){var e=d.tagName.toLowerCase();if(typeof(c)==WYMeditor.STRING){while(e!=c&&e!=WYMeditor.BODY){d=d.parentNode;e=d.tagName.toLowerCase()}}else{var b=false;while(!b&&e!=WYMeditor.BODY){for(var a=0;a<c.length;a++){if(e==c[a]){b=true;break}}if(!b){d=d.parentNode;e=d.tagName.toLowerCase()}}}if(e!=WYMeditor.BODY){return(d)}else{return(null)}}else{return(null)}};WYMeditor.editor.prototype.switchTo=function(c,d){var b=this._doc.createElement(d);var a=jQuery(c).html();c.parentNode.replaceChild(b,c);jQuery(b).html(a);this.setFocusToNode(b)};WYMeditor.editor.prototype.replaceStrings=function(sVal){if(!WYMeditor.STRINGS[this._options.lang]){try{eval(jQuery.ajax({url:this._options.langPath+this._options.lang+".js",async:false}).responseText)}catch(e){WYMeditor.console.error("WYMeditor: error while parsing language file.");return sVal}}for(var key in WYMeditor.STRINGS[this._options.lang]){sVal=WYMeditor.Helper.replaceAll(sVal,this._options.stringDelimiterLeft+key+this._options.stringDelimiterRight,WYMeditor.STRINGS[this._options.lang][key])}return(sVal)};WYMeditor.editor.prototype.encloseString=function(a){return(this._options.stringDelimiterLeft+a+this._options.stringDelimiterRight)};WYMeditor.editor.prototype.status=function(a){jQuery(this._box).find(this._options.statusSelector).html(a)};WYMeditor.editor.prototype.update=function(){var a=this.xhtml();jQuery(this._element).val(a);jQuery(this._box).find(this._options.htmlValSelector).not(".hasfocus").val(a)};WYMeditor.editor.prototype.dialog=function(j,c,f){var a=c||this._wym._options.dialogFeatures;var d=window.open("","dialog",a);if(d){var b="";switch(j){case (WYMeditor.DIALOG_LINK):b=this._options.dialogLinkHtml;break;case (WYMeditor.DIALOG_IMAGE):b=this._options.dialogImageHtml;break;case (WYMeditor.DIALOG_TABLE):b=this._options.dialogTableHtml;break;case (WYMeditor.DIALOG_PASTE):b=this._options.dialogPasteHtml;break;case (WYMeditor.PREVIEW):b=this._options.dialogPreviewHtml;break;default:b=f}var e=WYMeditor.Helper;var g=this._options.dialogHtml;g=e.replaceAll(g,WYMeditor.BASE_PATH,this._options.basePath);g=e.replaceAll(g,WYMeditor.DIRECTION,this._options.direction);g=e.replaceAll(g,WYMeditor.CSS_PATH,this._options.skinPath+WYMeditor.SKINS_DEFAULT_CSS);g=e.replaceAll(g,WYMeditor.WYM_PATH,this._options.wymPath);g=e.replaceAll(g,WYMeditor.JQUERY_PATH,this._options.jQueryPath);g=e.replaceAll(g,WYMeditor.DIALOG_TITLE,this.encloseString(j));g=e.replaceAll(g,WYMeditor.DIALOG_BODY,b);g=e.replaceAll(g,WYMeditor.INDEX,this._index);g=this.replaceStrings(g);var i=d.document;i.write(g);i.close()}};WYMeditor.editor.prototype.toggleHtml=function(){jQuery(this._box).find(this._options.htmlSelector).toggle()};WYMeditor.editor.prototype.uniqueStamp=function(){var a=new Date();return("wym-"+a.getTime())};WYMeditor.editor.prototype.paste=function(b){var e;var a=this.selected();var c=b.split(this._newLine+this._newLine);var d=new RegExp(this._newLine,"g");if(a&&a.tagName.toLowerCase()!=WYMeditor.BODY){for(x=c.length-1;x>=0;x--){e=c[x];e=e.replace(d,"<br />");jQuery(a).after("<p>"+e+"</p>")}}else{for(x=0;x<c.length;x++){e=c[x];e=e.replace(d,"<br />");jQuery(this._doc.body).append("<p>"+e+"</p>")}}};WYMeditor.editor.prototype.insert=function(a){if(this._iframe.contentWindow.getSelection().focusNode!=null){this._exec(WYMeditor.INSERT_HTML,a)}else{this.paste(a)}};WYMeditor.editor.prototype.wrap=function(b,a){if(this._iframe.contentWindow.getSelection().focusNode!=null){this._exec(WYMeditor.INSERT_HTML,b+this._iframe.contentWindow.getSelection().toString()+a)}};WYMeditor.editor.prototype.unwrap=function(){if(this._iframe.contentWindow.getSelection().focusNode!=null){this._exec(WYMeditor.INSERT_HTML,this._iframe.contentWindow.getSelection().toString())}};WYMeditor.editor.prototype.addCssRules=function(e,c){var b=e.styleSheets[0];if(b){for(var a=0;a<c.length;a++){var d=c[a];if(d.name&&d.css){this.addCssRule(b,d)}}}};WYMeditor.editor.prototype.computeBasePath=function(){return jQuery(jQuery.grep(jQuery("script"),function(a){return(a.src&&a.src.match(/jquery\.wymeditor(\.pack|\.min|\.packed)?\.js(\?.*)?$/))})).attr("src").replace(/jquery\.wymeditor(\.pack|\.min|\.packed)?\.js(\?.*)?$/,"")};WYMeditor.editor.prototype.computeWymPath=function(){return jQuery(jQuery.grep(jQuery("script"),function(a){return(a.src&&a.src.match(/jquery\.wymeditor(\.pack|\.min|\.packed)?\.js(\?.*)?$/))})).attr("src")};WYMeditor.editor.prototype.computeJqueryPath=function(){return jQuery(jQuery.grep(jQuery("script"),function(a){return(a.src&&a.src.match(/jquery(-(.*)){0,1}(\.pack|\.min|\.packed)?\.js(\?.*)?$/))})).attr("src")};WYMeditor.editor.prototype.computeCssPath=function(){return jQuery(jQuery.grep(jQuery("link"),function(a){return(a.href&&a.href.match(/wymeditor\/skins\/(.*)screen\.css(\?.*)?$/))})).attr("href")};WYMeditor.editor.prototype.configureEditorUsingRawCss=function(){var a=new WYMeditor.WymCssParser();if(this._options.stylesheet){a.parse(jQuery.ajax({url:this._options.stylesheet,async:false}).responseText)}else{a.parse(this._options.styles,false)}if(this._options.classesItems.length==0){this._options.classesItems=a.css_settings.classesItems}if(this._options.editorStyles.length==0){this._options.editorStyles=a.css_settings.editorStyles}if(this._options.dialogStyles.length==0){this._options.dialogStyles=a.css_settings.dialogStyles}};WYMeditor.editor.prototype.listen=function(){jQuery(this._doc.body).bind("mousedown",this.mousedown);var a=this._doc.body.getElementsByTagName("img");for(var b=0;b<a.length;b++){jQuery(a[b]).bind("mousedown",this.mousedown)}};WYMeditor.editor.prototype.mousedown=function(a){var b=WYMeditor.INSTANCES[this.ownerDocument.title];b._selected_image=(this.tagName.toLowerCase()==WYMeditor.IMG)?this:null;a.stopPropagation()};WYMeditor.loadCss=function(a){var c=document.createElement("link");c.rel="stylesheet";c.href=a;var b=jQuery("head").get(0);b.appendChild(c)};WYMeditor.editor.prototype.loadSkin=function(){if(this._options.loadSkin&&!WYMeditor.SKINS[this._options.skin]){var found=false;var rExp=new RegExp(this._options.skin+"/"+WYMeditor.SKINS_DEFAULT_CSS+"$");jQuery("link").each(function(){if(this.href.match(rExp)){found=true}});if(!found){WYMeditor.loadCss(this._options.skinPath+WYMeditor.SKINS_DEFAULT_CSS)}}jQuery(this._box).addClass("wym_skin_"+this._options.skin);if(this._options.initSkin&&!WYMeditor.SKINS[this._options.skin]){eval(jQuery.ajax({url:this._options.skinPath+WYMeditor.SKINS_DEFAULT_JS,async:false}).responseText)}if(WYMeditor.SKINS[this._options.skin]&&WYMeditor.SKINS[this._options.skin].init){WYMeditor.SKINS[this._options.skin].init(this)}};WYMeditor.INIT_DIALOG=function(index){var wym=window.opener.WYMeditor.INSTANCES[index];var doc=window.document;var selected=wym.selected();var dialogType=jQuery(wym._options.dialogTypeSelector).val();var sStamp=wym.uniqueStamp();switch(dialogType){case WYMeditor.DIALOG_LINK:if(selected&&selected.tagName&&selected.tagName.toLowerCase!=WYMeditor.A){selected=jQuery(selected).parentsOrSelf(WYMeditor.A)}if(!selected&&wym._selected_image){selected=jQuery(wym._selected_image).parentsOrSelf(WYMeditor.A)}break}if(jQuery.isFunction(wym._options.preInitDialog)){wym._options.preInitDialog(wym,window)}var styles=doc.styleSheets[0];var aCss=eval(wym._options.dialogStyles);wym.addCssRules(doc,aCss);if(selected){jQuery(wym._options.hrefSelector).val(jQuery(selected).attr(WYMeditor.HREF));jQuery(wym._options.srcSelector).val(jQuery(selected).attr(WYMeditor.SRC));jQuery(wym._options.titleSelector).val(jQuery(selected).attr(WYMeditor.TITLE));jQuery(wym._options.altSelector).val(jQuery(selected).attr(WYMeditor.ALT))}if(wym._selected_image){jQuery(wym._options.dialogImageSelector+" "+wym._options.srcSelector).val(jQuery(wym._selected_image).attr(WYMeditor.SRC));jQuery(wym._options.dialogImageSelector+" "+wym._options.titleSelector).val(jQuery(wym._selected_image).attr(WYMeditor.TITLE));jQuery(wym._options.dialogImageSelector+" "+wym._options.altSelector).val(jQuery(wym._selected_image).attr(WYMeditor.ALT))}jQuery(wym._options.dialogLinkSelector+" "+wym._options.submitSelector).click(function(){var sUrl=jQuery(wym._options.hrefSelector).val();if(sUrl.length>0){wym._exec(WYMeditor.CREATE_LINK,sStamp);jQuery("a[href="+sStamp+"]",wym._doc.body).attr(WYMeditor.HREF,sUrl).attr(WYMeditor.TITLE,jQuery(wym._options.titleSelector).val())}window.close()});jQuery(wym._options.dialogImageSelector+" "+wym._options.submitSelector).click(function(){var sUrl=jQuery(wym._options.srcSelector).val();if(sUrl.length>0){wym._exec(WYMeditor.INSERT_IMAGE,sStamp);jQuery("img[src$="+sStamp+"]",wym._doc.body).attr(WYMeditor.SRC,sUrl).attr(WYMeditor.TITLE,jQuery(wym._options.titleSelector).val()).attr(WYMeditor.ALT,jQuery(wym._options.altSelector).val())}window.close()});jQuery(wym._options.dialogTableSelector+" "+wym._options.submitSelector).click(function(){var iRows=jQuery(wym._options.rowsSelector).val();var iCols=jQuery(wym._options.colsSelector).val();if(iRows>0&&iCols>0){var table=wym._doc.createElement(WYMeditor.TABLE);var newRow=null;var newCol=null;var sCaption=jQuery(wym._options.captionSelector).val();var newCaption=table.createCaption();newCaption.innerHTML=sCaption;for(x=0;x<iRows;x++){newRow=table.insertRow(x);for(y=0;y<iCols;y++){newRow.insertCell(y)}}jQuery(table).attr("summary",jQuery(wym._options.summarySelector).val());var node=jQuery(wym.findUp(wym.container(),WYMeditor.MAIN_CONTAINERS)).get(0);if(!node||!node.parentNode){jQuery(wym._doc.body).append(table)}else{jQuery(node).after(table)}}window.close()});jQuery(wym._options.dialogPasteSelector+" "+wym._options.submitSelector).click(function(){var sText=jQuery(wym._options.textSelector).val();wym.paste(sText);window.close()});jQuery(wym._options.dialogPreviewSelector+" "+wym._options.previewSelector).html(wym.xhtml());jQuery(wym._options.cancelSelector).mousedown(function(){window.close()});if(jQuery.isFunction(wym._options.postInitDialog)){wym._options.postInitDialog(wym,window)}};WYMeditor.XmlHelper=function(){this._entitiesDiv=document.createElement("div");return this};WYMeditor.XmlHelper.prototype.tag=function(c,b,a){b=b||false;a=a||false;return"<"+c+(b?this.tagOptions(b):"")+(a?">":" />")};WYMeditor.XmlHelper.prototype.contentTag=function(b,c,a){a=a||false;return"<"+b+(a?this.tagOptions(a):"")+">"+c+"</"+b+">"};WYMeditor.XmlHelper.prototype.cdataSection=function(a){return"<![CDATA["+a+"]]>"};WYMeditor.XmlHelper.prototype.escapeOnce=function(a){return this._fixDoubleEscape(this.escapeEntities(a))};WYMeditor.XmlHelper.prototype._fixDoubleEscape=function(a){return a.replace(/&([a-z]+|(#\d+));/ig,"&$1;")};WYMeditor.XmlHelper.prototype.tagOptions=function(b){var a=this;a._formated_options="";for(var c in b){var d="";var e=b[c];if(typeof e!="function"&&e.length>0){if(parseInt(c)==c&&typeof e=="object"){c=e.shift();e=e.pop()}if(c!=""&&e!=""){a._formated_options+=" "+c+'="'+a.escapeOnce(e)+'"'}}}return a._formated_options};WYMeditor.XmlHelper.prototype.escapeEntities=function(c,b){this._entitiesDiv.innerHTML=c;this._entitiesDiv.textContent=c;var a=this._entitiesDiv.innerHTML;if(typeof b=="undefined"){if(b!=false){a=a.replace('"',""")}if(b==true){a=a.replace('"',"'")}}return a};WYMeditor.XmlHelper.prototype.parseAttributes=function(h){var a=[];var g=h.split(/((=\s*")(")("))|((=\s*\')(\')(\'))|((=\s*[^>\s]*))/g);if(g.toString()!=h){for(var d in g){var c=g[d];if(typeof c!="function"&&c.length!=0){var e=new RegExp("(\\w+)\\s*"+c);if(match=h.match(e)){var f=c.replace(/^[\s=]+/,"");var b=f.charAt(0);b=b=='"'?'"':(b=="'"?"'":"");if(b!=""){f=b=='"'?f.replace(/^"|"+$/g,""):f.replace(/^'|'+$/g,"")}h=h.replace(match[0],"");a.push([match[1],f])}}}}return 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|shortcut|icon)+$/i,"3":"type"},inside:"head"},map:{attributes:["id","name"],required:["id"]},meta:{attributes:{"0":"content","http-equiv":/^(content\-type|expires|refresh|set\-cookie)$/i,"1":"name","2":"scheme"},required:["content"]},"27":"noscript",object:{attributes:["archive","classid","codebase","codetype","data","declare","height","name","standby","type","usemap","width"]},"28":"ol",optgroup:{attributes:{"0":"label",disabled:/^(disabled)$/},required:["label"]},option:{attributes:{"0":"label",disabled:/^(disabled)$/,selected:/^(selected)$/,"1":"value"},inside:"select"},"29":"p",param:{attributes:{"0":"type",valuetype:/^(data|ref|object)$/,"1":"valuetype","2":"value"},required:["name"]},"30":"pre",q:{attributes:["cite"]},"31":"samp",script:{attributes:{type:/^(text\/ecmascript|text\/javascript|text\/jscript|text\/vbscript|text\/vbs|text\/xml)$/,"0":"charset",defer:/^(defer)$/,"1":"src"},required:["type"]},select:{attributes:{disabled:/^(disabled)$/,multiple:/^(multiple)$/,"0":"name","1":"size"},inside:"form"},"32":"small","33":"span","34":"strong",style:{attributes:{"0":"type",media:/^(screen|tty|tv|projection|handheld|print|braille|aural|all)$/},required:["type"]},"35":"sub","36":"sup",table:{attributes:{"0":"border","1":"cellpadding","2":"cellspacing",frame:/^(void|above|below|hsides|lhs|rhs|vsides|box|border)$/,rules:/^(none|groups|rows|cols|all)$/,"3":"summary","4":"width"}},tbody:{attributes:{align:/^(right|left|center|justify)$/,"0":"char","1":"charoff",valign:/^(top|middle|bottom|baseline)$/}},td:{attributes:{"0":"abbr",align:/^(left|right|center|justify|char)$/,"1":"axis","2":"char","3":"charoff",colspan:/^(\d)+$/,"4":"headers",rowspan:/^(\d)+$/,scope:/^(col|colgroup|row|rowgroup)$/,valign:/^(top|middle|bottom|baseline)$/}},textarea:{attributes:["cols","rows","disabled","name","readonly"],required:["cols","rows"],inside:"form"},tfoot:{attributes:{align:/^(right|left|center|justify)$/,"0":"char","1":"charoff",valign:/^(top|middle|bottom)$/,"2":"baseline"}},th:{attributes:{"0":"abbr",align:/^(left|right|center|justify|char)$/,"1":"axis","2":"char","3":"charoff",colspan:/^(\d)+$/,"4":"headers",rowspan:/^(\d)+$/,scope:/^(col|colgroup|row|rowgroup)$/,valign:/^(top|middle|bottom|baseline)$/}},thead:{attributes:{align:/^(right|left|center|justify)$/,"0":"char","1":"charoff",valign:/^(top|middle|bottom|baseline)$/}},"37":"title",tr:{attributes:{align:/^(right|left|center|justify|char)$/,"0":"char","1":"charoff",valign:/^(top|middle|bottom|baseline)$/}},"38":"tt","39":"ul","40":"var"},skiped_attributes:[],skiped_attribute_values:[],getValidTagAttributes:function(a,b){var c={};var g=this.getPossibleTagAttributes(a);for(var e in b){var f=b[e];var d=WYMeditor.Helper;if(!d.contains(this.skiped_attributes,e)&&!d.contains(this.skiped_attribute_values,f)){if(typeof f!="function"&&d.contains(g,e)){if(this.doesAttributeNeedsValidation(a,e)){if(this.validateAttribute(a,e,f)){c[e]=f}}else{c[e]=f}}}}return c},getUniqueAttributesAndEventsForTag:function(b){var a=[];if(this._tags[b]&&this._tags[b]["attributes"]){for(k in this._tags[b]["attributes"]){a.push(parseInt(k)==k?this._tags[b]["attributes"][k]:k)}}return a},getDefaultAttributesAndEventsForTags:function(){var a=[];for(var b in this._events){a.push(this._events[b])}for(var b in this._attributes){a.push(this._attributes[b])}return a},isValidTag:function(a){if(this._tags[a]){return true}for(var b in this._tags){if(this._tags[b]==a){return true}}return false},getDefaultAttributesAndEventsForTag:function(a){var i=[];if(this.isValidTag(a)){var g=this.getDefaultAttributesAndEventsForTags();for(var d in g){var f=g[d];if(typeof f=="object"){var e=WYMeditor.Helper;if((f.except&&e.contains(f.except,a))||(f.only&&!e.contains(f.only,a))){continue}var c=f.attributes?f.attributes:f.events;for(var b in c){i.push(typeof c[b]!="string"?b:c[b])}}}}return i},doesAttributeNeedsValidation:function(a,b){return this._tags[a]&&((this._tags[a]["attributes"]&&this._tags[a]["attributes"][b])||(this._tags[a]["required"]&&WYMeditor.Helper.contains(this._tags[a]["required"],b)))},validateAttribute:function(a,b,c){if(this._tags[a]&&(this._tags[a]["attributes"]&&this._tags[a]["attributes"][b]&&c.length>0&&!c.match(this._tags[a]["attributes"][b]))||(this._tags[a]&&this._tags[a]["required"]&&WYMeditor.Helper.contains(this._tags[a]["required"],b)&&c.length==0)){return false}return typeof this._tags[a]!="undefined"},getPossibleTagAttributes:function(a){if(!this._possible_tag_attributes){this._possible_tag_attributes={}}if(!this._possible_tag_attributes[a]){this._possible_tag_attributes[a]=this.getUniqueAttributesAndEventsForTag(a).concat(this.getDefaultAttributesAndEventsForTag(a))}return this._possible_tag_attributes[a]}};WYMeditor.ParallelRegex=function(a){this._case=a;this._patterns=[];this._labels=[];this._regex=null;return this};WYMeditor.ParallelRegex.prototype.addPattern=function(c,a){a=a||true;var b=this._patterns.length;this._patterns[b]=c;this._labels[b]=a;this._regex=null};WYMeditor.ParallelRegex.prototype.match=function(c){if(this._patterns.length==0){return[false,""]}var d=c.match(this._getCompoundedRegex());if(!d){return[false,""]}var a=d[0];for(var b=1;b<d.length;b++){if(d[b]){return[this._labels[b-1],a]}}return[true,d[0]]};WYMeditor.ParallelRegex.prototype._getCompoundedRegex=function(){if(this._regex==null){for(var a=0,b=this._patterns.length;a<b;a++){this._patterns[a]="("+this._untokenizeRegex(this._tokenizeRegex(this._patterns[a]).replace(/([\/])/g,"\\$1"))+")"}this._regex=new RegExp(this._patterns.join("|"),this._getPerlMatchingFlags())}return this._regex};WYMeditor.ParallelRegex.prototype._tokenizeRegex=function(a){return a.replace(/$\?(i|m|s|x|U)$/,"~~~~~~Tk1$1~~~~~~").replace(/$\?(\-[i|m|s|x|U])$/,"~~~~~~Tk2$1~~~~~~").replace(/$\?\=(.*)$/,"~~~~~~Tk3$1~~~~~~").replace(/$\?\!(.*)$/,"~~~~~~Tk4$1~~~~~~").replace(/$\?\<\=(.*)$/,"~~~~~~Tk5$1~~~~~~").replace(/$\?\<\!(.*)$/,"~~~~~~Tk6$1~~~~~~").replace(/$\?\:(.*)$/,"~~~~~~Tk7$1~~~~~~")};WYMeditor.ParallelRegex.prototype._untokenizeRegex=function(a){return a.replace(/~~~~~~Tk1(.{1})~~~~~~/,"(?$1)").replace(/~~~~~~Tk2(.{2})~~~~~~/,"(?$1)").replace(/~~~~~~Tk3(.*)~~~~~~/,"(?=$1)").replace(/~~~~~~Tk4(.*)~~~~~~/,"(?!$1)").replace(/~~~~~~Tk5(.*)~~~~~~/,"(?<=$1)").replace(/~~~~~~Tk6(.*)~~~~~~/,"(?<!$1)").replace(/~~~~~~Tk7(.*)~~~~~~/,"(?:$1)")};WYMeditor.ParallelRegex.prototype._getPerlMatchingFlags=function(){return(this._case?"m":"mi")};WYMeditor.StateStack=function(a){this._stack=[a];return this};WYMeditor.StateStack.prototype.getCurrent=function(){return this._stack[this._stack.length-1]};WYMeditor.StateStack.prototype.enter=function(a){this._stack.push(a)};WYMeditor.StateStack.prototype.leave=function(){if(this._stack.length==1){return false}this._stack.pop();return true};WYMeditor.LEXER_ENTER=1;WYMeditor.LEXER_MATCHED=2;WYMeditor.LEXER_UNMATCHED=3;WYMeditor.LEXER_EXIT=4;WYMeditor.LEXER_SPECIAL=5;WYMeditor.Lexer=function(c,b,a){b=b||"accept";this._case=a||false;this._regexes={};this._parser=c;this._mode=new WYMeditor.StateStack(b);this._mode_handlers={};this._mode_handlers[b]=b;return this};WYMeditor.Lexer.prototype.addPattern=function(a,b){var b=b||"accept";if(typeof this._regexes[b]=="undefined"){this._regexes[b]=new WYMeditor.ParallelRegex(this._case)}this._regexes[b].addPattern(a);if(typeof this._mode_handlers[b]=="undefined"){this._mode_handlers[b]=b}};WYMeditor.Lexer.prototype.addEntryPattern=function(b,c,a){if(typeof this._regexes[c]=="undefined"){this._regexes[c]=new WYMeditor.ParallelRegex(this._case)}this._regexes[c].addPattern(b,a);if(typeof this._mode_handlers[a]=="undefined"){this._mode_handlers[a]=a}};WYMeditor.Lexer.prototype.addExitPattern=function(a,b){if(typeof this._regexes[b]=="undefined"){this._regexes[b]=new WYMeditor.ParallelRegex(this._case)}this._regexes[b].addPattern(a,"__exit");if(typeof this._mode_handlers[b]=="undefined"){this._mode_handlers[b]=b}};WYMeditor.Lexer.prototype.addSpecialPattern=function(b,c,a){if(typeof this._regexes[c]=="undefined"){this._regexes[c]=new WYMeditor.ParallelRegex(this._case)}this._regexes[c].addPattern(b,"_"+a);if(typeof this._mode_handlers[a]=="undefined"){this._mode_handlers[a]=a}};WYMeditor.Lexer.prototype.mapHandler=function(b,a){this._mode_handlers[b]=a};WYMeditor.Lexer.prototype.parse=function(d){if(typeof this._parser=="undefined"){return false}var e=d.length;var c;while(typeof(c=this._reduce(d))=="object"){var d=c[0];var b=c[1];var a=c[2];var f=c[3];if(!this._dispatchTokens(b,a,f)){return false}if(d==""){return true}if(d.length==e){return false}e=d.length}if(!c){return false}return this._invokeParser(d,WYMeditor.LEXER_UNMATCHED)};WYMeditor.Lexer.prototype._dispatchTokens=function(b,a,c){c=c||false;if(!this._invokeParser(b,WYMeditor.LEXER_UNMATCHED)){return false}if(typeof c=="boolean"){return this._invokeParser(a,WYMeditor.LEXER_MATCHED)}if(this._isModeEnd(c)){if(!this._invokeParser(a,WYMeditor.LEXER_EXIT)){return false}return this._mode.leave()}if(this._isSpecialMode(c)){this._mode.enter(this._decodeSpecial(c));if(!this._invokeParser(a,WYMeditor.LEXER_SPECIAL)){return false}return this._mode.leave()}this._mode.enter(c);return this._invokeParser(a,WYMeditor.LEXER_ENTER)};WYMeditor.Lexer.prototype._isModeEnd=function(a){return(a==="__exit")};WYMeditor.Lexer.prototype._isSpecialMode=function(a){return(a.substring(0,1)=="_")};WYMeditor.Lexer.prototype._decodeSpecial=function(a){return a.substring(1)};WYMeditor.Lexer.prototype._invokeParser=function(content,is_match){if(!/ +/.test(content)&&((content==="")||(content==false))){return true}var current=this._mode.getCurrent();var handler=this._mode_handlers[current];var result;eval("result = this._parser."+handler+"(content, is_match);");return result};WYMeditor.Lexer.prototype._reduce=function(c){var a=this._regexes[this._mode.getCurrent()].match(c);var b=a[1];var e=a[0];if(e){var f=c.indexOf(b);var d=c.substr(0,f);c=c.substring(f+b.length);return[c,d,b,e]}return true};WYMeditor.XhtmlLexer=function(a){jQuery.extend(this,new WYMeditor.Lexer(a,"Text"));this.mapHandler("Text","Text");this.addTokens();this.init();return this};WYMeditor.XhtmlLexer.prototype.init=function(){};WYMeditor.XhtmlLexer.prototype.addTokens=function(){this.addCommentTokens("Text");this.addScriptTokens("Text");this.addCssTokens("Text");this.addTagTokens("Text")};WYMeditor.XhtmlLexer.prototype.addCommentTokens=function(a){this.addEntryPattern("","Comment")};WYMeditor.XhtmlLexer.prototype.addScriptTokens=function(a){this.addEntryPattern("<script",a,"Script");this.addExitPattern("<\/script>","Script")};WYMeditor.XhtmlLexer.prototype.addCssTokens=function(a){this.addEntryPattern("<style",a,"Css");this.addExitPattern("</style>","Css")};WYMeditor.XhtmlLexer.prototype.addTagTokens=function(a){this.addSpecialPattern("<\\s*[a-z0-9:-]+\\s*>",a,"OpeningTag");this.addEntryPattern("<[a-z0-9:-]+[\\/ \\>]+",a,"OpeningTag");this.addInTagDeclarationTokens("OpeningTag");this.addSpecialPattern("</\\s*[a-z0-9:-]+\\s*>",a,"ClosingTag")};WYMeditor.XhtmlLexer.prototype.addInTagDeclarationTokens=function(a){this.addSpecialPattern("\\s+",a,"Ignore");this.addAttributeTokens(a);this.addExitPattern("/>",a);this.addExitPattern(">",a)};WYMeditor.XhtmlLexer.prototype.addAttributeTokens=function(a){this.addSpecialPattern("\\s*[a-z-_0-9]*:?[a-z-_0-9]+\\s*(?==)\\s*",a,"TagAttributes");this.addEntryPattern('=\\s*"',a,"DoubleQuotedAttribute");this.addPattern('\\\\"',"DoubleQuotedAttribute");this.addExitPattern('"',"DoubleQuotedAttribute");this.addEntryPattern("=\\s*'",a,"SingleQuotedAttribute");this.addPattern("\\\\'","SingleQuotedAttribute");this.addExitPattern("'","SingleQuotedAttribute");this.addSpecialPattern("=\\s*[^>\\s]*",a,"UnquotedAttribute")};WYMeditor.XhtmlParser=function(a,b){var b=b||"Text";this._Lexer=new WYMeditor.XhtmlLexer(this);this._Listener=a;this._mode=b;this._matches=[];this._last_match="";this._current_match="";return this};WYMeditor.XhtmlParser.prototype.parse=function(a){this._Lexer.parse(this.beforeParsing(a));return this.afterParsing(this._Listener.getResult())};WYMeditor.XhtmlParser.prototype.beforeParsing=function(a){if(a.match(/class="MsoNormal"/)||a.match(/ns = "urn:schemas-microsoft-com/)){this._Listener.avoidStylingTagsAndAttributes()}return this._Listener.beforeParsing(a)};WYMeditor.XhtmlParser.prototype.afterParsing=function(a){if(this._Listener._avoiding_tags_implicitly){this._Listener.allowStylingTagsAndAttributes()}return this._Listener.afterParsing(a)};WYMeditor.XhtmlParser.prototype.Ignore=function(a,b){return true};WYMeditor.XhtmlParser.prototype.Text=function(a){this._Listener.addContent(a);return true};WYMeditor.XhtmlParser.prototype.Comment=function(b,a){return this._addNonTagBlock(b,a,"addComment")};WYMeditor.XhtmlParser.prototype.Script=function(b,a){return this._addNonTagBlock(b,a,"addScript")};WYMeditor.XhtmlParser.prototype.Css=function(b,a){return this._addNonTagBlock(b,a,"addCss")};WYMeditor.XhtmlParser.prototype._addNonTagBlock=function(a,c,b){switch(c){case WYMeditor.LEXER_ENTER:this._non_tag=a;break;case WYMeditor.LEXER_UNMATCHED:this._non_tag+=a;break;case WYMeditor.LEXER_EXIT:switch(b){case"addComment":this._Listener.addComment(this._non_tag+a);break;case"addScript":this._Listener.addScript(this._non_tag+a);break;case"addCss":this._Listener.addCss(this._non_tag+a);break}}return true};WYMeditor.XhtmlParser.prototype.OpeningTag=function(a,b){switch(b){case WYMeditor.LEXER_ENTER:this._tag=this.normalizeTag(a);this._tag_attributes={};break;case WYMeditor.LEXER_SPECIAL:this._callOpenTagListener(this.normalizeTag(a));break;case WYMeditor.LEXER_EXIT:this._callOpenTagListener(this._tag,this._tag_attributes)}return true};WYMeditor.XhtmlParser.prototype.ClosingTag=function(a,b){this._callCloseTagListener(this.normalizeTag(a));return true};WYMeditor.XhtmlParser.prototype._callOpenTagListener=function(a,b){var b=b||{};this.autoCloseUnclosedBeforeNewOpening(a);if(this._Listener.isBlockTag(a)){this._Listener._tag_stack.push(a);this._Listener.fixNestingBeforeOpeningBlockTag(a,b);this._Listener.openBlockTag(a,b);this._increaseOpenTagCounter(a)}else{if(this._Listener.isInlineTag(a)){this._Listener.inlineTag(a,b)}else{this._Listener.openUnknownTag(a,b);this._increaseOpenTagCounter(a)}}this._Listener.last_tag=a;this._Listener.last_tag_opened=true;this._Listener.last_tag_attributes=b};WYMeditor.XhtmlParser.prototype._callCloseTagListener=function(a){if(this._decreaseOpenTagCounter(a)){this.autoCloseUnclosedBeforeTagClosing(a);if(this._Listener.isBlockTag(a)){var b=this._Listener._tag_stack.pop();if(b==false){return}else{if(b!=a){a=b}}this._Listener.closeBlockTag(a)}else{this._Listener.closeUnknownTag(a)}}else{this._Listener.closeUnopenedTag(a)}this._Listener.last_tag=a;this._Listener.last_tag_opened=false};WYMeditor.XhtmlParser.prototype._increaseOpenTagCounter=function(a){this._Listener._open_tags[a]=this._Listener._open_tags[a]||0;this._Listener._open_tags[a]++};WYMeditor.XhtmlParser.prototype._decreaseOpenTagCounter=function(a){if(this._Listener._open_tags[a]){this._Listener._open_tags[a]--;if(this._Listener._open_tags[a]==0){this._Listener._open_tags[a]=undefined}return true}return false};WYMeditor.XhtmlParser.prototype.autoCloseUnclosedBeforeNewOpening=function(a){this._autoCloseUnclosed(a,false)};WYMeditor.XhtmlParser.prototype.autoCloseUnclosedBeforeTagClosing=function(a){this._autoCloseUnclosed(a,true)};WYMeditor.XhtmlParser.prototype._autoCloseUnclosed=function(c,d){var d=d||false;if(this._Listener._open_tags){for(var a in this._Listener._open_tags){var b=this._Listener._open_tags[a];if(b>0&&this._Listener.shouldCloseTagAutomatically(a,c,d)){this._callCloseTagListener(a,true)}}}};WYMeditor.XhtmlParser.prototype.getTagReplacements=function(){return this._Listener.getTagReplacements()};WYMeditor.XhtmlParser.prototype.normalizeTag=function(a){a=a.replace(/^([\s<\/>]*)|([\s<\/>]*)$/gm,"").toLowerCase();var b=this._Listener.getTagReplacements();if(b[a]){return b[a]}return a};WYMeditor.XhtmlParser.prototype.TagAttributes=function(a,b){if(WYMeditor.LEXER_SPECIAL==b){this._current_attribute=a}return true};WYMeditor.XhtmlParser.prototype.DoubleQuotedAttribute=function(a,b){if(WYMeditor.LEXER_UNMATCHED==b){this._tag_attributes[this._current_attribute]=a}return true};WYMeditor.XhtmlParser.prototype.SingleQuotedAttribute=function(a,b){if(WYMeditor.LEXER_UNMATCHED==b){this._tag_attributes[this._current_attribute]=a}return true};WYMeditor.XhtmlParser.prototype.UnquotedAttribute=function(a,b){this._tag_attributes[this._current_attribute]=a.replace(/^=/,"");return true};WYMeditor.XhtmlSaxListener=function(){this.output="";this.helper=new WYMeditor.XmlHelper();this._open_tags={};this.validator=WYMeditor.XhtmlValidator;this._tag_stack=[];this.avoided_tags=[];this.entities={" ":" ","¡":"¡","¢":"¢","£":"£","¤":"¤","¥":"¥","¦":"¦","§":"§","¨":"¨","©":"©","ª":"ª","«":"«","¬":"¬","":"","®":"®","¯":"¯","°":"°","±":"±","²":"²","³":"³","´":"´","µ":"µ","¶":"¶","·":"·","¸":"¸","¹":"¹","º":"º","»":"»","¼":"¼","½":"½","¾":"¾","¿":"¿","À":"À","Á":"Á","Â":"Â","Ã":"Ã","Ä":"Ä","Å":"Å","Æ":"Æ","Ç":"Ç","È":"È","É":"É","Ê":"Ê","Ë":"Ë","Ì":"Ì","Í":"Í","Î":"Î","Ï":"Ï","Ð":"Ð","Ñ":"Ñ","Ò":"Ò","Ó":"Ó","Ô":"Ô","Õ":"Õ","Ö":"Ö","×":"×","Ø":"Ø","Ù":"Ù","Ú":"Ú","Û":"Û","Ü":"Ü","Ý":"Ý","Þ":"Þ","ß":"ß","à":"à","á":"á","â":"â","ã":"ã","ä":"ä","å":"å","æ":"æ","ç":"ç","è":"è","é":"é","ê":"ê","ë":"ë","ì":"ì","í":"í","î":"î","ï":"ï","ð":"ð","ñ":"ñ","ò":"ò","ó":"ó","ô":"ô","õ":"õ","ö":"ö","÷":"÷","ø":"ø","ù":"ù","ú":"ú","û":"û","ü":"ü","ý":"ý","þ":"þ","ÿ":"ÿ","&OElig;":"Œ","&oelig;":"œ","&Scaron;":"Š","&scaron;":"š","&Yuml;":"Ÿ","&fnof;":"ƒ","&circ;":"ˆ","&tilde;":"˜","Α":"Α","Β":"Β","Γ":"Γ","Δ":"Δ","Ε":"Ε","Ζ":"Ζ","Η":"Η","Θ":"Θ","Ι":"Ι","Κ":"Κ","Λ":"Λ","Μ":"Μ","Ν":"Ν","Ξ":"Ξ","Ο":"Ο","Π":"Π","Ρ":"Ρ","Σ":"Σ","Τ":"Τ","Υ":"Υ","Φ":"Φ","Χ":"Χ","Ψ":"Ψ","Ω":"Ω","α":"α","β":"β","γ":"γ","δ":"δ","ε":"ε","ζ":"ζ","η":"η","θ":"θ","ι":"ι","κ":"κ","λ":"λ","μ":"μ","ν":"ν","ξ":"ξ","ο":"ο","π":"π","ρ":"ρ","&sigmaf;":"ς","σ":"σ","τ":"τ","υ":"υ","φ":"φ","χ":"χ","ψ":"ψ","ω":"ω","&thetasym;":"ϑ","&upsih;":"ϒ","ϖ":"ϖ","&ensp;":" ","&emsp;":" "," ":" ","&zwnj;":"‌","&zwj;":"‍","&lrm;":"‎","&rlm;":"‏","–":"–","—":"—","‘":"‘","’":"’","&sbquo;":"‚","“":"“","”":"”","&bdquo;":"„","&dagger;":"†","&Dagger;":"‡","•":"•","…":"…","&permil;":"‰","′":"′","″":"″","&lsaquo;":"‹","&rsaquo;":"›","&oline;":"‾","&frasl;":"⁄","€":"€","&image;":"ℑ","&weierp;":"℘","&real;":"ℜ","™":"™","&alefsym;":"ℵ","←":"←","↑":"↑","→":"→","↓":"↓","↔":"↔","&crarr;":"↵","⇐":"⇐","&uArr;":"⇑","⇒":"⇒","&dArr;":"⇓","⇔":"⇔","∀":"∀","∂":"∂","∃":"∃","∅":"∅","∇":"∇","∈":"∈","∉":"∉","&ni;":"∋","∏":"∏","∑":"∑","−":"−","&lowast;":"∗","√":"√","&prop;":"∝","∞":"∞","&ang;":"∠","&and;":"∧","&or;":"∨","∩":"∩","∪":"∪","∫":"∫","&there4;":"∴","&sim;":"∼","&cong;":"≅","≈":"≈","≠":"≠","&equiv;":"≡","≤":"≤","≥":"≥","⊂":"⊂","⊃":"⊃","&nsub;":"⊄","&sube;":"⊆","&supe;":"⊇","&oplus;":"⊕","&otimes;":"⊗","&perp;":"⊥","⋅":"⋅","&lceil;":"⌈","&rceil;":"⌉","&lfloor;":"⌊","&rfloor;":"⌋","&lang;":"〈","&rang;":"〉","&loz;":"◊","&spades;":"♠","&clubs;":"♣","&hearts;":"♥","&diams;":"♦"};this.block_tags=["a","abbr","acronym","address","area","b","base","bdo","big","blockquote","body","button","caption","cite","code","col","colgroup","dd","del","div","dfn","dl","dt","em","fieldset","form","head","h1","h2","h3","h4","h5","h6","html","i","ins","kbd","label","legend","li","map","noscript","object","ol","optgroup","option","p","param","pre","q","samp","script","select","small","span","strong","style","sub","sup","table","tbody","td","textarea","tfoot","th","thead","title","tr","tt","ul","var","extends"];this.inline_tags=["br","hr","img","input"];return this};WYMeditor.XhtmlSaxListener.prototype.shouldCloseTagAutomatically=function(a,c,b){var b=b||false;if(a=="td"){if((b&&c=="tr")||(!b&&c=="td")){return true}}if(a=="option"){if((b&&c=="select")||(!b&&c=="option")){return true}}return false};WYMeditor.XhtmlSaxListener.prototype.beforeParsing=function(a){this.output="";return a};WYMeditor.XhtmlSaxListener.prototype.afterParsing=function(a){a=this.replaceNamedEntities(a);a=this.joinRepeatedEntities(a);a=this.removeEmptyTags(a);a=this.removeBrInPre(a);return a};WYMeditor.XhtmlSaxListener.prototype.replaceNamedEntities=function(b){for(var a in this.entities){b=b.replace(new RegExp(a,"g"),this.entities[a])}return b};WYMeditor.XhtmlSaxListener.prototype.joinRepeatedEntities=function(b){var a="em|strong|sub|sup|acronym|pre|del|address";return b.replace(new RegExp("</("+a+")><\\1>",""),"").replace(new RegExp("(s*<("+a+")>s*){2}(.*)(s*</\\2>s*){2}",""),"<$2>$3<$2>")};WYMeditor.XhtmlSaxListener.prototype.removeEmptyTags=function(a){return a.replace(new RegExp("<("+this.block_tags.join("|").replace(/\|td/,"").replace(/\|th/,"")+")>(<br />| | |\\s)*</\\1>","g"),"")};WYMeditor.XhtmlSaxListener.prototype.removeBrInPre=function(c){var b=c.match(new RegExp("<pre[^>]*>(.*?)</pre>","gmi"));if(b){for(var a=0;a<b.length;a++){c=c.replace(b[a],b[a].replace(new RegExp("<br />","g"),String.fromCharCode(13,10)))}}return c};WYMeditor.XhtmlSaxListener.prototype.getResult=function(){return this.output};WYMeditor.XhtmlSaxListener.prototype.getTagReplacements=function(){return{b:"strong",i:"em"}};WYMeditor.XhtmlSaxListener.prototype.addContent=function(a){this.output+=a};WYMeditor.XhtmlSaxListener.prototype.addComment=function(a){if(this.remove_comments){this.output+=a}};WYMeditor.XhtmlSaxListener.prototype.addScript=function(a){if(!this.remove_scripts){this.output+=a}};WYMeditor.XhtmlSaxListener.prototype.addCss=function(a){if(!this.remove_embeded_styles){this.output+=a}};WYMeditor.XhtmlSaxListener.prototype.openBlockTag=function(a,b){this.output+=this.helper.tag(a,this.validator.getValidTagAttributes(a,b),true)};WYMeditor.XhtmlSaxListener.prototype.inlineTag=function(a,b){this.output+=this.helper.tag(a,this.validator.getValidTagAttributes(a,b))};WYMeditor.XhtmlSaxListener.prototype.openUnknownTag=function(a,b){};WYMeditor.XhtmlSaxListener.prototype.closeBlockTag=function(a){this.output=this.output.replace(/<br \/>$/,"")+this._getClosingTagContent("before",a)+"</"+a+">"+this._getClosingTagContent("after",a)};WYMeditor.XhtmlSaxListener.prototype.closeUnknownTag=function(a){};WYMeditor.XhtmlSaxListener.prototype.closeUnopenedTag=function(a){this.output+="</"+a+">"};WYMeditor.XhtmlSaxListener.prototype.avoidStylingTagsAndAttributes=function(){this.avoided_tags=["div","span"];this.validator.skiped_attributes=["style"];this.validator.skiped_attribute_values=["MsoNormal","main1"];this._avoiding_tags_implicitly=true};WYMeditor.XhtmlSaxListener.prototype.allowStylingTagsAndAttributes=function(){this.avoided_tags=[];this.validator.skiped_attributes=[];this.validator.skiped_attribute_values=[];this._avoiding_tags_implicitly=false};WYMeditor.XhtmlSaxListener.prototype.isBlockTag=function(a){return !WYMeditor.Helper.contains(this.avoided_tags,a)&&WYMeditor.Helper.contains(this.block_tags,a)};WYMeditor.XhtmlSaxListener.prototype.isInlineTag=function(a){return !WYMeditor.Helper.contains(this.avoided_tags,a)&&WYMeditor.Helper.contains(this.inline_tags,a)};WYMeditor.XhtmlSaxListener.prototype.insertContentAfterClosingTag=function(a,b){this._insertContentWhenClosingTag("after",a,b)};WYMeditor.XhtmlSaxListener.prototype.insertContentBeforeClosingTag=function(a,b){this._insertContentWhenClosingTag("before",a,b)};WYMeditor.XhtmlSaxListener.prototype.fixNestingBeforeOpeningBlockTag=function(a,b){if(a!="li"&&(a=="ul"||a=="ol")&&this.last_tag&&!this.last_tag_opened&&this.last_tag=="li"){this.output=this.output.replace(/<\/li>$/,"");this.insertContentAfterClosingTag(a,"</li>")}};WYMeditor.XhtmlSaxListener.prototype._insertContentWhenClosingTag=function(b,a,c){if(!this["_insert_"+b+"_closing"]){this["_insert_"+b+"_closing"]=[]}if(!this["_insert_"+b+"_closing"][a]){this["_insert_"+b+"_closing"][a]=[]}this["_insert_"+b+"_closing"][a].push(c)};WYMeditor.XhtmlSaxListener.prototype._getClosingTagContent=function(b,a){if(this["_insert_"+b+"_closing"]&&this["_insert_"+b+"_closing"][a]&&this["_insert_"+b+"_closing"][a].length>0){return this["_insert_"+b+"_closing"][a].pop()}return""};WYMeditor.WymCssLexer=function(b,a){var a=(typeof a=="undefined"?true:a);jQuery.extend(this,new WYMeditor.Lexer(b,(a?"Ignore":"WymCss")));this.mapHandler("WymCss","Ignore");if(a==true){this.addEntryPattern("/\\\x2a[<\\s]*WYMeditor[>\\s]*\\\x2a/","Ignore","WymCss");this.addExitPattern("/\\\x2a[</\\s]*WYMeditor[>\\s]*\\\x2a/","WymCss")}this.addSpecialPattern("[\\sa-z1-6]*\\\x2e[a-z-_0-9]+","WymCss","WymCssStyleDeclaration");this.addEntryPattern("/\\\x2a","WymCss","WymCssComment");this.addExitPattern("\\\x2a/","WymCssComment");this.addEntryPattern("\x7b","WymCss","WymCssStyle");this.addExitPattern("\x7d","WymCssStyle");this.addEntryPattern("/\\\x2a","WymCssStyle","WymCssFeedbackStyle");this.addExitPattern("\\\x2a/","WymCssFeedbackStyle");return this};WYMeditor.WymCssParser=function(){this._in_style=false;this._has_title=false;this.only_wym_blocks=true;this.css_settings={classesItems:[],editorStyles:[],dialogStyles:[]};return this};WYMeditor.WymCssParser.prototype.parse=function(a,b){var b=(typeof b=="undefined"?this.only_wym_blocks:b);this._Lexer=new WYMeditor.WymCssLexer(this,b);this._Lexer.parse(a)};WYMeditor.WymCssParser.prototype.Ignore=function(a,b){return true};WYMeditor.WymCssParser.prototype.WymCssComment=function(b,a){if(b.match(/end[a-z0-9\s]*wym[a-z0-9\s]*/mi)){return false}if(a==WYMeditor.LEXER_UNMATCHED){if(!this._in_style){this._has_title=true;this._current_item={title:WYMeditor.Helper.trim(b)}}else{if(this._current_item[this._current_element]){if(!this._current_item[this._current_element].expressions){this._current_item[this._current_element].expressions=[b]}else{this._current_item[this._current_element].expressions.push(b)}}}this._in_style=true}return true};WYMeditor.WymCssParser.prototype.WymCssStyle=function(b,a){if(a==WYMeditor.LEXER_UNMATCHED){b=WYMeditor.Helper.trim(b);if(b!=""){this._current_item[this._current_element].style=b}}else{if(a==WYMeditor.LEXER_EXIT){this._in_style=false;this._has_title=false;this.addStyleSetting(this._current_item)}}return true};WYMeditor.WymCssParser.prototype.WymCssFeedbackStyle=function(b,a){if(a==WYMeditor.LEXER_UNMATCHED){this._current_item[this._current_element].feedback_style=b.replace(/^([\s\/\*]*)|([\s\/\*]*)$/gm,"")}return true};WYMeditor.WymCssParser.prototype.WymCssStyleDeclaration=function(b){b=b.replace(/^([\s\.]*)|([\s\.*]*)$/gm,"");var a="";if(b.indexOf(".")>0){var c=b.split(".");this._current_element=c[1];var a=c[0]}else{this._current_element=b}if(!this._has_title){this._current_item={title:(!a?"":a.toUpperCase()+": ")+this._current_element};this._has_title=true}if(!this._current_item[this._current_element]){this._current_item[this._current_element]={name:this._current_element}}if(a){if(!this._current_item[this._current_element].tags){this._current_item[this._current_element].tags=[a]}else{this._current_item[this._current_element].tags.push(a)}}return true};WYMeditor.WymCssParser.prototype.addStyleSetting=function(a){for(var b in a){var c=a[b];if(typeof c=="object"&&b!="title"){this.css_settings.classesItems.push({name:WYMeditor.Helper.trim(c.name),title:a.title,expr:WYMeditor.Helper.trim((c.expressions||c.tags).join(", "))});if(c.feedback_style){this.css_settings.editorStyles.push({name:"."+WYMeditor.Helper.trim(c.name),css:c.feedback_style})}if(c.style){this.css_settings.dialogStyles.push({name:"."+WYMeditor.Helper.trim(c.name),css:c.style})}}}};jQuery.fn.isPhantomNode=function(){if(this[0].nodeType==3){return !(/[^\t\n\r ]/.test(this[0].data))}return false};WYMeditor.isPhantomNode=function(a){if(a.nodeType==3){return !(/[^\t\n\r ]/.test(a.data))}return false};WYMeditor.isPhantomString=function(a){return !(/[^\t\n\r ]/.test(a))};jQuery.fn.parentsOrSelf=function(b){var a=this;if(a[0].nodeType==3){a=a.parents().slice(0,1)}if(a.filter(b).size()==1){return a}else{return a.parents(b).slice(0,1)}};WYMeditor.Helper={replaceAll:function(d,a,c){var b=new RegExp(a,"g");return(d.replace(b,c))},insertAt:function(b,a,c){return(b.substr(0,c)+a+b.substring(c))},trim:function(a){return a.replace(/^(\s*)|(\s*)$/gm,"")},contains:function(a,c){for(var b=0;b<a.length;b++){if(a[b]===c){return true}}return false},indexOf:function(a,d){var b=-1;for(var c=0;c<a.length;c++){if(a[c]==d){b=c;break}}return(b)},findByName:function(a,b){for(var c=0;c<a.length;c++){var d=a[c];if(d.name==b){return(d)}}return(null)}};WYMeditor.WymClassExplorer=function(a){this._wym=a;this._class="className";this._newLine="\r\n"};WYMeditor.WymClassExplorer.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentWindow.document;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);jQuery(this._doc.body).html(this._wym._html);var wym=this;this._doc.body.onfocus=function(){wym._doc.designMode="on";wym._doc=iframe.contentWindow.document};this._doc.onbeforedeactivate=function(){wym.saveCaret()};this._doc.onkeyup=function(){wym.saveCaret();wym.keyup()};this._doc.onclick=function(){wym.saveCaret()};this._doc.body.onbeforepaste=function(){wym._iframe.contentWindow.event.returnValue=false};this._doc.body.onpaste=function(){wym._iframe.contentWindow.event.returnValue=false;wym.paste(window.clipboardData.getData("Text"))};if(this._initialized){if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()}this._initialized=true;this._doc.designMode="on";try{this._doc=iframe.contentWindow.document}catch(e){}};WYMeditor.WymClassExplorer.prototype._exec=function(c,d){switch(c){case WYMeditor.INDENT:case WYMeditor.OUTDENT:var a=this.findUp(this.container(),WYMeditor.LI);if(a){var b=a.parentNode.parentNode;if(a.parentNode.childNodes.length>1||b.tagName.toLowerCase()==WYMeditor.OL||b.tagName.toLowerCase()==WYMeditor.UL){this._doc.execCommand(c)}}break;default:if(d){this._doc.execCommand(c,false,d)}else{this._doc.execCommand(c)}break}this.listen()};WYMeditor.WymClassExplorer.prototype.selected=function(){var a=this._iframe.contentWindow.document.caretPos;if(a!=null){if(a.parentElement!=undefined){return(a.parentElement())}}};WYMeditor.WymClassExplorer.prototype.saveCaret=function(){this._doc.caretPos=this._doc.selection.createRange()};WYMeditor.WymClassExplorer.prototype.addCssRule=function(a,b){a.addRule(b.name,b.css)};WYMeditor.WymClassExplorer.prototype.insert=function(b){var a=this._doc.selection.createRange();if(jQuery(a.parentElement()).parents(this._options.iframeBodySelector).is("*")){try{a.pasteHTML(b)}catch(c){}}else{this.paste(b)}};WYMeditor.WymClassExplorer.prototype.wrap=function(d,b){var a=this._doc.selection.createRange();if(jQuery(a.parentElement()).parents(this._options.iframeBodySelector).is("*")){try{a.pasteHTML(d+a.text+b)}catch(c){}}};WYMeditor.WymClassExplorer.prototype.unwrap=function(){var a=this._doc.selection.createRange();if(jQuery(a.parentElement()).parents(this._options.iframeBodySelector).is("*")){try{var c=a.text;this._exec("Cut");a.pasteHTML(c)}catch(b){}}};WYMeditor.WymClassExplorer.prototype.keyup=function(){this._selected_image=null};WYMeditor.WymClassExplorer.prototype.setFocusToNode=function(b){var a=this._doc.selection.createRange();a.moveToElementText(b);a.collapse(false);a.move("character",-1);a.select();b.focus()};WYMeditor.WymClassMozilla=function(a){this._wym=a;this._class="class";this._newLine="\n"};WYMeditor.WymClassMozilla.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentDocument;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);this.html(this._wym._html);this.enableDesignMode();if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();jQuery(this._doc).bind("keydown",this.keydown);jQuery(this._doc).bind("keyup",this.keyup);jQuery(this._doc).bind("focus",this.enableDesignMode);if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()};WYMeditor.WymClassMozilla.prototype.html=function(a){if(typeof a==="string"){try{this._doc.designMode="off"}catch(b){}a=a.replace(/<em(\b[^>]*)>/gi,"<i$1>").replace(/<\/em>/gi,"</i>").replace(/<strong(\b[^>]*)>/gi,"<b$1>").replace(/<\/strong>/gi,"</b>");jQuery(this._doc.body).html(a);this.enableDesignMode()}else{return(jQuery(this._doc.body).html())}};WYMeditor.WymClassMozilla.prototype._exec=function(e,g){if(!this.selected()){return(false)}switch(e){case WYMeditor.INDENT:case WYMeditor.OUTDENT:var f=this.selected();var d=this._iframe.contentWindow.getSelection();var b=d.anchorNode;if(b.nodeName=="#text"){b=b.parentNode}f=this.findUp(f,WYMeditor.BLOCKS);b=this.findUp(b,WYMeditor.BLOCKS);if(f&&f==b&&f.tagName.toLowerCase()==WYMeditor.LI){var c=f.parentNode.parentNode;if(f.parentNode.childNodes.length>1||c.tagName.toLowerCase()==WYMeditor.OL||c.tagName.toLowerCase()==WYMeditor.UL){this._doc.execCommand(e,"",null)}}break;default:if(g){this._doc.execCommand(e,"",g)}else{this._doc.execCommand(e,"",null)}}var a=this.selected();if(a.tagName.toLowerCase()==WYMeditor.BODY){this._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}this.listen()};WYMeditor.WymClassMozilla.prototype.selected=function(){var b=this._iframe.contentWindow.getSelection();var a=b.focusNode;if(a){if(a.nodeName=="#text"){return(a.parentNode)}else{return(a)}}else{return(null)}};WYMeditor.WymClassMozilla.prototype.addCssRule=function(a,b){a.insertRule(b.name+" {"+b.css+"}",a.cssRules.length)};WYMeditor.WymClassMozilla.prototype.keydown=function(b){var c=WYMeditor.INSTANCES[this.title];var a=null;if(b.ctrlKey){if(b.keyCode==66){c._exec(WYMeditor.BOLD);return false}if(b.keyCode==73){c._exec(WYMeditor.ITALIC);return false}}else{if(b.keyCode==13){if(!b.shiftKey){a=c.selected();if(a&&a.tagName.toLowerCase()==WYMeditor.PRE){b.preventDefault();c.insert("<p></p>")}}}}};WYMeditor.WymClassMozilla.prototype.keyup=function(b){var d=WYMeditor.INSTANCES[this.title];d._selected_image=null;var a=null;if(b.keyCode==13&&!b.shiftKey){jQuery(d._doc.body).children(WYMeditor.BR).remove()}else{if(b.keyCode!=8&&b.keyCode!=17&&b.keyCode!=46&&b.keyCode!=224&&!b.metaKey&&!b.ctrlKey){a=d.selected();var c=a.tagName.toLowerCase();if(c=="strong"||c=="b"||c=="em"||c=="i"||c=="sub"||c=="sup"||c=="a"){c=a.parentNode.tagName.toLowerCase()}if(c==WYMeditor.BODY){d._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}}}};WYMeditor.WymClassMozilla.prototype.enableDesignMode=function(){if(this.designMode=="off"){try{this.designMode="on";this.execCommand("styleWithCSS","",false)}catch(a){}}};WYMeditor.WymClassMozilla.prototype.setFocusToNode=function(c){var a=document.createRange();a.selectNode(c);var b=this._iframe.contentWindow.getSelection();b.addRange(a);b.collapse(c,c.childNodes.length);this._iframe.contentWindow.focus()};WYMeditor.WymClassMozilla.prototype.openBlockTag=function(a,c){var c=this.validator.getValidTagAttributes(a,c);if(a=="span"&&c.style){var b=this.getTagForStyle(c.style);if(b){this._tag_stack.pop();var a=b;this._tag_stack.push(b);c.style=""}else{return}}this.output+=this.helper.tag(a,c,true)};WYMeditor.WymClassMozilla.prototype.getTagForStyle=function(a){if(/bold/.test(a)){return"strong"}if(/italic/.test(a)){return"em"}if(/sub/.test(a)){return"sub"}if(/sub/.test(a)){return"super"}return false};WYMeditor.WymClassOpera=function(a){this._wym=a;this._class="class";this._newLine="\r\n"};WYMeditor.WymClassOpera.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentWindow.document;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);this._doc.designMode="on";this.html(this._wym._html);if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();jQuery(this._doc).bind("keydown",this.keydown);jQuery(this._doc).bind("keyup",this.keyup);if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()};WYMeditor.WymClassOpera.prototype._exec=function(a,b){if(b){this._doc.execCommand(a,false,b)}else{this._doc.execCommand(a)}this.listen()};WYMeditor.WymClassOpera.prototype.selected=function(){var b=this._iframe.contentWindow.getSelection();var a=b.focusNode;if(a){if(a.nodeName=="#text"){return(a.parentNode)}else{return(a)}}else{return(null)}};WYMeditor.WymClassOpera.prototype.addCssRule=function(a,b){a.insertRule(b.name+" {"+b.css+"}",a.cssRules.length)};WYMeditor.WymClassOpera.prototype.keydown=function(a){var c=WYMeditor.INSTANCES[this.title];var b=c._iframe.contentWindow.getSelection();startNode=b.getRangeAt(0).startContainer;if(!jQuery(startNode).parentsOrSelf(WYMeditor.MAIN_CONTAINERS.join(","))[0]&&!jQuery(startNode).parentsOrSelf("li")&&a.keyCode!=WYMeditor.KEY.ENTER&&a.keyCode!=WYMeditor.KEY.LEFT&&a.keyCode!=WYMeditor.KEY.UP&&a.keyCode!=WYMeditor.KEY.RIGHT&&a.keyCode!=WYMeditor.KEY.DOWN&&a.keyCode!=WYMeditor.KEY.BACKSPACE&&a.keyCode!=WYMeditor.KEY.DELETE){c._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}};WYMeditor.WymClassOpera.prototype.keyup=function(a){var b=WYMeditor.INSTANCES[this.title];b._selected_image=null};WYMeditor.WymClassOpera.prototype.setFocusToNode=function(a){};WYMeditor.WymClassSafari=function(a){this._wym=a;this._class="class";this._newLine="\n"};WYMeditor.WymClassSafari.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentDocument;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);this._doc.designMode="on";this.html(this._wym._html);if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();jQuery(this._doc).bind("keydown",this.keydown);jQuery(this._doc).bind("keyup",this.keyup);if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()};WYMeditor.WymClassSafari.prototype._exec=function(e,g){if(!this.selected()){return(false)}switch(e){case WYMeditor.INDENT:case WYMeditor.OUTDENT:var f=this.selected();var d=this._iframe.contentWindow.getSelection();var b=d.anchorNode;if(b.nodeName=="#text"){b=b.parentNode}f=this.findUp(f,WYMeditor.BLOCKS);b=this.findUp(b,WYMeditor.BLOCKS);if(f&&f==b&&f.tagName.toLowerCase()==WYMeditor.LI){var c=f.parentNode.parentNode;if(f.parentNode.childNodes.length>1||c.tagName.toLowerCase()==WYMeditor.OL||c.tagName.toLowerCase()==WYMeditor.UL){this._doc.execCommand(e,"",null)}}break;case WYMeditor.INSERT_ORDEREDLIST:case WYMeditor.INSERT_UNORDEREDLIST:this._doc.execCommand(e,"",null);var f=this.selected();var a=this.findUp(f,WYMeditor.MAIN_CONTAINERS);if(a){jQuery(a).replaceWith(jQuery(a).html())}break;default:if(g){this._doc.execCommand(e,"",g)}else{this._doc.execCommand(e,"",null)}}var a=this.selected();if(a&&a.tagName.toLowerCase()==WYMeditor.BODY){this._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}this.listen()};WYMeditor.WymClassSafari.prototype.selected=function(){var b=this._iframe.contentWindow.getSelection();var a=b.focusNode;if(a){if(a.nodeName=="#text"){return(a.parentNode)}else{return(a)}}else{return(null)}};WYMeditor.WymClassSafari.prototype.addCssRule=function(a,b){a.insertRule(b.name+" {"+b.css+"}",a.cssRules.length)};WYMeditor.WymClassSafari.prototype.keydown=function(a){var b=WYMeditor.INSTANCES[this.title];if(a.ctrlKey){if(a.keyCode==66){b._exec(WYMeditor.BOLD);return false}if(a.keyCode==73){b._exec(WYMeditor.ITALIC);return false}}};WYMeditor.WymClassSafari.prototype.keyup=function(b){var d=WYMeditor.INSTANCES[this.title];d._selected_image=null;var a=null;if(b.keyCode==13&&!b.shiftKey){jQuery(d._doc.body).children(WYMeditor.BR).remove();a=d.selected();if(a&&a.tagName.toLowerCase()==WYMeditor.PRE){d._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}}if(b.keyCode==13&&b.shiftKey){d._exec("InsertLineBreak")}if(b.keyCode!=8&&b.keyCode!=17&&b.keyCode!=46&&b.keyCode!=224&&!b.metaKey&&!b.ctrlKey){a=d.selected();var c=a.tagName.toLowerCase();if(c=="strong"||c=="b"||c=="em"||c=="i"||c=="sub"||c=="sup"||c=="a"||c=="span"){c=a.parentNode.tagName.toLowerCase()}if(c==WYMeditor.BODY||c==WYMeditor.DIV){d._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}}};WYMeditor.WymClassSafari.prototype.setFocusToNode=function(c){var a=this._iframe.contentDocument.createRange();a.selectNode(c);var b=this._iframe.contentWindow.getSelection();b.addRange(a);b.collapse(c,c.childNodes.length);this._iframe.contentWindow.focus()};WYMeditor.WymClassSafari.prototype.openBlockTag=function(a,c){var c=this.validator.getValidTagAttributes(a,c);if(a=="span"&&c.style){var b=this.getTagForStyle(c.style);if(b){this._tag_stack.pop();var a=b;this._tag_stack.push(b);c.style="";if(typeof c["class"]=="string"){c["class"]=c["class"].replace(/apple-style-span/gi,"")}}else{return}}this.output+=this.helper.tag(a,c,true)};WYMeditor.WymClassSafari.prototype.getTagForStyle=function(a){if(/bold/.test(a)){return"strong"}if(/italic/.test(a)){return"em"}if(/sub/.test(a)){return"sub"}if(/super/.test(a)){return"sup"}return false}; \ No newline at end of file +if(!WYMeditor){var WYMeditor={}}(function(){if(!window.console||!console.firebug){var b=["log","debug","info","warn","error","assert","dir","dirxml","group","groupEnd","time","timeEnd","count","trace","profile","profileEnd"];WYMeditor.console={};for(var a=0;a<b.length;++a){WYMeditor.console[b[a]]=function(){}}}else{WYMeditor.console=window.console}})();jQuery.extend(WYMeditor,{VERSION:"0.5-rc1",INSTANCES:[],STRINGS:[],SKINS:[],NAME:"name",INDEX:"{Wym_Index}",WYM_INDEX:"wym_index",BASE_PATH:"{Wym_Base_Path}",CSS_PATH:"{Wym_Css_Path}",WYM_PATH:"{Wym_Wym_Path}",SKINS_DEFAULT_PATH:"skins/",SKINS_DEFAULT_CSS:"skin.css",SKINS_DEFAULT_JS:"skin.js",LANG_DEFAULT_PATH:"lang/",IFRAME_BASE_PATH:"{Wym_Iframe_Base_Path}",IFRAME_DEFAULT:"iframe/default/",JQUERY_PATH:"{Wym_Jquery_Path}",DIRECTION:"{Wym_Direction}",LOGO:"{Wym_Logo}",TOOLS:"{Wym_Tools}",TOOLS_ITEMS:"{Wym_Tools_Items}",TOOL_NAME:"{Wym_Tool_Name}",TOOL_TITLE:"{Wym_Tool_Title}",TOOL_CLASS:"{Wym_Tool_Class}",CLASSES:"{Wym_Classes}",CLASSES_ITEMS:"{Wym_Classes_Items}",CLASS_NAME:"{Wym_Class_Name}",CLASS_TITLE:"{Wym_Class_Title}",CONTAINERS:"{Wym_Containers}",CONTAINERS_ITEMS:"{Wym_Containers_Items}",CONTAINER_NAME:"{Wym_Container_Name}",CONTAINER_TITLE:"{Wym_Containers_Title}",CONTAINER_CLASS:"{Wym_Container_Class}",HTML:"{Wym_Html}",IFRAME:"{Wym_Iframe}",STATUS:"{Wym_Status}",DIALOG_TITLE:"{Wym_Dialog_Title}",DIALOG_BODY:"{Wym_Dialog_Body}",STRING:"string",BODY:"body",DIV:"div",P:"p",H1:"h1",H2:"h2",H3:"h3",H4:"h4",H5:"h5",H6:"h6",PRE:"pre",BLOCKQUOTE:"blockquote",A:"a",BR:"br",IMG:"img",TABLE:"table",TD:"td",TH:"th",UL:"ul",OL:"ol",LI:"li",CLASS:"class",HREF:"href",SRC:"src",TITLE:"title",ALT:"alt",DIALOG_LINK:"Link",DIALOG_IMAGE:"Image",DIALOG_TABLE:"Table",DIALOG_PASTE:"Paste_From_Word",BOLD:"Bold",ITALIC:"Italic",CREATE_LINK:"CreateLink",INSERT_IMAGE:"InsertImage",INSERT_TABLE:"InsertTable",INSERT_HTML:"InsertHTML",PASTE:"Paste",INDENT:"Indent",OUTDENT:"Outdent",TOGGLE_HTML:"ToggleHtml",FORMAT_BLOCK:"FormatBlock",PREVIEW:"Preview",UNLINK:"Unlink",INSERT_UNORDEREDLIST:"InsertUnorderedList",INSERT_ORDEREDLIST:"InsertOrderedList",MAIN_CONTAINERS:new Array("p","h1","h2","h3","h4","h5","h6","pre","blockquote"),BLOCKS:new Array("address","blockquote","div","dl","fieldset","form","h1","h2","h3","h4","h5","h6","hr","noscript","ol","p","pre","table","ul","dd","dt","li","tbody","td","tfoot","th","thead","tr"),KEY:{BACKSPACE:8,ENTER:13,END:35,HOME:36,LEFT:37,UP:38,RIGHT:39,DOWN:40,CURSOR:new Array(37,38,39,40),DELETE:46},NODE:{ELEMENT:1,ATTRIBUTE:2,TEXT:3},editor:function(b,a){this._index=WYMeditor.INSTANCES.push(this)-1;this._element=b;this._options=a;this._html=jQuery(b).val();if(this._options.html){this._html=this._options.html}this._options.basePath=this._options.basePath||this.computeBasePath();this._options.skinPath=this._options.skinPath||this._options.basePath+WYMeditor.SKINS_DEFAULT_PATH+this._options.skin+"/";this._options.wymPath=this._options.wymPath||this.computeWymPath();this._options.langPath=this._options.langPath||this._options.basePath+WYMeditor.LANG_DEFAULT_PATH;this._options.iframeBasePath=this._options.iframeBasePath||this._options.basePath+WYMeditor.IFRAME_DEFAULT;this._options.jQueryPath=this._options.jQueryPath||this.computeJqueryPath();this.init()}});jQuery.fn.wymeditor=function(a){a=jQuery.extend({html:"",basePath:false,skinPath:false,wymPath:false,iframeBasePath:false,jQueryPath:false,styles:false,stylesheet:false,skin:"default",initSkin:true,loadSkin:true,lang:"en",direction:"ltr",boxHtml:"<div class='wym_box'><div class='wym_area_top'>"+WYMeditor.TOOLS+"</div><div class='wym_area_left'></div><div class='wym_area_right'>"+WYMeditor.CONTAINERS+WYMeditor.CLASSES+"</div><div class='wym_area_main'>"+WYMeditor.HTML+WYMeditor.IFRAME+WYMeditor.STATUS+"</div><div class='wym_area_bottom'>"+WYMeditor.LOGO+"</div></div>",logoHtml:"<a class='wym_wymeditor_link' href='http://www.wymeditor.org/'>WYMeditor</a>",iframeHtml:"<div class='wym_iframe wym_section'><iframe src='/page/get_editor_iframe' onload='this.contentWindow.parent.WYMeditor.INSTANCES["+WYMeditor.INDEX+"].initIframe(this)'></iframe></div>",editorStyles:[],toolsHtml:"<div class='wym_tools wym_section'><h2>{Tools}</h2><ul>"+WYMeditor.TOOLS_ITEMS+"</ul></div>",toolsItemHtml:"<li class='"+WYMeditor.TOOL_CLASS+"'><a href='#' name='"+WYMeditor.TOOL_NAME+"' title='"+WYMeditor.TOOL_TITLE+"'>"+WYMeditor.TOOL_TITLE+"</a></li>",toolsItems:[{name:"Bold",title:"Strong",css:"wym_tools_strong"},{name:"Italic",title:"Emphasis",css:"wym_tools_emphasis"},{name:"Superscript",title:"Superscript",css:"wym_tools_superscript"},{name:"Subscript",title:"Subscript",css:"wym_tools_subscript"},{name:"InsertOrderedList",title:"Ordered_List",css:"wym_tools_ordered_list"},{name:"InsertUnorderedList",title:"Unordered_List",css:"wym_tools_unordered_list"},{name:"Indent",title:"Indent",css:"wym_tools_indent"},{name:"Outdent",title:"Outdent",css:"wym_tools_outdent"},{name:"Undo",title:"Undo",css:"wym_tools_undo"},{name:"Redo",title:"Redo",css:"wym_tools_redo"},{name:"CreateLink",title:"Link",css:"wym_tools_link"},{name:"Unlink",title:"Unlink",css:"wym_tools_unlink"},{name:"InsertImage",title:"Image",css:"wym_tools_image"},{name:"InsertTable",title:"Table",css:"wym_tools_table"},{name:"Paste",title:"Paste_From_Word",css:"wym_tools_paste"},{name:"ToggleHtml",title:"HTML",css:"wym_tools_html"},{name:"Preview",title:"Preview",css:"wym_tools_preview"}],containersHtml:"<div class='wym_containers wym_section'><h2>{Containers}</h2><ul>"+WYMeditor.CONTAINERS_ITEMS+"</ul></div>",containersItemHtml:"<li class='"+WYMeditor.CONTAINER_CLASS+"'><a href='#' name='"+WYMeditor.CONTAINER_NAME+"'>"+WYMeditor.CONTAINER_TITLE+"</a></li>",containersItems:[{name:"P",title:"Paragraph",css:"wym_containers_p"},{name:"H1",title:"Heading_1",css:"wym_containers_h1"},{name:"H2",title:"Heading_2",css:"wym_containers_h2"},{name:"H3",title:"Heading_3",css:"wym_containers_h3"},{name:"H4",title:"Heading_4",css:"wym_containers_h4"},{name:"H5",title:"Heading_5",css:"wym_containers_h5"},{name:"H6",title:"Heading_6",css:"wym_containers_h6"},{name:"PRE",title:"Preformatted",css:"wym_containers_pre"},{name:"BLOCKQUOTE",title:"Blockquote",css:"wym_containers_blockquote"},{name:"TH",title:"Table_Header",css:"wym_containers_th"}],classesHtml:"<div class='wym_classes wym_section'><h2>{Classes}</h2><ul>"+WYMeditor.CLASSES_ITEMS+"</ul></div>",classesItemHtml:"<li><a href='#' name='"+WYMeditor.CLASS_NAME+"'>"+WYMeditor.CLASS_TITLE+"</a></li>",classesItems:[],statusHtml:"<div class='wym_status wym_section'><h2>{Status}</h2></div>",htmlHtml:"<div class='wym_html wym_section'><h2>{Source_Code}</h2><textarea class='wym_html_val'></textarea></div>",boxSelector:".wym_box",toolsSelector:".wym_tools",toolsListSelector:" ul",containersSelector:".wym_containers",classesSelector:".wym_classes",htmlSelector:".wym_html",iframeSelector:".wym_iframe iframe",iframeBodySelector:".wym_iframe",statusSelector:".wym_status",toolSelector:".wym_tools a",containerSelector:".wym_containers a",classSelector:".wym_classes a",htmlValSelector:".wym_html_val",hrefSelector:".wym_href",srcSelector:".wym_src",titleSelector:".wym_title",altSelector:".wym_alt",textSelector:".wym_text",rowsSelector:".wym_rows",colsSelector:".wym_cols",captionSelector:".wym_caption",summarySelector:".wym_summary",submitSelector:".wym_submit",cancelSelector:".wym_cancel",previewSelector:"",dialogTypeSelector:".wym_dialog_type",dialogLinkSelector:".wym_dialog_link",dialogImageSelector:".wym_dialog_image",dialogTableSelector:".wym_dialog_table",dialogPasteSelector:".wym_dialog_paste",dialogPreviewSelector:".wym_dialog_preview",updateSelector:".wymupdate",updateEvent:"click",dialogFeatures:"menubar=no,titlebar=no,toolbar=no,resizable=no,width=560,height=300,top=0,left=0",dialogFeaturesPreview:"menubar=no,titlebar=no,toolbar=no,resizable=no,scrollbars=yes,width=560,height=300,top=0,left=0",dialogHtml:"<!DOCTYPE html PUBLIC '-//W3C//DTD XHTML 1.0 Strict//EN' 'http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd'><html dir='"+WYMeditor.DIRECTION+"'><head><link rel='stylesheet' type='text/css' media='screen' href='"+WYMeditor.CSS_PATH+"' /><title>"+WYMeditor.DIALOG_TITLE+"</title><script type='text/javascript' src='"+WYMeditor.JQUERY_PATH+"'><\/script><script type='text/javascript' src='"+WYMeditor.WYM_PATH+"'><\/script></head>"+WYMeditor.DIALOG_BODY+"</html>",dialogLinkHtml:"<body class='wym_dialog wym_dialog_link' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><fieldset><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_LINK+"' /><legend>{Link}</legend><div class='row'><label>{URL}</label><input type='text' class='wym_href' value='' size='40' /></div><div class='row'><label>{Title}</label><input type='text' class='wym_title' value='' size='40' /></div><div class='row row-indent'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogImageHtml:"<body class='wym_dialog wym_dialog_image' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><fieldset><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_IMAGE+"' /><legend>{Image}</legend><div class='row'><label>{URL}</label><input type='text' class='wym_src' value='' size='40' /></div><div class='row'><label>{Alternative_Text}</label><input type='text' class='wym_alt' value='' size='40' /></div><div class='row'><label>{Title}</label><input type='text' class='wym_title' value='' size='40' /></div><div class='row row-indent'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogTableHtml:"<body class='wym_dialog wym_dialog_table' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><fieldset><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_TABLE+"' /><legend>{Table}</legend><div class='row'><label>{Caption}</label><input type='text' class='wym_caption' value='' size='40' /></div><div class='row'><label>{Summary}</label><input type='text' class='wym_summary' value='' size='40' /></div><div class='row'><label>{Number_Of_Rows}</label><input type='text' class='wym_rows' value='3' size='3' /></div><div class='row'><label>{Number_Of_Cols}</label><input type='text' class='wym_cols' value='2' size='3' /></div><div class='row row-indent'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogPasteHtml:"<body class='wym_dialog wym_dialog_paste' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'><form><input type='hidden' class='wym_dialog_type' value='"+WYMeditor.DIALOG_PASTE+"' /><fieldset><legend>{Paste_From_Word}</legend><div class='row'><textarea class='wym_text' rows='10' cols='50'></textarea></div><div class='row'><input class='wym_submit' type='button' value='{Submit}' /><input class='wym_cancel' type='button'value='{Cancel}' /></div></fieldset></form></body>",dialogPreviewHtml:"<body class='wym_dialog wym_dialog_preview' onload='WYMeditor.INIT_DIALOG("+WYMeditor.INDEX+")'></body>",dialogStyles:[],stringDelimiterLeft:"{",stringDelimiterRight:"}",preInit:null,preBind:null,postInit:null,preInitDialog:null,postInitDialog:null},a);return this.each(function(){new WYMeditor.editor(jQuery(this),a)})};jQuery.extend({wymeditors:function(a){return(WYMeditor.INSTANCES[a])}});WYMeditor.editor.prototype.init=function(){if(jQuery.browser.msie){var WymClass=new WYMeditor.WymClassExplorer(this)}else{if(jQuery.browser.mozilla){var WymClass=new WYMeditor.WymClassMozilla(this)}else{if(jQuery.browser.opera){var WymClass=new WYMeditor.WymClassOpera(this)}else{if(jQuery.browser.safari||jQuery.browser.chrome){var WymClass=new WYMeditor.WymClassSafari(this)}}}}if(WymClass){if(jQuery.isFunction(this._options.preInit)){this._options.preInit(this)}var SaxListener=new WYMeditor.XhtmlSaxListener();jQuery.extend(SaxListener,WymClass);this.parser=new WYMeditor.XhtmlParser(SaxListener);if(this._options.styles||this._options.stylesheet){this.configureEditorUsingRawCss()}this.helper=new WYMeditor.XmlHelper();for(var prop in WymClass){this[prop]=WymClass[prop]}this._box=jQuery(this._element).hide().after(this._options.boxHtml).next().addClass("wym_box_"+this._index);if(jQuery.isFunction(jQuery.fn.data)){jQuery.data(this._box.get(0),WYMeditor.WYM_INDEX,this._index);jQuery.data(this._element.get(0),WYMeditor.WYM_INDEX,this._index)}var h=WYMeditor.Helper;var iframeHtml=this._options.iframeHtml;iframeHtml=h.replaceAll(iframeHtml,WYMeditor.INDEX,this._index);iframeHtml=h.replaceAll(iframeHtml,WYMeditor.IFRAME_BASE_PATH,this._options.iframeBasePath);var boxHtml=jQuery(this._box).html();boxHtml=h.replaceAll(boxHtml,WYMeditor.LOGO,this._options.logoHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.TOOLS,this._options.toolsHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.CONTAINERS,this._options.containersHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.CLASSES,this._options.classesHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.HTML,this._options.htmlHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.IFRAME,iframeHtml);boxHtml=h.replaceAll(boxHtml,WYMeditor.STATUS,this._options.statusHtml);var aTools=eval(this._options.toolsItems);var sTools="";for(var i=0;i<aTools.length;i++){var oTool=aTools[i];if(oTool.name&&oTool.title){var sTool=this._options.toolsItemHtml}var sTool=h.replaceAll(sTool,WYMeditor.TOOL_NAME,oTool.name);sTool=h.replaceAll(sTool,WYMeditor.TOOL_TITLE,this._options.stringDelimiterLeft+oTool.title+this._options.stringDelimiterRight);sTool=h.replaceAll(sTool,WYMeditor.TOOL_CLASS,oTool.css);sTools+=sTool}boxHtml=h.replaceAll(boxHtml,WYMeditor.TOOLS_ITEMS,sTools);var aClasses=eval(this._options.classesItems);var sClasses="";for(var i=0;i<aClasses.length;i++){var oClass=aClasses[i];if(oClass.name&&oClass.title){var sClass=this._options.classesItemHtml}sClass=h.replaceAll(sClass,WYMeditor.CLASS_NAME,oClass.name);sClass=h.replaceAll(sClass,WYMeditor.CLASS_TITLE,oClass.title);sClasses+=sClass}boxHtml=h.replaceAll(boxHtml,WYMeditor.CLASSES_ITEMS,sClasses);var aContainers=eval(this._options.containersItems);var sContainers="";for(var i=0;i<aContainers.length;i++){var oContainer=aContainers[i];if(oContainer.name&&oContainer.title){var sContainer=this._options.containersItemHtml}sContainer=h.replaceAll(sContainer,WYMeditor.CONTAINER_NAME,oContainer.name);sContainer=h.replaceAll(sContainer,WYMeditor.CONTAINER_TITLE,this._options.stringDelimiterLeft+oContainer.title+this._options.stringDelimiterRight);sContainer=h.replaceAll(sContainer,WYMeditor.CONTAINER_CLASS,oContainer.css);sContainers+=sContainer}boxHtml=h.replaceAll(boxHtml,WYMeditor.CONTAINERS_ITEMS,sContainers);boxHtml=this.replaceStrings(boxHtml);jQuery(this._box).html(boxHtml);jQuery(this._box).find(this._options.htmlSelector).hide();this.loadSkin()}};WYMeditor.editor.prototype.bindEvents=function(){var wym=this;jQuery(this._box).find(this._options.toolSelector).click(function(){wym._iframe.contentWindow.focus();wym.exec(jQuery(this).attr(WYMeditor.NAME));return(false)});jQuery(this._box).find(this._options.containerSelector).click(function(){wym.container(jQuery(this).attr(WYMeditor.NAME));return(false)});jQuery(this._box).find(this._options.htmlValSelector).keyup(function(){jQuery(wym._doc.body).html(jQuery(this).val())}).focus(function(){jQuery(this).toggleClass("hasfocus")}).blur(function(){jQuery(this).toggleClass("hasfocus")});jQuery(this._box).find(this._options.classSelector).click(function(){var aClasses=eval(wym._options.classesItems);var sName=jQuery(this).attr(WYMeditor.NAME);var oClass=WYMeditor.Helper.findByName(aClasses,sName);if(oClass){var jqexpr=oClass.expr;wym.toggleClass(sName,jqexpr)}wym._iframe.contentWindow.focus();return(false)});jQuery(this._options.updateSelector).bind(this._options.updateEvent,function(){wym.update()})};WYMeditor.editor.prototype.ready=function(){return(this._doc!=null)};WYMeditor.editor.prototype.box=function(){return(this._box)};WYMeditor.editor.prototype.html=function(a){if(typeof a==="string"){jQuery(this._doc.body).html(a)}else{return(jQuery(this._doc.body).html())}};WYMeditor.editor.prototype.xhtml=function(){return this.parser.parse(this.html())};WYMeditor.editor.prototype.exec=function(b){switch(b){case WYMeditor.CREATE_LINK:var a=this.container();if(a||this._selected_image){this.dialog(WYMeditor.DIALOG_LINK)}break;case WYMeditor.INSERT_IMAGE:this.dialog(WYMeditor.DIALOG_IMAGE);break;case WYMeditor.INSERT_TABLE:this.dialog(WYMeditor.DIALOG_TABLE);break;case WYMeditor.PASTE:this.dialog(WYMeditor.DIALOG_PASTE);break;case WYMeditor.TOGGLE_HTML:this.update();this.toggleHtml();if(!jQuery(this._box).find(this._options.htmlSelector).is(":visible")){this.listen()}break;case WYMeditor.PREVIEW:this.dialog(WYMeditor.PREVIEW,this._options.dialogFeaturesPreview);break;default:this._exec(b);break}};WYMeditor.editor.prototype.container=function(a){if(a){var d=null;if(a.toLowerCase()==WYMeditor.TH){d=this.container();switch(d.tagName.toLowerCase()){case WYMeditor.TD:case WYMeditor.TH:break;default:var e=new Array(WYMeditor.TD,WYMeditor.TH);d=this.findUp(this.container(),e);break}if(d!=null){a=(d.tagName.toLowerCase()==WYMeditor.TD)?WYMeditor.TH:WYMeditor.TD;this.switchTo(d,a);this.update()}}else{var e=new Array(WYMeditor.P,WYMeditor.H1,WYMeditor.H2,WYMeditor.H3,WYMeditor.H4,WYMeditor.H5,WYMeditor.H6,WYMeditor.PRE,WYMeditor.BLOCKQUOTE);d=this.findUp(this.container(),e);if(d){var i=null;if(a.toLowerCase()==WYMeditor.BLOCKQUOTE){var f=this.findUp(this.container(),WYMeditor.BLOCKQUOTE);if(f==null){i=this._doc.createElement(a);d.parentNode.insertBefore(i,d);i.appendChild(d);this.setFocusToNode(i.firstChild)}else{var c=f.childNodes;var g=c.length;var b=null;if(g>0){b=c.item(0)}for(var h=0;h<g;h++){f.parentNode.insertBefore(c.item(0),f)}f.parentNode.removeChild(f);if(b){this.setFocusToNode(b)}}}else{this.switchTo(d,a)}this.update()}}}else{return(this.selected())}};WYMeditor.editor.prototype.toggleClass=function(c,b){var a=(this._selected_image?this._selected_image:jQuery(this.selected()));a=jQuery(a).parentsOrSelf(b);jQuery(a).toggleClass(c);if(!jQuery(a).attr(WYMeditor.CLASS)){jQuery(a).removeAttr(this._class)}};WYMeditor.editor.prototype.findUp=function(d,c){if(d){var e=d.tagName.toLowerCase();if(typeof(c)==WYMeditor.STRING){while(e!=c&&e!=WYMeditor.BODY){d=d.parentNode;e=d.tagName.toLowerCase()}}else{var b=false;while(!b&&e!=WYMeditor.BODY){for(var a=0;a<c.length;a++){if(e==c[a]){b=true;break}}if(!b){d=d.parentNode;e=d.tagName.toLowerCase()}}}if(e!=WYMeditor.BODY){return(d)}else{return(null)}}else{return(null)}};WYMeditor.editor.prototype.switchTo=function(c,d){var b=this._doc.createElement(d);var a=jQuery(c).html();c.parentNode.replaceChild(b,c);jQuery(b).html(a);this.setFocusToNode(b)};WYMeditor.editor.prototype.replaceStrings=function(sVal){if(!WYMeditor.STRINGS[this._options.lang]){try{eval(jQuery.ajax({url:this._options.langPath+this._options.lang+".js",async:false}).responseText)}catch(e){WYMeditor.console.error("WYMeditor: error while parsing language file.");return sVal}}for(var key in WYMeditor.STRINGS[this._options.lang]){sVal=WYMeditor.Helper.replaceAll(sVal,this._options.stringDelimiterLeft+key+this._options.stringDelimiterRight,WYMeditor.STRINGS[this._options.lang][key])}return(sVal)};WYMeditor.editor.prototype.encloseString=function(a){return(this._options.stringDelimiterLeft+a+this._options.stringDelimiterRight)};WYMeditor.editor.prototype.status=function(a){jQuery(this._box).find(this._options.statusSelector).html(a)};WYMeditor.editor.prototype.update=function(){var a=this.xhtml();jQuery(this._element).val(a);jQuery(this._box).find(this._options.htmlValSelector).not(".hasfocus").val(a)};WYMeditor.editor.prototype.dialog=function(j,c,f){var a=c||this._wym._options.dialogFeatures;var d=window.open("","dialog",a);if(d){var b="";switch(j){case (WYMeditor.DIALOG_LINK):b=this._options.dialogLinkHtml;break;case (WYMeditor.DIALOG_IMAGE):b=this._options.dialogImageHtml;break;case (WYMeditor.DIALOG_TABLE):b=this._options.dialogTableHtml;break;case (WYMeditor.DIALOG_PASTE):b=this._options.dialogPasteHtml;break;case (WYMeditor.PREVIEW):b=this._options.dialogPreviewHtml;break;default:b=f}var e=WYMeditor.Helper;var g=this._options.dialogHtml;g=e.replaceAll(g,WYMeditor.BASE_PATH,this._options.basePath);g=e.replaceAll(g,WYMeditor.DIRECTION,this._options.direction);g=e.replaceAll(g,WYMeditor.CSS_PATH,this._options.skinPath+WYMeditor.SKINS_DEFAULT_CSS);g=e.replaceAll(g,WYMeditor.WYM_PATH,this._options.wymPath);g=e.replaceAll(g,WYMeditor.JQUERY_PATH,this._options.jQueryPath);g=e.replaceAll(g,WYMeditor.DIALOG_TITLE,this.encloseString(j));g=e.replaceAll(g,WYMeditor.DIALOG_BODY,b);g=e.replaceAll(g,WYMeditor.INDEX,this._index);g=this.replaceStrings(g);var i=d.document;i.write(g);i.close()}};WYMeditor.editor.prototype.toggleHtml=function(){jQuery(this._box).find(this._options.htmlSelector).toggle()};WYMeditor.editor.prototype.uniqueStamp=function(){var a=new Date();return("wym-"+a.getTime())};WYMeditor.editor.prototype.paste=function(b){var e;var a=this.selected();var c=b.split(this._newLine+this._newLine);var d=new RegExp(this._newLine,"g");if(a&&a.tagName.toLowerCase()!=WYMeditor.BODY){for(x=c.length-1;x>=0;x--){e=c[x];e=e.replace(d,"<br />");jQuery(a).after("<p>"+e+"</p>")}}else{for(x=0;x<c.length;x++){e=c[x];e=e.replace(d,"<br />");jQuery(this._doc.body).append("<p>"+e+"</p>")}}};WYMeditor.editor.prototype.insert=function(a){if(this._iframe.contentWindow.getSelection().focusNode!=null){this._exec(WYMeditor.INSERT_HTML,a)}else{this.paste(a)}};WYMeditor.editor.prototype.wrap=function(b,a){if(this._iframe.contentWindow.getSelection().focusNode!=null){this._exec(WYMeditor.INSERT_HTML,b+this._iframe.contentWindow.getSelection().toString()+a)}};WYMeditor.editor.prototype.unwrap=function(){if(this._iframe.contentWindow.getSelection().focusNode!=null){this._exec(WYMeditor.INSERT_HTML,this._iframe.contentWindow.getSelection().toString())}};WYMeditor.editor.prototype.addCssRules=function(e,c){var b=e.styleSheets[0];if(b){for(var a=0;a<c.length;a++){var d=c[a];if(d.name&&d.css){this.addCssRule(b,d)}}}};WYMeditor.editor.prototype.computeBasePath=function(){return jQuery(jQuery.grep(jQuery("script"),function(a){return(a.src&&a.src.match(/jquery\.wymeditor(\.pack|\.min|\.packed)?\.js(\?.*)?$/))})).attr("src").replace(/jquery\.wymeditor(\.pack|\.min|\.packed)?\.js(\?.*)?$/,"")};WYMeditor.editor.prototype.computeWymPath=function(){return jQuery(jQuery.grep(jQuery("script"),function(a){return(a.src&&a.src.match(/jquery\.wymeditor(\.pack|\.min|\.packed)?\.js(\?.*)?$/))})).attr("src")};WYMeditor.editor.prototype.computeJqueryPath=function(){return jQuery(jQuery.grep(jQuery("script"),function(a){return(a.src&&a.src.match(/jquery(-(.*)){0,1}(\.pack|\.min|\.packed)?\.js(\?.*)?$/))})).attr("src")};WYMeditor.editor.prototype.computeCssPath=function(){return jQuery(jQuery.grep(jQuery("link"),function(a){return(a.href&&a.href.match(/wymeditor\/skins\/(.*)screen\.css(\?.*)?$/))})).attr("href")};WYMeditor.editor.prototype.configureEditorUsingRawCss=function(){var a=new WYMeditor.WymCssParser();if(this._options.stylesheet){a.parse(jQuery.ajax({url:this._options.stylesheet,async:false}).responseText)}else{a.parse(this._options.styles,false)}if(this._options.classesItems.length==0){this._options.classesItems=a.css_settings.classesItems}if(this._options.editorStyles.length==0){this._options.editorStyles=a.css_settings.editorStyles}if(this._options.dialogStyles.length==0){this._options.dialogStyles=a.css_settings.dialogStyles}};WYMeditor.editor.prototype.listen=function(){jQuery(this._doc.body).bind("mousedown",this.mousedown);var a=this._doc.body.getElementsByTagName("img");for(var b=0;b<a.length;b++){jQuery(a[b]).bind("mousedown",this.mousedown)}};WYMeditor.editor.prototype.mousedown=function(a){var b=WYMeditor.INSTANCES[this.ownerDocument.title];b._selected_image=(this.tagName.toLowerCase()==WYMeditor.IMG)?this:null;a.stopPropagation()};WYMeditor.loadCss=function(a){var c=document.createElement("link");c.rel="stylesheet";c.href=a;var b=jQuery("head").get(0);b.appendChild(c)};WYMeditor.editor.prototype.loadSkin=function(){if(this._options.loadSkin&&!WYMeditor.SKINS[this._options.skin]){var found=false;var rExp=new RegExp(this._options.skin+"/"+WYMeditor.SKINS_DEFAULT_CSS+"$");jQuery("link").each(function(){if(this.href.match(rExp)){found=true}});if(!found){WYMeditor.loadCss(this._options.skinPath+WYMeditor.SKINS_DEFAULT_CSS)}}jQuery(this._box).addClass("wym_skin_"+this._options.skin);if(this._options.initSkin&&!WYMeditor.SKINS[this._options.skin]){eval(jQuery.ajax({url:this._options.skinPath+WYMeditor.SKINS_DEFAULT_JS,async:false}).responseText)}if(WYMeditor.SKINS[this._options.skin]&&WYMeditor.SKINS[this._options.skin].init){WYMeditor.SKINS[this._options.skin].init(this)}};WYMeditor.INIT_DIALOG=function(index){var wym=window.opener.WYMeditor.INSTANCES[index];var doc=window.document;var selected=wym.selected();var dialogType=jQuery(wym._options.dialogTypeSelector).val();var sStamp=wym.uniqueStamp();switch(dialogType){case WYMeditor.DIALOG_LINK:if(selected&&selected.tagName&&selected.tagName.toLowerCase!=WYMeditor.A){selected=jQuery(selected).parentsOrSelf(WYMeditor.A)}if(!selected&&wym._selected_image){selected=jQuery(wym._selected_image).parentsOrSelf(WYMeditor.A)}break}if(jQuery.isFunction(wym._options.preInitDialog)){wym._options.preInitDialog(wym,window)}var styles=doc.styleSheets[0];var aCss=eval(wym._options.dialogStyles);wym.addCssRules(doc,aCss);if(selected){jQuery(wym._options.hrefSelector).val(jQuery(selected).attr(WYMeditor.HREF));jQuery(wym._options.srcSelector).val(jQuery(selected).attr(WYMeditor.SRC));jQuery(wym._options.titleSelector).val(jQuery(selected).attr(WYMeditor.TITLE));jQuery(wym._options.altSelector).val(jQuery(selected).attr(WYMeditor.ALT))}if(wym._selected_image){jQuery(wym._options.dialogImageSelector+" "+wym._options.srcSelector).val(jQuery(wym._selected_image).attr(WYMeditor.SRC));jQuery(wym._options.dialogImageSelector+" "+wym._options.titleSelector).val(jQuery(wym._selected_image).attr(WYMeditor.TITLE));jQuery(wym._options.dialogImageSelector+" "+wym._options.altSelector).val(jQuery(wym._selected_image).attr(WYMeditor.ALT))}jQuery(wym._options.dialogLinkSelector+" "+wym._options.submitSelector).click(function(){var sUrl=jQuery(wym._options.hrefSelector).val();if(sUrl.length>0){wym._exec(WYMeditor.CREATE_LINK,sStamp);jQuery("a[href="+sStamp+"]",wym._doc.body).attr(WYMeditor.HREF,sUrl).attr(WYMeditor.TITLE,jQuery(wym._options.titleSelector).val())}window.close()});jQuery(wym._options.dialogImageSelector+" "+wym._options.submitSelector).click(function(){var sUrl=jQuery(wym._options.srcSelector).val();if(sUrl.length>0){wym._exec(WYMeditor.INSERT_IMAGE,sStamp);jQuery("img[src$="+sStamp+"]",wym._doc.body).attr(WYMeditor.SRC,sUrl).attr(WYMeditor.TITLE,jQuery(wym._options.titleSelector).val()).attr(WYMeditor.ALT,jQuery(wym._options.altSelector).val())}window.close()});jQuery(wym._options.dialogTableSelector+" "+wym._options.submitSelector).click(function(){var iRows=jQuery(wym._options.rowsSelector).val();var iCols=jQuery(wym._options.colsSelector).val();if(iRows>0&&iCols>0){var table=wym._doc.createElement(WYMeditor.TABLE);var newRow=null;var newCol=null;var sCaption=jQuery(wym._options.captionSelector).val();var newCaption=table.createCaption();newCaption.innerHTML=sCaption;for(x=0;x<iRows;x++){newRow=table.insertRow(x);for(y=0;y<iCols;y++){newRow.insertCell(y)}}jQuery(table).attr("summary",jQuery(wym._options.summarySelector).val());var node=jQuery(wym.findUp(wym.container(),WYMeditor.MAIN_CONTAINERS)).get(0);if(!node||!node.parentNode){jQuery(wym._doc.body).append(table)}else{jQuery(node).after(table)}}window.close()});jQuery(wym._options.dialogPasteSelector+" "+wym._options.submitSelector).click(function(){var sText=jQuery(wym._options.textSelector).val();wym.paste(sText);window.close()});jQuery(wym._options.dialogPreviewSelector+" "+wym._options.previewSelector).html(wym.xhtml());jQuery(wym._options.cancelSelector).mousedown(function(){window.close()});if(jQuery.isFunction(wym._options.postInitDialog)){wym._options.postInitDialog(wym,window)}};WYMeditor.XmlHelper=function(){this._entitiesDiv=document.createElement("div");return this};WYMeditor.XmlHelper.prototype.tag=function(c,b,a){b=b||false;a=a||false;return"<"+c+(b?this.tagOptions(b):"")+(a?">":" />")};WYMeditor.XmlHelper.prototype.contentTag=function(b,c,a){a=a||false;return"<"+b+(a?this.tagOptions(a):"")+">"+c+"</"+b+">"};WYMeditor.XmlHelper.prototype.cdataSection=function(a){return"<![CDATA["+a+"]]>"};WYMeditor.XmlHelper.prototype.escapeOnce=function(a){return this._fixDoubleEscape(this.escapeEntities(a))};WYMeditor.XmlHelper.prototype._fixDoubleEscape=function(a){return a.replace(/&([a-z]+|(#\d+));/ig,"&$1;")};WYMeditor.XmlHelper.prototype.tagOptions=function(b){var a=this;a._formated_options="";for(var c in b){var d="";var e=b[c];if(typeof e!="function"&&e.length>0){if(parseInt(c)==c&&typeof e=="object"){c=e.shift();e=e.pop()}if(c!=""&&e!=""){a._formated_options+=" "+c+'="'+a.escapeOnce(e)+'"'}}}return a._formated_options};WYMeditor.XmlHelper.prototype.escapeEntities=function(c,b){this._entitiesDiv.innerHTML=c;this._entitiesDiv.textContent=c;var a=this._entitiesDiv.innerHTML;if(typeof b=="undefined"){if(b!=false){a=a.replace('"',""")}if(b==true){a=a.replace('"',"'")}}return a};WYMeditor.XmlHelper.prototype.parseAttributes=function(h){var a=[];var g=h.split(/((=\s*")(")("))|((=\s*\')(\')(\'))|((=\s*[^>\s]*))/g);if(g.toString()!=h){for(var d in g){var c=g[d];if(typeof c!="function"&&c.length!=0){var e=new RegExp("(\\w+)\\s*"+c);if(match=h.match(e)){var f=c.replace(/^[\s=]+/,"");var b=f.charAt(0);b=b=='"'?'"':(b=="'"?"'":"");if(b!=""){f=b=='"'?f.replace(/^"|"+$/g,""):f.replace(/^'|'+$/g,"")}h=h.replace(match[0],"");a.push([match[1],f])}}}}return a};WYMeditor.XhtmlValidator={_attributes:{core:{except:["base","head","html","meta","param","script","style","title"],attributes:["class","id","style","title","accesskey","tabindex"]},language:{except:["base","br","hr","iframe","param","script"],attributes:{dir:["ltr","rtl"],"0":"lang","1":"xml:lang"}},keyboard:{attributes:{accesskey:/^(\w){1}$/,tabindex:/^(\d)+$/}}},_events:{window:{only:["body"],attributes:["onload","onunload"]},form:{only:["form","input","textarea","select","a","label","button"],attributes:["onchange","onsubmit","onreset","onselect","onblur","onfocus"]},keyboard:{except:["base","bdo","br","frame","frameset","head","html","iframe","meta","param","script","style","title"],attributes:["onkeydown","onkeypress","onkeyup"]},mouse:{except:["base","bdo","br","head","html","meta","param","script","style","title"],attributes:["onclick","ondblclick","onmousedown","onmousemove","onmouseover","onmouseout","onmouseup"]}},_tags:{a:{attributes:{"0":"charset","1":"coords","2":"href","3":"hreflang","4":"name",rel:/^(alternate|designates|stylesheet|start|next|prev|contents|index|glossary|copyright|chapter|section|subsection|appendix|help|bookmark| |shortcut|icon)+$/,rev:/^(alternate|designates|stylesheet|start|next|prev|contents|index|glossary|copyright|chapter|section|subsection|appendix|help|bookmark| 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true};WYMeditor.XhtmlLexer=function(a){jQuery.extend(this,new WYMeditor.Lexer(a,"Text"));this.mapHandler("Text","Text");this.addTokens();this.init();return this};WYMeditor.XhtmlLexer.prototype.init=function(){};WYMeditor.XhtmlLexer.prototype.addTokens=function(){this.addCommentTokens("Text");this.addScriptTokens("Text");this.addCssTokens("Text");this.addTagTokens("Text")};WYMeditor.XhtmlLexer.prototype.addCommentTokens=function(a){this.addEntryPattern("","Comment")};WYMeditor.XhtmlLexer.prototype.addScriptTokens=function(a){this.addEntryPattern("<script",a,"Script");this.addExitPattern("<\/script>","Script")};WYMeditor.XhtmlLexer.prototype.addCssTokens=function(a){this.addEntryPattern("<style",a,"Css");this.addExitPattern("</style>","Css")};WYMeditor.XhtmlLexer.prototype.addTagTokens=function(a){this.addSpecialPattern("<\\s*[a-z0-9:-]+\\s*>",a,"OpeningTag");this.addEntryPattern("<[a-z0-9:-]+[\\/ 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WYMeditor.XhtmlLexer(this);this._Listener=a;this._mode=b;this._matches=[];this._last_match="";this._current_match="";return this};WYMeditor.XhtmlParser.prototype.parse=function(a){this._Lexer.parse(this.beforeParsing(a));return this.afterParsing(this._Listener.getResult())};WYMeditor.XhtmlParser.prototype.beforeParsing=function(a){if(a.match(/class="MsoNormal"/)||a.match(/ns = "urn:schemas-microsoft-com/)){this._Listener.avoidStylingTagsAndAttributes()}return this._Listener.beforeParsing(a)};WYMeditor.XhtmlParser.prototype.afterParsing=function(a){if(this._Listener._avoiding_tags_implicitly){this._Listener.allowStylingTagsAndAttributes()}return this._Listener.afterParsing(a)};WYMeditor.XhtmlParser.prototype.Ignore=function(a,b){return true};WYMeditor.XhtmlParser.prototype.Text=function(a){this._Listener.addContent(a);return true};WYMeditor.XhtmlParser.prototype.Comment=function(b,a){return this._addNonTagBlock(b,a,"addComment")};WYMeditor.XhtmlParser.prototype.Script=function(b,a){return this._addNonTagBlock(b,a,"addScript")};WYMeditor.XhtmlParser.prototype.Css=function(b,a){return this._addNonTagBlock(b,a,"addCss")};WYMeditor.XhtmlParser.prototype._addNonTagBlock=function(a,c,b){switch(c){case WYMeditor.LEXER_ENTER:this._non_tag=a;break;case WYMeditor.LEXER_UNMATCHED:this._non_tag+=a;break;case WYMeditor.LEXER_EXIT:switch(b){case"addComment":this._Listener.addComment(this._non_tag+a);break;case"addScript":this._Listener.addScript(this._non_tag+a);break;case"addCss":this._Listener.addCss(this._non_tag+a);break}}return true};WYMeditor.XhtmlParser.prototype.OpeningTag=function(a,b){switch(b){case WYMeditor.LEXER_ENTER:this._tag=this.normalizeTag(a);this._tag_attributes={};break;case WYMeditor.LEXER_SPECIAL:this._callOpenTagListener(this.normalizeTag(a));break;case WYMeditor.LEXER_EXIT:this._callOpenTagListener(this._tag,this._tag_attributes)}return true};WYMeditor.XhtmlParser.prototype.ClosingTag=function(a,b){this._callCloseTagListener(this.normalizeTag(a));return true};WYMeditor.XhtmlParser.prototype._callOpenTagListener=function(a,b){var b=b||{};this.autoCloseUnclosedBeforeNewOpening(a);if(this._Listener.isBlockTag(a)){this._Listener._tag_stack.push(a);this._Listener.fixNestingBeforeOpeningBlockTag(a,b);this._Listener.openBlockTag(a,b);this._increaseOpenTagCounter(a)}else{if(this._Listener.isInlineTag(a)){this._Listener.inlineTag(a,b)}else{this._Listener.openUnknownTag(a,b);this._increaseOpenTagCounter(a)}}this._Listener.last_tag=a;this._Listener.last_tag_opened=true;this._Listener.last_tag_attributes=b};WYMeditor.XhtmlParser.prototype._callCloseTagListener=function(a){if(this._decreaseOpenTagCounter(a)){this.autoCloseUnclosedBeforeTagClosing(a);if(this._Listener.isBlockTag(a)){var 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this._Listener._open_tags){var b=this._Listener._open_tags[a];if(b>0&&this._Listener.shouldCloseTagAutomatically(a,c,d)){this._callCloseTagListener(a,true)}}}};WYMeditor.XhtmlParser.prototype.getTagReplacements=function(){return this._Listener.getTagReplacements()};WYMeditor.XhtmlParser.prototype.normalizeTag=function(a){a=a.replace(/^([\s<\/>]*)|([\s<\/>]*)$/gm,"").toLowerCase();var b=this._Listener.getTagReplacements();if(b[a]){return b[a]}return a};WYMeditor.XhtmlParser.prototype.TagAttributes=function(a,b){if(WYMeditor.LEXER_SPECIAL==b){this._current_attribute=a}return true};WYMeditor.XhtmlParser.prototype.DoubleQuotedAttribute=function(a,b){if(WYMeditor.LEXER_UNMATCHED==b){this._tag_attributes[this._current_attribute]=a}return true};WYMeditor.XhtmlParser.prototype.SingleQuotedAttribute=function(a,b){if(WYMeditor.LEXER_UNMATCHED==b){this._tag_attributes[this._current_attribute]=a}return true};WYMeditor.XhtmlParser.prototype.UnquotedAttribute=function(a,b){this._tag_attributes[this._current_attribute]=a.replace(/^=/,"");return true};WYMeditor.XhtmlSaxListener=function(){this.output="";this.helper=new WYMeditor.XmlHelper();this._open_tags={};this.validator=WYMeditor.XhtmlValidator;this._tag_stack=[];this.avoided_tags=[];this.entities={" ":" ","¡":"¡","¢":"¢","£":"£","¤":"¤","¥":"¥","¦":"¦","§":"§","¨":"¨","©":"©","ª":"ª","«":"«","¬":"¬","":"","®":"®","¯":"¯","°":"°","±":"±","²":"²","³":"³","´":"´","µ":"µ","¶":"¶","·":"·","¸":"¸","¹":"¹","º":"º","»":"»","¼":"¼","½":"½","¾":"¾","¿":"¿","À":"À","Á":"Á","Â":"Â","Ã":"Ã","Ä":"Ä","Å":"Å","Æ":"Æ","Ç":"Ç","È":"È","É":"É","Ê":"Ê","Ë":"Ë","Ì":"Ì","Í":"Í","Î":"Î","Ï":"Ï","Ð":"Ð","Ñ":"Ñ","Ò":"Ò","Ó":"Ó","Ô":"Ô","Õ":"Õ","Ö":"Ö","×":"×","Ø":"Ø","Ù":"Ù","Ú":"Ú","Û":"Û","Ü":"Ü","Ý":"Ý","Þ":"Þ","ß":"ß","à":"à","á":"á","â":"â","ã":"ã","ä":"ä","å":"å","æ":"æ","ç":"ç","è":"è","é":"é","ê":"ê","ë":"ë","ì":"ì","í":"í","î":"î","ï":"ï","ð":"ð","ñ":"ñ","ò":"ò","ó":"ó","ô":"ô","õ":"õ","ö":"ö","÷":"÷","ø":"ø","ù":"ù","ú":"ú","û":"û","ü":"ü","ý":"ý","þ":"þ","ÿ":"ÿ","&OElig;":"Œ","&oelig;":"œ","&Scaron;":"Š","&scaron;":"š","&Yuml;":"Ÿ","&fnof;":"ƒ","&circ;":"ˆ","&tilde;":"˜","Α":"Α","Β":"Β","Γ":"Γ","Δ":"Δ","Ε":"Ε","Ζ":"Ζ","Η":"Η","Θ":"Θ","Ι":"Ι","Κ":"Κ","Λ":"Λ","Μ":"Μ","Ν":"Ν","Ξ":"Ξ","Ο":"Ο","Π":"Π","Ρ":"Ρ","Σ":"Σ","Τ":"Τ","Υ":"Υ","Φ":"Φ","Χ":"Χ","Ψ":"Ψ","Ω":"Ω","α":"α","β":"β","γ":"γ","δ":"δ","ε":"ε","ζ":"ζ","η":"η","θ":"θ","ι":"ι","κ":"κ","λ":"λ","μ":"μ","ν":"ν","ξ":"ξ","ο":"ο","π":"π","ρ":"ρ","&sigmaf;":"ς","σ":"σ","τ":"τ","υ":"υ","φ":"φ","χ":"χ","ψ":"ψ","ω":"ω","&thetasym;":"ϑ","&upsih;":"ϒ","ϖ":"ϖ","&ensp;":" ","&emsp;":" "," ":" ","&zwnj;":"‌","&zwj;":"‍","&lrm;":"‎","&rlm;":"‏","–":"–","—":"—","‘":"‘","’":"’","&sbquo;":"‚","“":"“","”":"”","&bdquo;":"„","&dagger;":"†","&Dagger;":"‡","•":"•","…":"…","&permil;":"‰","′":"′","″":"″","&lsaquo;":"‹","&rsaquo;":"›","&oline;":"‾","&frasl;":"⁄","€":"€","&image;":"ℑ","&weierp;":"℘","&real;":"ℜ","™":"™","&alefsym;":"ℵ","←":"←","↑":"↑","→":"→","↓":"↓","↔":"↔","&crarr;":"↵","⇐":"⇐","&uArr;":"⇑","⇒":"⇒","&dArr;":"⇓","⇔":"⇔","∀":"∀","∂":"∂","∃":"∃","∅":"∅","∇":"∇","∈":"∈","∉":"∉","&ni;":"∋","∏":"∏","∑":"∑","−":"−","&lowast;":"∗","√":"√","&prop;":"∝","∞":"∞","&ang;":"∠","&and;":"∧","&or;":"∨","∩":"∩","∪":"∪","∫":"∫","&there4;":"∴","&sim;":"∼","&cong;":"≅","≈":"≈","≠":"≠","&equiv;":"≡","≤":"≤","≥":"≥","⊂":"⊂","⊃":"⊃","&nsub;":"⊄","&sube;":"⊆","&supe;":"⊇","&oplus;":"⊕","&otimes;":"⊗","&perp;":"⊥","⋅":"⋅","&lceil;":"⌈","&rceil;":"⌉","&lfloor;":"⌊","&rfloor;":"⌋","&lang;":"〈","&rang;":"〉","&loz;":"◊","&spades;":"♠","&clubs;":"♣","&hearts;":"♥","&diams;":"♦"};this.block_tags=["a","abbr","acronym","address","area","b","base","bdo","big","blockquote","body","button","caption","cite","code","col","colgroup","dd","del","div","dfn","dl","dt","em","fieldset","form","head","h1","h2","h3","h4","h5","h6","html","i","ins","kbd","label","legend","li","map","noscript","object","ol","optgroup","option","p","param","pre","q","samp","script","select","small","span","strong","style","sub","sup","table","tbody","td","textarea","tfoot","th","thead","title","tr","tt","ul","var","extends"];this.inline_tags=["br","hr","img","input"];return this};WYMeditor.XhtmlSaxListener.prototype.shouldCloseTagAutomatically=function(a,c,b){var b=b||false;if(a=="td"){if((b&&c=="tr")||(!b&&c=="td")){return true}}if(a=="option"){if((b&&c=="select")||(!b&&c=="option")){return true}}return false};WYMeditor.XhtmlSaxListener.prototype.beforeParsing=function(a){this.output="";return a};WYMeditor.XhtmlSaxListener.prototype.afterParsing=function(a){a=this.replaceNamedEntities(a);a=this.joinRepeatedEntities(a);a=this.removeEmptyTags(a);a=this.removeBrInPre(a);return a};WYMeditor.XhtmlSaxListener.prototype.replaceNamedEntities=function(b){for(var a in this.entities){b=b.replace(new RegExp(a,"g"),this.entities[a])}return b};WYMeditor.XhtmlSaxListener.prototype.joinRepeatedEntities=function(b){var a="em|strong|sub|sup|acronym|pre|del|address";return b.replace(new RegExp("</("+a+")><\\1>",""),"").replace(new RegExp("(s*<("+a+")>s*){2}(.*)(s*</\\2>s*){2}",""),"<$2>$3<$2>")};WYMeditor.XhtmlSaxListener.prototype.removeEmptyTags=function(a){return a.replace(new RegExp("<("+this.block_tags.join("|").replace(/\|td/,"").replace(/\|p/,"").replace(/\|th/,"")+")>(<br />| | |\\s)*</\\1>","g"),"")};WYMeditor.XhtmlSaxListener.prototype.removeBrInPre=function(c){var b=c.match(new RegExp("<pre[^>]*>(.*?)</pre>","gmi"));if(b){for(var a=0;a<b.length;a++){c=c.replace(b[a],b[a].replace(new RegExp("<br />","g"),String.fromCharCode(13,10)))}}return c};WYMeditor.XhtmlSaxListener.prototype.getResult=function(){return this.output};WYMeditor.XhtmlSaxListener.prototype.getTagReplacements=function(){return{b:"strong",i:"em"}};WYMeditor.XhtmlSaxListener.prototype.addContent=function(a){this.output+=a};WYMeditor.XhtmlSaxListener.prototype.addComment=function(a){if(this.remove_comments){this.output+=a}};WYMeditor.XhtmlSaxListener.prototype.addScript=function(a){if(!this.remove_scripts){this.output+=a}};WYMeditor.XhtmlSaxListener.prototype.addCss=function(a){if(!this.remove_embeded_styles){this.output+=a}};WYMeditor.XhtmlSaxListener.prototype.openBlockTag=function(a,b){this.output+=this.helper.tag(a,this.validator.getValidTagAttributes(a,b),true)};WYMeditor.XhtmlSaxListener.prototype.inlineTag=function(a,b){this.output+=this.helper.tag(a,this.validator.getValidTagAttributes(a,b))};WYMeditor.XhtmlSaxListener.prototype.openUnknownTag=function(a,b){};WYMeditor.XhtmlSaxListener.prototype.closeBlockTag=function(a){this.output=this.output.replace(/<br \/>$/,"")+this._getClosingTagContent("before",a)+"</"+a+">"+this._getClosingTagContent("after",a)};WYMeditor.XhtmlSaxListener.prototype.closeUnknownTag=function(a){};WYMeditor.XhtmlSaxListener.prototype.closeUnopenedTag=function(a){this.output+="</"+a+">"};WYMeditor.XhtmlSaxListener.prototype.avoidStylingTagsAndAttributes=function(){this.avoided_tags=["div","span"];this.validator.skiped_attributes=["style"];this.validator.skiped_attribute_values=["MsoNormal","main1"];this._avoiding_tags_implicitly=true};WYMeditor.XhtmlSaxListener.prototype.allowStylingTagsAndAttributes=function(){this.avoided_tags=[];this.validator.skiped_attributes=[];this.validator.skiped_attribute_values=[];this._avoiding_tags_implicitly=false};WYMeditor.XhtmlSaxListener.prototype.isBlockTag=function(a){return !WYMeditor.Helper.contains(this.avoided_tags,a)&&WYMeditor.Helper.contains(this.block_tags,a)};WYMeditor.XhtmlSaxListener.prototype.isInlineTag=function(a){return !WYMeditor.Helper.contains(this.avoided_tags,a)&&WYMeditor.Helper.contains(this.inline_tags,a)};WYMeditor.XhtmlSaxListener.prototype.insertContentAfterClosingTag=function(a,b){this._insertContentWhenClosingTag("after",a,b)};WYMeditor.XhtmlSaxListener.prototype.insertContentBeforeClosingTag=function(a,b){this._insertContentWhenClosingTag("before",a,b)};WYMeditor.XhtmlSaxListener.prototype.fixNestingBeforeOpeningBlockTag=function(a,b){if(a!="li"&&(a=="ul"||a=="ol")&&this.last_tag&&!this.last_tag_opened&&this.last_tag=="li"){this.output=this.output.replace(/<\/li>$/,"");this.insertContentAfterClosingTag(a,"</li>")}};WYMeditor.XhtmlSaxListener.prototype._insertContentWhenClosingTag=function(b,a,c){if(!this["_insert_"+b+"_closing"]){this["_insert_"+b+"_closing"]=[]}if(!this["_insert_"+b+"_closing"][a]){this["_insert_"+b+"_closing"][a]=[]}this["_insert_"+b+"_closing"][a].push(c)};WYMeditor.XhtmlSaxListener.prototype._getClosingTagContent=function(b,a){if(this["_insert_"+b+"_closing"]&&this["_insert_"+b+"_closing"][a]&&this["_insert_"+b+"_closing"][a].length>0){return this["_insert_"+b+"_closing"][a].pop()}return""};WYMeditor.WymCssLexer=function(b,a){var a=(typeof a=="undefined"?true:a);jQuery.extend(this,new WYMeditor.Lexer(b,(a?"Ignore":"WymCss")));this.mapHandler("WymCss","Ignore");if(a==true){this.addEntryPattern("/\\\x2a[<\\s]*WYMeditor[>\\s]*\\\x2a/","Ignore","WymCss");this.addExitPattern("/\\\x2a[</\\s]*WYMeditor[>\\s]*\\\x2a/","WymCss")}this.addSpecialPattern("[\\sa-z1-6]*\\\x2e[a-z-_0-9]+","WymCss","WymCssStyleDeclaration");this.addEntryPattern("/\\\x2a","WymCss","WymCssComment");this.addExitPattern("\\\x2a/","WymCssComment");this.addEntryPattern("\x7b","WymCss","WymCssStyle");this.addExitPattern("\x7d","WymCssStyle");this.addEntryPattern("/\\\x2a","WymCssStyle","WymCssFeedbackStyle");this.addExitPattern("\\\x2a/","WymCssFeedbackStyle");return this};WYMeditor.WymCssParser=function(){this._in_style=false;this._has_title=false;this.only_wym_blocks=true;this.css_settings={classesItems:[],editorStyles:[],dialogStyles:[]};return this};WYMeditor.WymCssParser.prototype.parse=function(a,b){var b=(typeof b=="undefined"?this.only_wym_blocks:b);this._Lexer=new WYMeditor.WymCssLexer(this,b);this._Lexer.parse(a)};WYMeditor.WymCssParser.prototype.Ignore=function(a,b){return true};WYMeditor.WymCssParser.prototype.WymCssComment=function(b,a){if(b.match(/end[a-z0-9\s]*wym[a-z0-9\s]*/mi)){return false}if(a==WYMeditor.LEXER_UNMATCHED){if(!this._in_style){this._has_title=true;this._current_item={title:WYMeditor.Helper.trim(b)}}else{if(this._current_item[this._current_element]){if(!this._current_item[this._current_element].expressions){this._current_item[this._current_element].expressions=[b]}else{this._current_item[this._current_element].expressions.push(b)}}}this._in_style=true}return true};WYMeditor.WymCssParser.prototype.WymCssStyle=function(b,a){if(a==WYMeditor.LEXER_UNMATCHED){b=WYMeditor.Helper.trim(b);if(b!=""){this._current_item[this._current_element].style=b}}else{if(a==WYMeditor.LEXER_EXIT){this._in_style=false;this._has_title=false;this.addStyleSetting(this._current_item)}}return true};WYMeditor.WymCssParser.prototype.WymCssFeedbackStyle=function(b,a){if(a==WYMeditor.LEXER_UNMATCHED){this._current_item[this._current_element].feedback_style=b.replace(/^([\s\/\*]*)|([\s\/\*]*)$/gm,"")}return true};WYMeditor.WymCssParser.prototype.WymCssStyleDeclaration=function(b){b=b.replace(/^([\s\.]*)|([\s\.*]*)$/gm,"");var a="";if(b.indexOf(".")>0){var c=b.split(".");this._current_element=c[1];var a=c[0]}else{this._current_element=b}if(!this._has_title){this._current_item={title:(!a?"":a.toUpperCase()+": ")+this._current_element};this._has_title=true}if(!this._current_item[this._current_element]){this._current_item[this._current_element]={name:this._current_element}}if(a){if(!this._current_item[this._current_element].tags){this._current_item[this._current_element].tags=[a]}else{this._current_item[this._current_element].tags.push(a)}}return true};WYMeditor.WymCssParser.prototype.addStyleSetting=function(a){for(var b in a){var c=a[b];if(typeof c=="object"&&b!="title"){this.css_settings.classesItems.push({name:WYMeditor.Helper.trim(c.name),title:a.title,expr:WYMeditor.Helper.trim((c.expressions||c.tags).join(", "))});if(c.feedback_style){this.css_settings.editorStyles.push({name:"."+WYMeditor.Helper.trim(c.name),css:c.feedback_style})}if(c.style){this.css_settings.dialogStyles.push({name:"."+WYMeditor.Helper.trim(c.name),css:c.style})}}}};jQuery.fn.isPhantomNode=function(){if(this[0].nodeType==3){return !(/[^\t\n\r ]/.test(this[0].data))}return false};WYMeditor.isPhantomNode=function(a){if(a.nodeType==3){return !(/[^\t\n\r ]/.test(a.data))}return false};WYMeditor.isPhantomString=function(a){return !(/[^\t\n\r ]/.test(a))};jQuery.fn.parentsOrSelf=function(b){var a=this;if(a[0].nodeType==3){a=a.parents().slice(0,1)}if(a.filter(b).size()==1){return a}else{return a.parents(b).slice(0,1)}};WYMeditor.Helper={replaceAll:function(d,a,c){var b=new RegExp(a,"g");return(d.replace(b,c))},insertAt:function(b,a,c){return(b.substr(0,c)+a+b.substring(c))},trim:function(a){return a.replace(/^(\s*)|(\s*)$/gm,"")},contains:function(a,c){for(var b=0;b<a.length;b++){if(a[b]===c){return true}}return false},indexOf:function(a,d){var b=-1;for(var c=0;c<a.length;c++){if(a[c]==d){b=c;break}}return(b)},findByName:function(a,b){for(var c=0;c<a.length;c++){var d=a[c];if(d.name==b){return(d)}}return(null)}};WYMeditor.WymClassExplorer=function(a){this._wym=a;this._class="className";this._newLine="\r\n"};WYMeditor.WymClassExplorer.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentWindow.document;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);jQuery(this._doc.body).html(this._wym._html);var wym=this;this._doc.body.onfocus=function(){wym._doc.designMode="on";wym._doc=iframe.contentWindow.document};this._doc.onbeforedeactivate=function(){wym.saveCaret()};this._doc.onkeyup=function(){wym.saveCaret();wym.keyup()};this._doc.onclick=function(){wym.saveCaret()};this._doc.body.onbeforepaste=function(){wym._iframe.contentWindow.event.returnValue=false};this._doc.body.onpaste=function(){wym._iframe.contentWindow.event.returnValue=false;wym.paste(window.clipboardData.getData("Text"))};if(this._initialized){if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()}this._initialized=true;this._doc.designMode="on";try{this._doc=iframe.contentWindow.document}catch(e){}};WYMeditor.WymClassExplorer.prototype._exec=function(c,d){switch(c){case WYMeditor.INDENT:case WYMeditor.OUTDENT:var a=this.findUp(this.container(),WYMeditor.LI);if(a){var b=a.parentNode.parentNode;if(a.parentNode.childNodes.length>1||b.tagName.toLowerCase()==WYMeditor.OL||b.tagName.toLowerCase()==WYMeditor.UL){this._doc.execCommand(c)}}break;default:if(d){this._doc.execCommand(c,false,d)}else{this._doc.execCommand(c)}break}this.listen()};WYMeditor.WymClassExplorer.prototype.selected=function(){var a=this._iframe.contentWindow.document.caretPos;if(a!=null){if(a.parentElement!=undefined){return(a.parentElement())}}};WYMeditor.WymClassExplorer.prototype.saveCaret=function(){this._doc.caretPos=this._doc.selection.createRange()};WYMeditor.WymClassExplorer.prototype.addCssRule=function(a,b){a.addRule(b.name,b.css)};WYMeditor.WymClassExplorer.prototype.insert=function(b){var a=this._doc.selection.createRange();if(jQuery(a.parentElement()).parents(this._options.iframeBodySelector).is("*")){try{a.pasteHTML(b)}catch(c){}}else{this.paste(b)}};WYMeditor.WymClassExplorer.prototype.wrap=function(d,b){var a=this._doc.selection.createRange();if(jQuery(a.parentElement()).parents(this._options.iframeBodySelector).is("*")){try{a.pasteHTML(d+a.text+b)}catch(c){}}};WYMeditor.WymClassExplorer.prototype.unwrap=function(){var a=this._doc.selection.createRange();if(jQuery(a.parentElement()).parents(this._options.iframeBodySelector).is("*")){try{var c=a.text;this._exec("Cut");a.pasteHTML(c)}catch(b){}}};WYMeditor.WymClassExplorer.prototype.keyup=function(){this._selected_image=null};WYMeditor.WymClassExplorer.prototype.setFocusToNode=function(b){var a=this._doc.selection.createRange();a.moveToElementText(b);a.collapse(false);a.move("character",-1);a.select();b.focus()};WYMeditor.WymClassMozilla=function(a){this._wym=a;this._class="class";this._newLine="\n"};WYMeditor.WymClassMozilla.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentDocument;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);this.html(this._wym._html);this.enableDesignMode();if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();jQuery(this._doc).bind("keydown",this.keydown);jQuery(this._doc).bind("keyup",this.keyup);jQuery(this._doc).bind("focus",this.enableDesignMode);if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()};WYMeditor.WymClassMozilla.prototype.html=function(a){if(typeof a==="string"){try{this._doc.designMode="off"}catch(b){}a=a.replace(/<em(\b[^>]*)>/gi,"<i$1>").replace(/<\/em>/gi,"</i>").replace(/<strong(\b[^>]*)>/gi,"<b$1>").replace(/<\/strong>/gi,"</b>");jQuery(this._doc.body).html(a);this.enableDesignMode()}else{return(jQuery(this._doc.body).html())}};WYMeditor.WymClassMozilla.prototype._exec=function(e,g){if(!this.selected()){return(false)}switch(e){case WYMeditor.INDENT:case WYMeditor.OUTDENT:var f=this.selected();var d=this._iframe.contentWindow.getSelection();var b=d.anchorNode;if(b.nodeName=="#text"){b=b.parentNode}f=this.findUp(f,WYMeditor.BLOCKS);b=this.findUp(b,WYMeditor.BLOCKS);if(f&&f==b&&f.tagName.toLowerCase()==WYMeditor.LI){var c=f.parentNode.parentNode;if(f.parentNode.childNodes.length>1||c.tagName.toLowerCase()==WYMeditor.OL||c.tagName.toLowerCase()==WYMeditor.UL){this._doc.execCommand(e,"",null)}}break;default:if(g){this._doc.execCommand(e,"",g)}else{this._doc.execCommand(e,"",null)}}var a=this.selected();if(a.tagName.toLowerCase()==WYMeditor.BODY){this._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}this.listen()};WYMeditor.WymClassMozilla.prototype.selected=function(){var b=this._iframe.contentWindow.getSelection();var a=b.focusNode;if(a){if(a.nodeName=="#text"){return(a.parentNode)}else{return(a)}}else{return(null)}};WYMeditor.WymClassMozilla.prototype.addCssRule=function(a,b){a.insertRule(b.name+" {"+b.css+"}",a.cssRules.length)};WYMeditor.WymClassMozilla.prototype.keydown=function(b){var f=WYMeditor.INSTANCES[this.title];var a=null;if(b.keyCode===WYMeditor.KEY.ENTER){a=f.selected();if(a){var g=$(a),e=g.parent(),d=g.parents(".embedded-item");if(d.size()){var c=$("<p/>");if(g.hasClass("title")){d.before(c)}else{if(g.hasClass("content")){d.after(c)}}f.setFocusToNode(c.get(0));return false}}}if(b.ctrlKey){if(b.keyCode==66){f._exec(WYMeditor.BOLD);return false}if(b.keyCode==73){f._exec(WYMeditor.ITALIC);return false}}else{if(b.keyCode==13){if(!b.shiftKey){a=f.selected();if(a&&a.tagName.toLowerCase()==WYMeditor.PRE){b.preventDefault();f.insert("<p></p>")}}}}};WYMeditor.WymClassMozilla.prototype.keyup=function(b){var d=WYMeditor.INSTANCES[this.title];d._selected_image=null;var a=null;if(b.keyCode==13&&!b.shiftKey){jQuery(d._doc.body).children(WYMeditor.BR).remove()}else{if(b.keyCode!=8&&b.keyCode!=17&&b.keyCode!=46&&b.keyCode!=224&&!b.metaKey&&!b.ctrlKey){a=d.selected();var c=a.tagName.toLowerCase();if(c=="strong"||c=="b"||c=="em"||c=="i"||c=="sub"||c=="sup"||c=="a"){c=a.parentNode.tagName.toLowerCase()}if(c==WYMeditor.BODY){d._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}}}};WYMeditor.WymClassMozilla.prototype.enableDesignMode=function(){if(this.designMode=="off"){try{this.designMode="on";this.execCommand("styleWithCSS","",false)}catch(a){}}};WYMeditor.WymClassMozilla.prototype.setFocusToNode=function(c){var a=document.createRange();a.selectNode(c);var b=this._iframe.contentWindow.getSelection();b.addRange(a);b.collapse(c,c.childNodes.length);this._iframe.contentWindow.focus()};WYMeditor.WymClassMozilla.prototype.openBlockTag=function(a,c){var c=this.validator.getValidTagAttributes(a,c);if(a=="span"&&c.style){var b=this.getTagForStyle(c.style);if(b){this._tag_stack.pop();var a=b;this._tag_stack.push(b);c.style=""}else{return}}this.output+=this.helper.tag(a,c,true)};WYMeditor.WymClassMozilla.prototype.getTagForStyle=function(a){if(/bold/.test(a)){return"strong"}if(/italic/.test(a)){return"em"}if(/sub/.test(a)){return"sub"}if(/sub/.test(a)){return"super"}return false};WYMeditor.WymClassOpera=function(a){this._wym=a;this._class="class";this._newLine="\r\n"};WYMeditor.WymClassOpera.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentWindow.document;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);this._doc.designMode="on";this.html(this._wym._html);if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();jQuery(this._doc).bind("keydown",this.keydown);jQuery(this._doc).bind("keyup",this.keyup);if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()};WYMeditor.WymClassOpera.prototype._exec=function(a,b){if(b){this._doc.execCommand(a,false,b)}else{this._doc.execCommand(a)}this.listen()};WYMeditor.WymClassOpera.prototype.selected=function(){var b=this._iframe.contentWindow.getSelection();var a=b.focusNode;if(a){if(a.nodeName=="#text"){return(a.parentNode)}else{return(a)}}else{return(null)}};WYMeditor.WymClassOpera.prototype.addCssRule=function(a,b){a.insertRule(b.name+" {"+b.css+"}",a.cssRules.length)};WYMeditor.WymClassOpera.prototype.keydown=function(a){var c=WYMeditor.INSTANCES[this.title];var b=c._iframe.contentWindow.getSelection();startNode=b.getRangeAt(0).startContainer;if(!jQuery(startNode).parentsOrSelf(WYMeditor.MAIN_CONTAINERS.join(","))[0]&&!jQuery(startNode).parentsOrSelf("li")&&a.keyCode!=WYMeditor.KEY.ENTER&&a.keyCode!=WYMeditor.KEY.LEFT&&a.keyCode!=WYMeditor.KEY.UP&&a.keyCode!=WYMeditor.KEY.RIGHT&&a.keyCode!=WYMeditor.KEY.DOWN&&a.keyCode!=WYMeditor.KEY.BACKSPACE&&a.keyCode!=WYMeditor.KEY.DELETE){c._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}};WYMeditor.WymClassOpera.prototype.keyup=function(a){var b=WYMeditor.INSTANCES[this.title];b._selected_image=null};WYMeditor.WymClassOpera.prototype.setFocusToNode=function(a){};WYMeditor.WymClassSafari=function(a){this._wym=a;this._class="class";this._newLine="\n"};WYMeditor.WymClassSafari.prototype.initIframe=function(iframe){this._iframe=iframe;this._doc=iframe.contentDocument;var styles=this._doc.styleSheets[0];var aCss=eval(this._options.editorStyles);this.addCssRules(this._doc,aCss);this._doc.title=this._wym._index;jQuery("html",this._doc).attr("dir",this._options.direction);this._doc.designMode="on";this.html(this._wym._html);if(jQuery.isFunction(this._options.preBind)){this._options.preBind(this)}this._wym.bindEvents();jQuery(this._doc).bind("keydown",this.keydown);jQuery(this._doc).bind("keyup",this.keyup);if(jQuery.isFunction(this._options.postInit)){this._options.postInit(this)}this.listen()};WYMeditor.WymClassSafari.prototype._exec=function(e,g){if(!this.selected()){return(false)}switch(e){case WYMeditor.INDENT:case WYMeditor.OUTDENT:var f=this.selected();var d=this._iframe.contentWindow.getSelection();var b=d.anchorNode;if(b.nodeName=="#text"){b=b.parentNode}f=this.findUp(f,WYMeditor.BLOCKS);b=this.findUp(b,WYMeditor.BLOCKS);if(f&&f==b&&f.tagName.toLowerCase()==WYMeditor.LI){var c=f.parentNode.parentNode;if(f.parentNode.childNodes.length>1||c.tagName.toLowerCase()==WYMeditor.OL||c.tagName.toLowerCase()==WYMeditor.UL){this._doc.execCommand(e,"",null)}}break;case WYMeditor.INSERT_ORDEREDLIST:case WYMeditor.INSERT_UNORDEREDLIST:this._doc.execCommand(e,"",null);var f=this.selected();var a=this.findUp(f,WYMeditor.MAIN_CONTAINERS);if(a){jQuery(a).replaceWith(jQuery(a).html())}break;default:if(g){this._doc.execCommand(e,"",g)}else{this._doc.execCommand(e,"",null)}}var a=this.selected();if(a&&a.tagName.toLowerCase()==WYMeditor.BODY){this._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}this.listen()};WYMeditor.WymClassSafari.prototype.selected=function(){var b=this._iframe.contentWindow.getSelection();var a=b.focusNode;if(a){if(a.nodeName=="#text"){return(a.parentNode)}else{return(a)}}else{return(null)}};WYMeditor.WymClassSafari.prototype.addCssRule=function(a,b){a.insertRule(b.name+" {"+b.css+"}",a.cssRules.length)};WYMeditor.WymClassSafari.prototype.keydown=function(b){var f=WYMeditor.INSTANCES[this.title];if(b.keyCode===WYMeditor.KEY.ENTER){var a=f.selected();if(a){var g=$(a),e=g.parent(),d=g.parents(".embedded-item");if(d.size()){var c=$("<p/>");if(g.hasClass("title")){d.before(c)}else{if(g.hasClass("content")){d.after(c)}}f.setFocusToNode(c.get(0));return false}}}if(b.ctrlKey){if(b.keyCode==66){f._exec(WYMeditor.BOLD);return false}if(b.keyCode==73){f._exec(WYMeditor.ITALIC);return false}}};WYMeditor.WymClassSafari.prototype.keyup=function(b){var d=WYMeditor.INSTANCES[this.title];d._selected_image=null;var a=null;if(b.keyCode==13&&!b.shiftKey){jQuery(d._doc.body).children(WYMeditor.BR).remove();a=d.selected();if(a&&a.tagName.toLowerCase()==WYMeditor.PRE){d._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}}if(b.keyCode==13&&b.shiftKey){d._exec("InsertLineBreak")}if(b.keyCode!=8&&b.keyCode!=17&&b.keyCode!=46&&b.keyCode!=224&&!b.metaKey&&!b.ctrlKey){a=d.selected();var c=a.tagName.toLowerCase();if(c=="strong"||c=="b"||c=="em"||c=="i"||c=="sub"||c=="sup"||c=="a"||c=="span"){c=a.parentNode.tagName.toLowerCase()}if(c==WYMeditor.BODY||c==WYMeditor.DIV){d._exec(WYMeditor.FORMAT_BLOCK,WYMeditor.P)}}};WYMeditor.WymClassSafari.prototype.setFocusToNode=function(c){var a=this._iframe.contentDocument.createRange();a.selectNode(c);var b=this._iframe.contentWindow.getSelection();b.addRange(a);b.collapse(c,c.childNodes.length);this._iframe.contentWindow.focus()};WYMeditor.WymClassSafari.prototype.openBlockTag=function(a,c){var c=this.validator.getValidTagAttributes(a,c);if(a=="span"&&c.style){var b=this.getTagForStyle(c.style);if(b){this._tag_stack.pop();var a=b;this._tag_stack.push(b);c.style="";if(typeof c["class"]=="string"){c["class"]=c["class"].replace(/apple-style-span/gi,"")}}else{return}}this.output+=this.helper.tag(a,c,true)};WYMeditor.WymClassSafari.prototype.getTagForStyle=function(a){if(/bold/.test(a)){return"strong"}if(/italic/.test(a)){return"em"}if(/sub/.test(a)){return"sub"}if(/super/.test(a)){return"sup"}return false}; \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: 2 new changesets
by commits-noreply＠bitbucket.org 26 Feb '14

26 Feb '14

2 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/61ea14f9a8b6/ Changeset: 61ea14f9a8b6 User: davebgx Date: 2014-02-26 16:19:48 Summary: Fix missing parenthesis. Affected #: 1 file diff -r 070086f7eb7f71ec4324eb9892a56a6028eb3628 -r 61ea14f9a8b62bc891c638329e91b4aee347db0d lib/tool_shed/galaxy_install/tool_dependencies/install_util.py --- a/lib/tool_shed/galaxy_install/tool_dependencies/install_util.py +++ b/lib/tool_shed/galaxy_install/tool_dependencies/install_util.py @@ -350,7 +350,7 @@ tool_dependency_type='package' ) if not can_install_tool_dependency: log.debug( "Tool dependency %s version %s cannot be installed (it was probably previously installed), so returning it." % \ - ( str( tool_dependency.name, str( tool_dependency.version ) ) ) ) + ( str( tool_dependency.name ), str( tool_dependency.version ) ) ) return tool_dependency else: can_install_tool_dependency = True https://bitbucket.org/galaxy/galaxy-central/commits/a24050956e78/ Changeset: a24050956e78 User: davebgx Date: 2014-02-26 16:20:44 Summary: Use log instead of print for tool dependency installation processes' stdout and stderr, since twill redirects those streams to a StringIO object. Affected #: 1 file diff -r 61ea14f9a8b62bc891c638329e91b4aee347db0d -r a24050956e787690b7a37564a932fdfb194cdb6a lib/tool_shed/galaxy_install/tool_dependencies/fabric_util.py --- a/lib/tool_shed/galaxy_install/tool_dependencies/fabric_util.py +++ b/lib/tool_shed/galaxy_install/tool_dependencies/fabric_util.py @@ -162,14 +162,16 @@ is printed and saved to that thread's queue. The calling thread can then retrieve the data using thread.stdout and thread.stderr. """ + stdout_logger = logging.getLogger( 'fabric_util.STDOUT' ) + stderr_logger = logging.getLogger( 'fabric_util.STDERR' ) for line in iter( stdout.readline, '' ): output = line.rstrip() - print output + stdout_logger.debug( output ) stdout_queue.put( output ) stdout_queue.put( None ) for line in iter( stderr.readline, '' ): output = line.rstrip() - print output + stderr_logger.debug( output ) stderr_queue.put( output ) stderr_queue.put( None ) Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: dan: Fix for uninstalling a ToolShed tool repository revision with a tool with multiple versions installed not properly replacing with the still existing tool version in the tool panel.
by commits-noreply＠bitbucket.org 25 Feb '14

25 Feb '14

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/070086f7eb7f/ Changeset: 070086f7eb7f User: dan Date: 2014-02-25 23:36:59 Summary: Fix for uninstalling a ToolShed tool repository revision with a tool with multiple versions installed not properly replacing with the still existing tool version in the tool panel. Affected #: 1 file diff -r db5c4a4c9699f304ee1e18854a7f402b790353e6 -r 070086f7eb7f71ec4324eb9892a56a6028eb3628 lib/tool_shed/util/tool_util.py --- a/lib/tool_shed/util/tool_util.py +++ b/lib/tool_shed/util/tool_util.py @@ -1017,7 +1017,8 @@ replacement_tool_version = None # Since we are going to remove the tool from the section, replace it with the newest loaded version of the tool. for available_tool_version in available_tool_versions: - if available_tool_version.id in tool_section.elems.keys(): + available_tool_section_id, available_tool_section_name = available_tool_version.get_panel_section() + if available_tool_version.id in tool_section.elems.keys() or section_key == available_tool_section_id: replacement_tool_key = 'tool_%s' % str( available_tool_version.id ) replacement_tool_version = available_tool_version break @@ -1057,7 +1058,8 @@ replacement_tool_version = None # Since we are going to remove the tool from the section, replace it with the newest loaded version of the tool. for available_tool_version in available_tool_versions: - if available_tool_version.id in trans.app.toolbox.tool_panel.keys(): + available_tool_section_id, available_tool_section_name = available_tool_version.get_panel_section() + if available_tool_version.id in trans.app.toolbox.tool_panel.keys() or not available_tool_section_id: replacement_tool_key = 'tool_%s' % str( available_tool_version.id ) replacement_tool_version = available_tool_version break Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

1 0

commit/galaxy-central: 2 new changesets
by commits-noreply＠bitbucket.org 25 Feb '14

25 Feb '14

2 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/cf7ff18cb357/ Changeset: cf7ff18cb357 Branch: stable User: jeremy goecks Date: 2014-02-25 22:43:18 Summary: Trackster bug fixes: (a) ignore arrow keys in location textbox; (b) set title for location textbox; and (c) test low and high correctly when changing location. Pack scripts. Affected #: 4 files diff -r c1bd56cbe034548518eb87463e1524b45fc6b52a -r cf7ff18cb3573c42c4bd77459112b40298df0ff6 static/scripts/packed/viz/trackster/tracks.js --- a/static/scripts/packed/viz/trackster/tracks.js +++ b/static/scripts/packed/viz/trackster/tracks.js @@ -1,1 +1,1 @@ -define(["libs/underscore","viz/visualization","viz/trackster/util","viz/trackster/slotting","viz/trackster/painters","viz/trackster/filters","mvc/data","mvc/tools"],function(ab,y,l,u,L,i,X,R){var q=ab.extend;var n={};var k=function(ac,ad){n[ac.attr("id")]=ad};var m=function(ac,ad,af,ae){af=".group";n[ac.attr("id")]=ae;ac.bind("drag",{handle:"."+ad,relative:true},function(an,ao){var am=$(this),ar=$(this).parent(),aj=ar.children(".track,.group"),al=n[$(this).attr("id")],ai,ah,ap,ag,ak;ah=$(this).parents(af);if(ah.length!==0){ap=ah.position().top;ag=ap+ah.outerHeight();var aq=n[ah.attr("id")];if(ao.offsetY<ap){$(this).insertBefore(ah);aq.remove_drawable(al);aq.container.add_drawable_before(al,aq);return}else{if(ao.offsetY>ag){$(this).insertAfter(ah);aq.remove_drawable(al);aq.container.add_drawable(al);return}}}ah=null;for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));ap=ai.position().top;ag=ap+ai.outerHeight();if(ai.is(af)&&this!==ai.get(0)&&ao.offsetY>=ap&&ao.offsetY<=ag){if(ao.offsetY-ap<ag-ao.offsetY){ai.find(".content-div").prepend(this)}else{ai.find(".content-div").append(this)}if(al.container){al.container.remove_drawable(al)}n[ai.attr("id")].add_drawable(al);return}}for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));if(ao.offsetY<ai.position().top&&!(ai.hasClass("reference-track")||ai.hasClass("intro"))){break}}if(ak===aj.length){if(this!==aj.get(ak-1)){ar.append(this);n[ar.attr("id")].move_drawable(al,ak)}}else{if(this!==aj.get(ak)){$(this).insertBefore(aj.get(ak));n[ar.attr("id")].move_drawable(al,(ao.deltaY>0?ak-1:ak))}}}).bind("dragstart",function(){$(this).addClass("dragging")}).bind("dragend",function(){$(this).removeClass("dragging")})};var F=20,B=100,I=12000,S=400,K=5000,x=100,o="Cannot display dataset due to an error. ",J="A converter for this dataset is not installed. Please check your datatypes_conf.xml file.",G="No data for this chrom/contig.",w="Preparing data. This can take a while for a large dataset. If the visualization is saved and closed, preparation will continue in the background.",z="Tool cannot be rerun: ",b="Loading data...",U="Ready for display",Q=10,H=20,C=["Histogram","Line","Filled","Intensity"];function V(ad,ac){if(!ac){ac=0}var ae=Math.pow(10,ac);return Math.round(ad*ae)/ae}var r=function(ad,ac,af){if(!r.id_counter){r.id_counter=0}this.id=r.id_counter++;this.view=ad;this.container=ac;this.drag_handle_class=af.drag_handle_class;this.is_overview=false;this.action_icons={};this.config=new j({params:this.config_params,onchange:this.config_onchange,saved_values:af.prefs});this.prefs=this.config.get("values");if(!this.prefs.name){this.prefs.name=af.name}if(this.config_onchange){this.config.on("change:values",this.config_onchange,this)}this.container_div=this.build_container_div();this.header_div=this.build_header_div();if(this.header_div){this.container_div.append(this.header_div);this.icons_div=$("<div/>").addClass("track-icons").hide().appendTo(this.header_div);this.build_action_icons(this.action_icons_def);this.header_div.append($("<div style='clear: both'/>"));this.header_div.dblclick(function(ag){ag.stopPropagation()});var ae=this;this.container_div.hover(function(){ae.icons_div.show()},function(){ae.icons_div.hide()});$("<div style='clear: both'/>").appendTo(this.container_div)}};r.prototype.action_icons_def=[{name:"toggle_icon",title:"Hide/show content",css_class:"toggle",on_click_fn:function(ac){if(ac.prefs.content_visible){ac.action_icons.toggle_icon.addClass("toggle-expand").removeClass("toggle");ac.hide_contents();ac.prefs.content_visible=false}else{ac.action_icons.toggle_icon.addClass("toggle").removeClass("toggle-expand");ac.prefs.content_visible=true;ac.show_contents()}}},{name:"settings_icon",title:"Edit settings",css_class:"gear",on_click_fn:function(ad){var ac=new a({model:ad.config});ac.render()}},{name:"remove_icon",title:"Remove",css_class:"remove-icon",on_click_fn:function(ac){$(".tooltip").remove();ac.remove()}}];q(r.prototype,{config_params:[{key:"name",label:"Name",type:"text",default_value:""},{key:"content_visible",type:"bool",default_value:true,hidden:true}],config_onchange:function(){this.track.set_name(this.track.config.get("values").name)},init:function(){},changed:function(){this.view.changed()},can_draw:function(){if(this.enabled&&this.prefs.content_visible){return true}return false},request_draw:function(){},_draw:function(ac){},to_dict:function(){},set_name:function(ac){this.old_name=this.prefs.name;this.prefs.name=ac;this.name_div.text(this.prefs.name)},revert_name:function(){if(this.old_name){this.prefs.name=this.old_name;this.name_div.text(this.prefs.name)}},remove:function(){this.changed();this.container.remove_drawable(this);var ac=this.view;this.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})},build_container_div:function(){},build_header_div:function(){},add_action_icon:function(ad,ai,ah,ag,ac,af){var ae=this;this.action_icons[ad]=$("<a/>").attr("title",ai).addClass("icon-button").addClass(ah).tooltip().click(function(){ag(ae)}).appendTo(this.icons_div);if(af){this.action_icons[ad].hide()}},build_action_icons:function(ac){var ae;for(var ad=0;ad<ac.length;ad++){ae=ac[ad];this.add_action_icon(ae.name,ae.title,ae.css_class,ae.on_click_fn,ae.prepend,ae.hide)}},update_icons:function(){},hide_contents:function(){},show_contents:function(){},get_drawables:function(){}});var A=function(ad,ac,ae){r.call(this,ad,ac,ae);this.obj_type=ae.obj_type;this.drawables=[]};q(A.prototype,r.prototype,{unpack_drawables:function(ae){this.drawables=[];var ad;for(var ac=0;ac<ae.length;ac++){ad=p(ae[ac],this.view,this);this.add_drawable(ad)}},init:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].init()}},_draw:function(ac){for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad]._draw(ac)}},to_dict:function(){var ad=[];for(var ac=0;ac<this.drawables.length;ac++){ad.push(this.drawables[ac].to_dict())}return{prefs:this.prefs,obj_type:this.obj_type,drawables:ad}},add_drawable:function(ac){this.drawables.push(ac);ac.container=this;this.changed()},add_drawable_before:function(ae,ac){this.changed();var ad=this.drawables.indexOf(ac);if(ad!==-1){this.drawables.splice(ad,0,ae);return true}return false},replace_drawable:function(ae,ac,ad){var af=this.drawables.indexOf(ae);if(af!==-1){this.drawables[af]=ac;if(ad){ae.container_div.replaceWith(ac.container_div)}this.changed()}return af},remove_drawable:function(ad){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);ad.container=null;this.changed();return true}return false},move_drawable:function(ad,ae){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);this.drawables.splice(ae,0,ad);this.changed();return true}return false},get_drawables:function(){return this.drawables},get_tracks:function(af){var ac=this.drawables.slice(0),ad=[],ae;while(ac.length!==0){ae=ac.shift();if(ae instanceof af){ad.push(ae)}else{if(ae.drawables){ac=ac.concat(ae.drawables)}}}return ad}});var P=function(ad,ac,af){q(af,{obj_type:"DrawableGroup",drag_handle_class:"group-handle"});A.call(this,ad,ac,af);this.content_div=$("<div/>").addClass("content-div").attr("id","group_"+this.id+"_content_div").appendTo(this.container_div);k(this.container_div,this);k(this.content_div,this);m(this.container_div,this.drag_handle_class,".group",this);this.filters_manager=new i.FiltersManager(this);this.header_div.after(this.filters_manager.parent_div);this.saved_filters_managers=[];if("drawables" in af){this.unpack_drawables(af.drawables)}if("filters" in af){var ae=this.filters_manager;this.filters_manager=new i.FiltersManager(this,af.filters);ae.parent_div.replaceWith(this.filters_manager.parent_div);if(af.filters.visible){this.setup_multitrack_filtering()}}};q(P.prototype,r.prototype,A.prototype,{action_icons_def:[r.prototype.action_icons_def[0],r.prototype.action_icons_def[1],{name:"composite_icon",title:"Show composite track",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_composite_track()}},{name:"filters_icon",title:"Filters",css_class:"filters-icon",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters();ac._restore_filter_managers()}else{ac.setup_multitrack_filtering();ac.request_draw({clear_tile_cache:true})}ac.filters_manager.toggle()}},r.prototype.action_icons_def[2]],build_container_div:function(){var ac=$("<div/>").addClass("group").attr("id","group_"+this.id);if(this.container){this.container.content_div.append(ac)}return ac},build_header_div:function(){var ac=$("<div/>").addClass("track-header");ac.append($("<div/>").addClass(this.drag_handle_class));this.name_div=$("<div/>").addClass("track-name").text(this.prefs.name).appendTo(ac);return ac},hide_contents:function(){this.tiles_div.hide()},show_contents:function(){this.tiles_div.show();this.request_draw()},update_icons:function(){var ae=this.drawables.length;if(ae===0){this.action_icons.composite_icon.hide();this.action_icons.filters_icon.hide()}else{if(ae===1){if(this.drawables[0] instanceof f){this.action_icons.composite_icon.show()}this.action_icons.filters_icon.hide()}else{var al,ak,ai,ao=true,ag=this.drawables[0].get_type(),ac=0;for(al=0;al<ae;al++){ai=this.drawables[al];if(ai.get_type()!==ag){can_composite=false;break}if(ai instanceof d){ac++}}if(ao||ac===1){this.action_icons.composite_icon.show()}else{this.action_icons.composite_icon.hide();$(".tooltip").remove()}if(ac>1&&ac===this.drawables.length){var ap={},ad;ai=this.drawables[0];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];ap[ad.name]=[ad]}for(al=1;al<this.drawables.length;al++){ai=this.drawables[al];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];if(ad.name in ap){ap[ad.name].push(ad)}}}this.filters_manager.remove_all();var af,ah,aj,am;for(var an in ap){af=ap[an];if(af.length===ac){ah=new i.NumberFilter({name:af[0].name,index:af[0].index});this.filters_manager.add_filter(ah)}}if(this.filters_manager.filters.length>0){this.action_icons.filters_icon.show()}else{this.action_icons.filters_icon.hide()}}else{this.action_icons.filters_icon.hide()}}}},_restore_filter_managers:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].filters_manager=this.saved_filters_managers[ac]}this.saved_filters_managers=[]},setup_multitrack_filtering:function(){if(this.filters_manager.filters.length>0){this.saved_filters_managers=[];for(var ac=0;ac<this.drawables.length;ac++){drawable=this.drawables[ac];this.saved_filters_managers.push(drawable.filters_manager);drawable.filters_manager=this.filters_manager}}this.filters_manager.init_filters()},show_composite_track:function(){var ad=new f(this.view,this.view,{name:this.prefs.name,drawables:this.drawables});var ac=this.container.replace_drawable(this,ad,true);ad.request_draw()},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);this.update_icons()},remove_drawable:function(ac){A.prototype.remove_drawable.call(this,ac);this.update_icons()},to_dict:function(){if(this.filters_manager.visible()){this._restore_filter_managers()}var ac=q(A.prototype.to_dict.call(this),{filters:this.filters_manager.to_dict()});if(this.filters_manager.visible()){this.setup_multitrack_filtering()}return ac},request_draw:function(ac){ab.each(this.drawables,function(ad){ad.request_draw(ac)})}});var Y=Backbone.View.extend({initialize:function(ac){q(ac,{obj_type:"View"});A.call(this,"View",ac.container,ac);this.chrom=null;this.vis_id=ac.vis_id;this.dbkey=ac.dbkey;this.label_tracks=[];this.tracks_to_be_redrawn=[];this.max_low=0;this.max_high=0;this.zoom_factor=3;this.min_separation=30;this.has_changes=false;this.load_chroms_deferred=null;this.render();this.canvas_manager=new y.CanvasManager(this.container.get(0).ownerDocument);this.reset();this.config=new j({track:this,params:[{key:"a_color",label:"A Color",type:"color",default_value:"#FF0000"},{key:"c_color",label:"C Color",type:"color",default_value:"#00FF00"},{key:"g_color",label:"G Color",type:"color",default_value:"#0000FF"},{key:"t_color",label:"T Color",type:"color",default_value:"#FF00FF"},{key:"n_color",label:"N Color",type:"color",default_value:"#AAAAAA"}],saved_values:ac.prefs,onchange:function(){track.request_redraw({clear_tile_cache:true})}})},render:function(){this.requested_redraw=false;var ae=this.container,ac=this;this.top_container=$("<div/>").addClass("top-container").appendTo(ae);this.browser_content_div=$("<div/>").addClass("content").appendTo(ae);this.bottom_container=$("<div/>").addClass("bottom-container").appendTo(ae);this.top_labeltrack=$("<div/>").addClass("top-labeltrack").appendTo(this.top_container);this.viewport_container=$("<div/>").addClass("viewport-container").attr("id","viewport-container").appendTo(this.browser_content_div);this.content_div=this.viewport_container;k(this.viewport_container,ac);this.intro_div=$("<div/>").addClass("intro").appendTo(this.viewport_container).hide();var af=$("<div/>").text("Add Datasets to Visualization").addClass("action-button").appendTo(this.intro_div).click(function(){y.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":ac.dbkey},function(ag){ab.each(ag,function(ah){ac.add_drawable(p(ah,ac,ac))})})});this.nav_labeltrack=$("<div/>").addClass("nav-labeltrack").appendTo(this.bottom_container);this.nav_container=$("<div/>").addClass("trackster-nav-container").prependTo(this.top_container);this.nav=$("<div/>").addClass("trackster-nav").appendTo(this.nav_container);this.overview=$("<div/>").addClass("overview").appendTo(this.bottom_container);this.overview_viewport=$("<div/>").addClass("overview-viewport").appendTo(this.overview);this.overview_close=$("<a/>").attr("title","Close overview").addClass("icon-button overview-close tooltip").hide().appendTo(this.overview_viewport);this.overview_highlight=$("<div/>").addClass("overview-highlight").hide().appendTo(this.overview_viewport);this.overview_box_background=$("<div/>").addClass("overview-boxback").appendTo(this.overview_viewport);this.overview_box=$("<div/>").addClass("overview-box").appendTo(this.overview_viewport);this.default_overview_height=this.overview_box.height();this.nav_controls=$("<div/>").addClass("nav-controls").appendTo(this.nav);this.chrom_select=$("<select/>").attr({name:"chrom"}).addClass("chrom-nav").append("<option value=''>Loading</option>").appendTo(this.nav_controls);var ad=function(ag){if(ag.type==="focusout"||(ag.keyCode||ag.which)===13||(ag.keyCode||ag.which)===27){if((ag.keyCode||ag.which)!==27){ac.go_to($(this).val())}$(this).hide();$(this).val("");ac.location_span.show();ac.chrom_select.show()}};this.nav_input=$("<input/>").addClass("nav-input").hide().bind("keyup focusout",ad).appendTo(this.nav_controls);this.location_span=$("<span/>").addClass("location").attr("original-title","Click to change location").tooltip({placement:"bottom"}).appendTo(this.nav_controls);this.location_span.click(function(){ac.location_span.hide();ac.chrom_select.hide();ac.nav_input.val(ac.chrom+":"+ac.low+"-"+ac.high);ac.nav_input.css("display","inline-block");ac.nav_input.select();ac.nav_input.focus();ac.nav_input.autocomplete({source:function(ai,ag){var aj=[],ah=$.map(ac.get_tracks(d),function(ak){return ak.data_manager.search_features(ai.term).success(function(al){aj=aj.concat(al)})});$.when.apply($,ah).done(function(){ag($.map(aj,function(ak){return{label:ak[0],value:ak[1]}}))})}})});if(this.vis_id!==undefined){this.hidden_input=$("<input/>").attr("type","hidden").val(this.vis_id).appendTo(this.nav_controls)}this.zo_link=$("<a/>").attr("id","zoom-out").attr("title","Zoom out").tooltip({placement:"bottom"}).click(function(){ac.zoom_out()}).appendTo(this.nav_controls);this.zi_link=$("<a/>").attr("id","zoom-in").attr("title","Zoom in").tooltip({placement:"bottom"}).click(function(){ac.zoom_in()}).appendTo(this.nav_controls);this.load_chroms_deferred=this.load_chroms({low:0});this.chrom_select.bind("change",function(){ac.change_chrom(ac.chrom_select.val())});this.browser_content_div.click(function(ag){$(this).find("input").trigger("blur")});this.browser_content_div.bind("dblclick",function(ag){ac.zoom_in(ag.pageX,this.viewport_container)});this.overview_box.bind("dragstart",function(ag,ah){this.current_x=ah.offsetX}).bind("drag",function(ag,ai){var aj=ai.offsetX-this.current_x;this.current_x=ai.offsetX;var ah=Math.round(aj/ac.viewport_container.width()*(ac.max_high-ac.max_low));ac.move_delta(-ah)});this.overview_close.click(function(){ac.reset_overview()});this.viewport_container.bind("draginit",function(ag,ah){if(ag.clientX>ac.viewport_container.width()-16){return false}}).bind("dragstart",function(ag,ah){ah.original_low=ac.low;ah.current_height=ag.clientY;ah.current_x=ah.offsetX}).bind("drag",function(ai,ak){var ag=$(this);var al=ak.offsetX-ak.current_x;var ah=ag.scrollTop()-(ai.clientY-ak.current_height);ag.scrollTop(ah);ak.current_height=ai.clientY;ak.current_x=ak.offsetX;var aj=Math.round(al/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}).bind("mousewheel",function(ai,ak,ah,ag){if(ah){ah*=50;var aj=Math.round(-ah/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}});this.top_labeltrack.bind("dragstart",function(ag,ah){return $("<div/>").addClass("zoom-area").css("height",ac.browser_content_div.height()+ac.top_labeltrack.height()+ac.nav_labeltrack.height()+1).appendTo($(this))}).bind("drag",function(ak,al){$(al.proxy).css({left:Math.min(ak.pageX,al.startX)-ac.container.offset().left,width:Math.abs(ak.pageX-al.startX)});var ah=Math.min(ak.pageX,al.startX)-ac.container.offset().left,ag=Math.max(ak.pageX,al.startX)-ac.container.offset().left,aj=(ac.high-ac.low),ai=ac.viewport_container.width();ac.update_location(Math.round(ah/ai*aj)+ac.low,Math.round(ag/ai*aj)+ac.low)}).bind("dragend",function(al,am){var ah=Math.min(al.pageX,am.startX),ag=Math.max(al.pageX,am.startX),aj=(ac.high-ac.low),ai=ac.viewport_container.width(),ak=ac.low;ac.low=Math.round(ah/ai*aj)+ak;ac.high=Math.round(ag/ai*aj)+ak;$(am.proxy).remove();ac.request_redraw()});this.add_label_track(new W(this,{content_div:this.top_labeltrack}));this.add_label_track(new W(this,{content_div:this.nav_labeltrack}));$(window).bind("resize",function(){if(this.resize_timer){clearTimeout(this.resize_timer)}this.resize_timer=setTimeout(function(){ac.resize_window()},500)});$(document).bind("redraw",function(){ac.redraw()});this.reset();$(window).trigger("resize")},get_base_color:function(ac){return this.config.get("values")[ac.toLowerCase()+"_color"]||this.config.get("values").n_color}});q(Y.prototype,A.prototype,{changed:function(){this.has_changes=true},update_intro_div:function(){if(this.drawables.length===0){this.intro_div.show()}else{this.intro_div.hide()}},trigger_navigate:function(ad,af,ac,ag){if(this.timer){clearTimeout(this.timer)}if(ag){var ae=this;this.timer=setTimeout(function(){ae.trigger("navigate",ad+":"+af+"-"+ac)},500)}else{view.trigger("navigate",ad+":"+af+"-"+ac)}},update_location:function(ac,ae){this.location_span.text(commatize(ac)+" - "+commatize(ae));this.nav_input.val(this.chrom+":"+commatize(ac)+"-"+commatize(ae));var ad=view.chrom_select.val();if(ad!==""){this.trigger_navigate(ad,view.low,view.high,true)}},load_chroms:function(ae){ae.num=x;var ac=this,ad=$.Deferred();$.ajax({url:galaxy_config.root+"api/genomes/"+this.dbkey,data:ae,dataType:"json",success:function(ag){if(ag.chrom_info.length===0){return}if(ag.reference){var ah=new D(ac);ac.add_label_track(ah);ac.reference_track=ah}ac.chrom_data=ag.chrom_info;var ak='<option value="">Select Chrom/Contig</option>';for(var aj=0,af=ac.chrom_data.length;aj<af;aj++){var ai=ac.chrom_data[aj].chrom;ak+='<option value="'+ai+'">'+ai+"</option>"}if(ag.prev_chroms){ak+='<option value="previous">Previous '+x+"</option>"}if(ag.next_chroms){ak+='<option value="next">Next '+x+"</option>"}ac.chrom_select.html(ak);ac.chrom_start_index=ag.start_index;ad.resolve(ag.chrom_info)},error:function(){alert("Could not load chroms for this dbkey: "+ac.dbkey)}});return ad},change_chrom:function(ah,ad,aj){var ae=this;if(!ae.chrom_data){ae.load_chroms_deferred.then(function(){ae.change_chrom(ah,ad,aj)});return}if(!ah||ah==="None"){return}if(ah==="previous"){ae.load_chroms({low:this.chrom_start_index-x});return}if(ah==="next"){ae.load_chroms({low:this.chrom_start_index+x});return}var ai=$.grep(ae.chrom_data,function(ak,al){return ak.chrom===ah})[0];if(ai===undefined){ae.load_chroms({chrom:ah},function(){ae.change_chrom(ah,ad,aj)});return}else{if(ah!==ae.chrom){ae.chrom=ah;ae.chrom_select.val(ae.chrom);ae.max_high=ai.len-1;ae.reset();for(var ag=0,ac=ae.drawables.length;ag<ac;ag++){var af=ae.drawables[ag];if(af.init){af.init()}}if(ae.reference_track){ae.reference_track.init()}}if(ad&&aj){ae.low=Math.max(ad,0);ae.high=Math.min(aj,ae.max_high)}else{ae.low=0;ae.high=ae.max_high}ae.reset_overview();ae.request_redraw()}},go_to:function(ag){ag=ag.replace(/,/g,"");ag=ag.replace(/:|\-/g," ");var ad=ag.split(/\s+/),af=ad[0],ae=(ad[1]?parseInt(ad[1],10):null),ac=(ad[2]?parseInt(ad[2],10):null);if(!ac){ae=ae-15;ac=ae+15}this.change_chrom(af,ae,ac)},move_fraction:function(ae){var ac=this;var ad=ac.high-ac.low;this.move_delta(ae*ad)},move_delta:function(af){var ac=this;var ae=ac.high-ac.low;if(ac.low-af<ac.max_low){ac.low=ac.max_low;ac.high=ac.max_low+ae}else{if(ac.high-af>ac.max_high){ac.high=ac.max_high;ac.low=ac.max_high-ae}else{ac.high-=af;ac.low-=af}}ac.request_redraw({data_fetch:false});if(this.redraw_on_move_fn){clearTimeout(this.redraw_on_move_fn)}this.redraw_on_move_fn=setTimeout(function(){ac.request_redraw()},200);var ad=ac.chrom_select.val();this.trigger_navigate(ad,ac.low,ac.high,true)},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);ac.init();this.changed();this.update_intro_div()},add_label_track:function(ac){ac.view=this;ac.init();this.label_tracks.push(ac)},remove_drawable:function(ae,ad){A.prototype.remove_drawable.call(this,ae);if(ad){var ac=this;ae.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})}},reset:function(){this.low=this.max_low;this.high=this.max_high;this.viewport_container.find(".yaxislabel").remove()},request_redraw:function(ad,ae){var ac=this,af=(ae?[ae]:ac.drawables);ab.each(af,function(ag){var ah=ab.find(ac.tracks_to_be_redrawn,function(ai){return ai[0]===ag});if(ah){ah[1]=ad}else{ac.tracks_to_be_redrawn.push([ag,ad])}});if(!this.requested_redraw){requestAnimationFrame(function(){ac._redraw()});this.requested_redraw=true}},_redraw:function(){this.requested_redraw=false;var ac=this.low,ag=this.high;if(ac<this.max_low){ac=this.max_low}if(ag>this.max_high){ag=this.max_high}var ad=this.high-this.low;if(this.high!==0&&ad<this.min_separation){ag=ac+this.min_separation}this.low=Math.floor(ac);this.high=Math.ceil(ag);this.update_location(this.low,this.high);this.resolution_px_b=this.viewport_container.width()/(this.high-this.low);var af=(this.low/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ah=((this.high-this.low)/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ae=13;this.overview_box.css({left:af,width:Math.max(ae,ah)}).show();if(ah<ae){this.overview_box.css("left",af-(ae-ah)/2)}if(this.overview_highlight){this.overview_highlight.css({left:af,width:ah})}ab.each(this.tracks_to_be_redrawn,function(ak){var ai=ak[0],aj=ak[1];if(ai){ai._draw(aj)}});this.tracks_to_be_redrawn=[];ab.each(this.label_tracks,function(ai){ai._draw()})},zoom_in:function(ad,ae){if(this.max_high===0||this.high-this.low<=this.min_separation){return}var af=this.high-this.low,ag=af/2+this.low,ac=(af/this.zoom_factor)/2;if(ad){ag=ad/this.viewport_container.width()*(this.high-this.low)+this.low}this.low=Math.round(ag-ac);this.high=Math.round(ag+ac);this.changed();this.request_redraw()},zoom_out:function(){if(this.max_high===0){return}var ad=this.high-this.low,ae=ad/2+this.low,ac=(ad*this.zoom_factor)/2;this.low=Math.round(ae-ac);this.high=Math.round(ae+ac);this.changed();this.request_redraw()},resize_window:function(){this.viewport_container.height(this.container.height()-this.top_container.height()-this.bottom_container.height());this.request_redraw()},set_overview:function(ae){if(this.overview_drawable){if(this.overview_drawable.dataset.id===ae.dataset.id){return}this.overview_viewport.find(".track").remove()}var ad=ae.copy({content_div:this.overview_viewport}),ac=this;ad.header_div.hide();ad.is_overview=true;ac.overview_drawable=ad;this.overview_drawable.postdraw_actions=function(){ac.overview_highlight.show().height(ac.overview_drawable.content_div.height());ac.overview_viewport.height(ac.overview_drawable.content_div.height()+ac.overview_box.outerHeight());ac.overview_close.show();ac.resize_window()};ac.overview_drawable.request_draw();this.changed()},reset_overview:function(){$(".tooltip").remove();this.overview_viewport.find(".track-tile").remove();this.overview_viewport.height(this.default_overview_height);this.overview_box.height(this.default_overview_height);this.overview_close.hide();this.overview_highlight.hide();view.resize_window();view.overview_drawable=null}});var s=R.Tool.extend({defaults:{track:null},initialize:function(ac){R.Tool.prototype.initialize.call(this,ac);var ad=true;if(ac.tool_state!==undefined&&ac.tool_state.hidden!==undefined){ad=ac.tool_state.hidden}this.set("hidden",ad);this.remove_inputs(["data","hidden_data","conditional"])},state_dict:function(ac){return ab.extend(this.get_inputs_dict(),{hidden:!this.is_visible()})}});var v=Backbone.View.extend({events:{"change input":"update_value"},render:function(){var ae=this.$el.addClass("param-row"),af=this.model;var ac=$("<div>").addClass("param-label").text(af.get("label")).appendTo(ae);var ad=$("<div/>").addClass("param-input").html(af.get("html")).appendTo(ae);ad.find(":input").val(af.get("value"));$("<div style='clear: both;'/>").appendTo(ae)},update_value:function(ac){this.model.set_value($(ac.target).val())}});var aa=Backbone.View.extend({initialize:function(ac){this.model.on("change:hidden",this.set_visible,this)},render:function(){var ad=this;tool=this.model,parent_div=this.$el.addClass("dynamic-tool").hide();parent_div.bind("drag",function(ah){ah.stopPropagation()}).click(function(ah){ah.stopPropagation()}).bind("dblclick",function(ah){ah.stopPropagation()}).keydown(function(ah){ah.stopPropagation()});var ae=$("<div class='tool-name'>").appendTo(parent_div).text(tool.get("name"));tool.get("inputs").each(function(ai){var ah=new v({model:ai});ah.render();parent_div.append(ah.$el)});parent_div.find("input").click(function(){$(this).select()});var af=$("<div>").addClass("param-row").appendTo(parent_div);var ag=$("<input type='submit'>").attr("value","Run on complete dataset").appendTo(af);var ac=$("<input type='submit'>").attr("value","Run on visible region").appendTo(af);ac.click(function(){ad.run_on_region()});ag.click(function(){ad.run_on_dataset()});if(tool.is_visible()){this.$el.show()}},set_visible:function(){if(this.model.is_visible()){this.$el.show()}else{this.$el.hide()}},update_params:function(){for(var ac=0;ac<this.params.length;ac++){this.params[ac].update_value()}},run_on_dataset:function(){var ac=this.model;this.run({target_dataset_id:this.model.get("track").dataset.id,action:"rerun",tool_id:ac.id},null,function(ad){Galaxy.modal.show({title:ac.get("name")+" is Running",body:ac.get("name")+" is running on the complete dataset. Tool outputs are in dataset's history.",buttons:{Close:function(){Galaxy.modal.hide()}}})})},run_on_region:function(){var ad=this.model.get("track"),ag=this.model,ai=new y.GenomeRegion({chrom:ad.view.chrom,start:ad.view.low,end:ad.view.high}),aj={target_dataset_id:ad.dataset.id,action:"rerun",tool_id:ag.id,regions:[ai.toJSON()]},ah=ad,al=ag.get("name")+ah.tool_region_and_parameters_str(ai),ac;if(ah.container===view){var ak=new P(view,view,{name:ad.prefs.name});var af=ah.container.replace_drawable(ah,ak,false);ak.container_div.insertBefore(ah.view.content_div.children()[af]);ak.add_drawable(ah);ah.container_div.appendTo(ak.content_div);ac=ak}else{ac=ah.container}var ae=new ah.constructor(view,ac,{name:al,hda_ldda:"hda"});ae.init_for_tool_data();ae.change_mode(ah.mode);ae.set_filters_manager(ah.filters_manager.copy(ae));ae.update_icons();ac.add_drawable(ae);ae.tiles_div.text("Starting job.");this.run(aj,ae,function(am){ae.set_dataset(new X.Dataset(am));ae.tiles_div.text("Running job.");ae.init()})},run:function(ac,ae,af){ac.inputs=this.model.get_inputs_dict();var ad=new l.ServerStateDeferred({ajax_settings:{url:galaxy_config.root+"api/tools",data:JSON.stringify(ac),dataType:"json",contentType:"application/json",type:"POST"},interval:2000,success_fn:function(ag){return ag!=="pending"}});$.when(ad.go()).then(function(ag){if(ag==="no converter"){ae.container_div.addClass("error");ae.content_div.text(J)}else{if(ag.error){ae.container_div.addClass("error");ae.content_div.text(z+ag.message)}else{af(ag)}}})}});var E=function(ac,ad){L.Scaler.call(this,ad);this.filter=ac};E.prototype.gen_val=function(ac){if(this.filter.high===Number.MAX_VALUE||this.filter.low===-Number.MAX_VALUE||this.filter.low===this.filter.high){return this.default_val}return((parseFloat(ac[this.filter.index])-this.filter.low)/(this.filter.high-this.filter.low))};var j=Backbone.Model.extend({initialize:function(ad){var ac={};ab.each(ad.params,function(ae){ac[ae.key]=(ae.type==="color"&&!ae.default_value?l.get_random_color():ae.default_value)});if(ad.saved_values){ab.each(this.get("params"),function(ae){if(ae.key in ad.saved_values){ac[ae.key]=ad.saved_values[ae.key]}})}this.set("values",ac)},set_param_default_value:function(ad,ac){var ae=ab.find(this.get("params"),function(af){return af.key===ad});if(ae){ae.default_value=ac}},set_param_value:function(ac,ad){var ae=ab.find(this.get("params"),function(af){return af.key===ac});if(ae){if(typeof ad==="string"||ad instanceof String){if(ad.trim()===""){ad=ae.default_value}else{if(ae.type==="float"){ad=parseFloat(ad)}else{if(ae.type==="int"){ad=parseInt(ad,10)}}}}}if(this.get("values")[ac]!==ad){this.get("values")[ac]=ad;this.trigger("change:values");return true}else{return false}}});var a=Backbone.View.extend({render:function(){var aj=this.model;var ac=$("<div/>").keydown(function(ak){ak.stopPropagation()});var ai;function ah(ao,ak){for(var at=0;at<ao.length;at++){ai=ao[at];if(ai.hidden){continue}var am="param_"+at;var ax=aj.get("values")[ai.key];var az=$("<div class='form-row' />").appendTo(ak);az.append($("<label />").attr("for",am).text(ai.label+":"));if(ai.type==="bool"){az.append($('<input type="checkbox" />').attr("id",am).attr("name",am).attr("checked",ax))}else{if(ai.type==="text"){az.append($('<input type="text"/>').attr("id",am).val(ax).click(function(){$(this).select()}))}else{if(ai.type==="select"){var av=$("<select />").attr("id",am);for(var aq=0;aq<ai.options.length;aq++){$("<option/>").text(ai.options[aq].label).attr("value",ai.options[aq].value).appendTo(av)}av.val(ax);az.append(av)}else{if(ai.type==="color"){var ay=$("<div/>").appendTo(az),au=$("<input/>").attr({id:am,name:am}).val(ax).addClass("color-input").appendTo(ay).click(function(aB){$(".tooltip").removeClass("in");var aA=$(this).siblings(".tooltip").addClass("in");aA.css({left:$(this).position().left+$(this).width()+5,top:$(this).position().top+Galaxy.modal.scrollTop()-($(aA).height()/2)+($(this).height()/2)}).show();aA.click(function(aC){aC.stopPropagation()});$(document).bind("click.color-picker",function(){aA.hide();$(document).unbind("click.color-picker")});aB.stopPropagation()}),ar=$("<a href='javascript:void(0)'/>").addClass("icon-button arrow-circle").appendTo(ay).attr("title","Set new random color").tooltip(),aw=$("<div class='tooltip right' style='position: absolute;' />").appendTo(ay).hide(),an=$("<div class='tooltip-inner' style='text-align: inherit'></div>").appendTo(aw),al=$("<div class='tooltip-arrow'></div>").appendTo(aw),ap=$.farbtastic(an,{width:100,height:100,callback:au,color:ax});ay.append($("<div/>").css("clear","both"));(function(aA){ar.click(function(){aA.setColor(l.get_random_color())})})(ap)}else{az.append($("<input />").attr("id",am).attr("name",am).val(ax))}}}}if(ai.help){az.append($("<div class='help'/>").text(ai.help))}}}ah(aj.get("params"),ac);var ad=this,ag=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ae=function(){ad.update_from_form($(Galaxy.modal.el));Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},af=function(ak){if((ak.keyCode||ak.which)===27){ag()}else{if((ak.keyCode||ak.which)===13){ae()}}};$(window).bind("keypress.check_enter_esc",af);Galaxy.modal.show({title:"Configure",body:ac,buttons:{Cancel:ag,Ok:ae}})},update_from_form:function(ac){var ad=this.model;var ae=false;ab.each(ad.get("params"),function(ah,af){if(!ah.hidden){var ai="param_"+af;var ag=ac.find("#"+ai).val();if(ah.type==="bool"){ag=ac.find("#"+ai).is(":checked")}ae=ad.set_param_value(ah.key,ag)||ae}})}});var c=function(ac,af,ag,ad,ae){this.track=ac;this.region=af;this.low=af.get("start");this.high=af.get("end");this.w_scale=ag;this.canvas=ad;this.html_elt=$("<div class='track-tile'/>").append(ad);this.data=ae;this.stale=false};c.prototype.predisplay_actions=function(){};var M=function(ac,af,ag,ad,ae){c.call(this,ac,af,ag,ad,ae)};M.prototype.predisplay_actions=function(){};var O=function(af,am,ao,ae,ah,ai,ap,ad,al){c.call(this,af,am,ao,ae,ah);this.mode=ai;this.all_slotted=ad;this.feature_mapper=al;this.has_icons=false;if(ap){this.has_icons=true;var aj=this;ae=this.html_elt.children()[0],message_div=$("<div/>").addClass("tile-message").css({height:F,width:ae.width}).prependTo(this.html_elt);var ak=new y.GenomeRegion({chrom:af.view.chrom,start:this.low,end:this.high}),an=ah.length,ag=$("<a/>").addClass("icon more-down").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data including depth").tooltip().appendTo(message_div),ac=$("<a/>").addClass("icon more-across").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data excluding depth").tooltip().appendTo(message_div);ag.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.DEEP_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()});ac.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.BROAD_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()})}};q(O.prototype,c.prototype);O.prototype.predisplay_actions=function(){var ad=this,ac={};if(ad.mode!=="Pack"){return}$(this.html_elt).hover(function(){this.hovered=true;$(this).mousemove()},function(){this.hovered=false;$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()}).mousemove(function(ao){if(!this.hovered){return}var aj=$(this).offset(),an=ao.pageX-aj.left,am=ao.pageY-aj.top,at=ad.feature_mapper.get_feature_data(an,am),ak=(at?at[0]:null);$(this).parents(".track-content").children(".overlay").children(".feature-popup").each(function(){if(!ak||$(this).attr("id")!==ak.toString()){$(this).remove()}});if(at){var af=ac[ak];if(!af){var ap={name:at[3],start:at[1],end:at[2],strand:at[4]},ai=ad.track.filters_manager.filters,ah;for(var al=0;al<ai.length;al++){ah=ai[al];ap[ah.name]=at[ah.index]}af=$("<div/>").attr("id",ak).addClass("feature-popup");var au=$("<table/>"),ar,aq,av;for(ar in ap){aq=ap[ar];av=$("<tr/>").appendTo(au);$("<th/>").appendTo(av).text(ar);$("<td/>").attr("align","left").appendTo(av).text(typeof(aq)==="number"?V(aq,2):aq)}af.append($("<div class='feature-popup-inner'>").append(au));ac[ak]=af}af.appendTo($(this).parents(".track-content").children(".overlay"));var ag=an+parseInt(ad.html_elt.css("left"),10)-af.width()/2,ae=am+parseInt(ad.html_elt.css("top"),10)+7;af.css("left",ag+"px").css("top",ae+"px")}else{if(!ao.isPropagationStopped()){ao.stopPropagation();$(this).siblings().each(function(){$(this).trigger(ao)})}}}).mouseleave(function(){$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()})};var g=function(ad,ac,ae){q(ae,{drag_handle_class:"draghandle"});r.call(this,ad,ac,ae);this.dataset=null;if(ae.dataset){this.dataset=(ae.dataset instanceof Backbone.Model?ae.dataset:new X.Dataset(ae.dataset))}this.dataset_check_type="converted_datasets_state";this.data_url_extra_params={};this.data_query_wait=("data_query_wait" in ae?ae.data_query_wait:K);this.data_manager=("data_manager" in ae?ae.data_manager:new y.GenomeDataManager({dataset:this.dataset,genome:new y.Genome({key:ad.dbkey,chroms_info:{chrom_info:ad.chrom_data}}),data_mode_compatible:this.data_and_mode_compatible,can_subset:this.can_subset}));this.min_height_px=16;this.max_height_px=800;this.visible_height_px=this.prefs.height;this.content_div=$("<div class='track-content'>").appendTo(this.container_div);if(this.container){this.container.content_div.append(this.container_div);if(!("resize" in ae)||ae.resize){this.add_resize_handle()}}};q(g.prototype,r.prototype,{action_icons_def:[{name:"mode_icon",title:"Set display mode",css_class:"chevron-expand",on_click_fn:function(){}},r.prototype.action_icons_def[0],{name:"overview_icon",title:"Set as overview",css_class:"application-dock-270",on_click_fn:function(ac){ac.view.set_overview(ac)}},r.prototype.action_icons_def[1],{name:"filters_icon",title:"Filters",css_class:"ui-slider-050",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters()}else{ac.filters_manager.init_filters()}ac.filters_manager.toggle()}},{name:"tools_icon",title:"Tool",css_class:"hammer",on_click_fn:function(ac){ac.tool.toggle();if(ac.tool.is_visible()){ac.set_name(ac.prefs.name+ac.tool_region_and_parameters_str())}else{ac.revert_name()}$(".tooltip").remove()}},{name:"param_space_viz_icon",title:"Tool parameter space visualization",css_class:"arrow-split",on_click_fn:function(ac){var af='<strong>Tool</strong>: <%= track.tool.get("name") %><br/><strong>Dataset</strong>: <%= track.prefs.name %><br/><strong>Region(s)</strong>: <select name="regions"><option value="cur">current viewing area</option><option value="bookmarks">bookmarks</option><option value="both">current viewing area and bookmarks</option></select>',ae=ab.template(af,{track:ac});var ah=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ad=function(){var aj=$('select[name="regions"] option:selected').val(),al,ai=new y.GenomeRegion({chrom:view.chrom,start:view.low,end:view.high}),ak=ab.map($(".bookmark"),function(am){return new y.GenomeRegion({from_str:$(am).children(".position").text()})});if(aj==="cur"){al=[ai]}else{if(aj==="bookmarks"){al=ak}else{al=[ai].concat(ak)}}Galaxy.modal.hide();window.location.href=galaxy_config.root+"visualization/sweepster?"+$.param({dataset_id:ac.dataset.id,hda_ldda:ac.dataset.get("hda_ldda"),regions:JSON.stringify(new Backbone.Collection(al).toJSON())})},ag=function(ai){if((ai.keyCode||ai.which)===27){ah()}else{if((ai.keyCode||ai.which)===13){ad()}}};Galaxy.modal.show({title:"Visualize tool parameter space and output from different parameter settings?",body:ae,buttons:{No:ah,Yes:ad}})}},r.prototype.action_icons_def[2]],can_draw:function(){return this.dataset&&r.prototype.can_draw.call(this)},build_container_div:function(){return $("<div/>").addClass("track").attr("id","track_"+this.id)},build_header_div:function(){var ac=$("<div class='track-header'/>");if(this.view.editor){this.drag_div=$("<div/>").addClass(this.drag_handle_class).appendTo(ac)}this.name_div=$("<div/>").addClass("track-name").appendTo(ac).text(this.prefs.name).attr("id",this.prefs.name.replace(/\s+/g,"-").replace(/[^a-zA-Z0-9\-]/g,"").toLowerCase());return ac},set_dataset:function(ac){this.dataset=ac;this.data_manager.set("dataset",ac)},on_resize:function(){this.request_draw({clear_tile_cache:true})},add_resize_handle:function(){var ac=this;var af=false;var ae=false;var ad=$("<div class='track-resize'>");$(ac.container_div).hover(function(){if(ac.prefs.content_visible){af=true;ad.show()}},function(){af=false;if(!ae){ad.hide()}});ad.hide().bind("dragstart",function(ag,ah){ae=true;ah.original_height=$(ac.content_div).height()}).bind("drag",function(ah,ai){var ag=Math.min(Math.max(ai.original_height+ai.deltaY,ac.min_height_px),ac.max_height_px);$(ac.tiles_div).css("height",ag);ac.visible_height_px=(ac.max_height_px===ag?0:ag);ac.on_resize()}).bind("dragend",function(ag,ah){ac.tile_cache.clear();ae=false;if(!af){ad.hide()}ac.config.get("values").height=ac.visible_height_px;ac.changed()}).appendTo(ac.container_div)},set_display_modes:function(af,ai){this.display_modes=af;this.mode=(ai?ai:(this.config&&this.config.get("values").mode?this.config.get("values").mode:this.display_modes[0]));this.action_icons.mode_icon.attr("title","Set display mode (now: "+this.mode+")");var ad=this,ag={};for(var ae=0,ac=ad.display_modes.length;ae<ac;ae++){var ah=ad.display_modes[ae];ag[ah]=function(aj){return function(){ad.change_mode(aj);ad.icons_div.show();ad.container_div.mouseleave(function(){ad.icons_div.hide()})}}(ah)}make_popupmenu(this.action_icons.mode_icon,ag)},build_action_icons:function(){r.prototype.build_action_icons.call(this,this.action_icons_def);if(this.display_modes!==undefined){this.set_display_modes(this.display_modes)}},hide_contents:function(){this.tiles_div.hide();this.container_div.find(".yaxislabel, .track-resize").hide()},show_contents:function(){this.tiles_div.show();this.container_div.find(".yaxislabel, .track-resize").show();this.request_draw()},get_type:function(){if(this instanceof W){return"LabelTrack"}else{if(this instanceof D){return"ReferenceTrack"}else{if(this instanceof h){return"LineTrack"}else{if(this instanceof T){return"ReadTrack"}else{if(this instanceof Z){return"VariantTrack"}else{if(this instanceof f){return"CompositeTrack"}else{if(this instanceof d){return"FeatureTrack"}}}}}}}return""},show_message:function(ac){this.tiles_div.remove();return $("<span/>").addClass("message").html(ac).appendTo(this.content_div)},init:function(ae){var ad=this;ad.enabled=false;ad.tile_cache.clear();ad.data_manager.clear();ad.content_div.children().remove();ad.container_div.removeClass("nodata error pending");ad.tiles_div=$("<div/>").addClass("tiles").appendTo(ad.content_div);if(!ad.dataset.id){return}var ac=$.Deferred(),af={hda_ldda:ad.dataset.get("hda_ldda"),data_type:this.dataset_check_type,chrom:ad.view.chrom,retry:ae};$.getJSON(this.dataset.url(),af,function(ag){if(!ag||ag==="error"||ag.kind==="error"){ad.container_div.addClass("error");var ah=ad.show_message(o);if(ag.message){ah.append($("<a href='javascript:void(0);'></a>").text("View error").click(function(){Galaxy.modal.show({title:"Trackster Error",body:"<pre>"+ag.message+"</pre>",buttons:{Close:function(){Galaxy.modal.hide()}}})}));ah.append($("<span/>").text(" "));ah.append($("<a href='javascript:void(0);'></a>").text("Try again").click(function(){ad.init(true)}))}}else{if(ag==="no converter"){ad.container_div.addClass("error");ad.show_message(J)}else{if(ag==="no data"||(ag.data!==undefined&&(ag.data===null||ag.data.length===0))){ad.container_div.addClass("nodata");ad.show_message(G)}else{if(ag==="pending"){ad.container_div.addClass("pending");ad.show_message(w);setTimeout(function(){ad.init()},ad.data_query_wait)}else{if(ag==="data"||ag.status==="data"){if(ag.valid_chroms){ad.valid_chroms=ag.valid_chroms;ad.update_icons()}ad.tiles_div.text(U);if(ad.view.chrom){ad.tiles_div.text("");ad.tiles_div.css("height",ad.visible_height_px+"px");ad.enabled=true;$.when.apply($,ad.predraw_init()).done(function(){ac.resolve();ad.container_div.removeClass("nodata error pending");ad.request_draw()})}else{ac.resolve()}}}}}}});this.update_icons();return ac},predraw_init:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(af&&af.min&&af.max){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.config.set_param_default_value("min_value",ae);ac.config.set_param_default_value("max_value",ag);ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},get_drawables:function(){return this}});var N=function(ae,ad,ag){g.call(this,ae,ad,ag);var ac=this;m(ac.container_div,ac.drag_handle_class,".group",ac);this.filters_manager=new i.FiltersManager(this,("filters" in ag?ag.filters:null));this.data_manager.set("filters_manager",this.filters_manager);this.filters_available=false;this.tool=(ag.tool?new s(ab.extend(ag.tool,{track:this,tool_state:ag.tool_state})):null);this.tile_cache=new y.Cache(Q);this.left_offset=0;if(this.header_div){this.set_filters_manager(this.filters_manager);if(this.tool){var af=new aa({model:this.tool});af.render();this.dynamic_tool_div=af.$el;this.header_div.after(this.dynamic_tool_div)}}this.tiles_div=$("<div/>").addClass("tiles").appendTo(this.content_div);if(!this.prefs.content_visible){this.tiles_div.hide()}this.overlay_div=$("<div/>").addClass("overlay").appendTo(this.content_div);if(ag.mode){this.change_mode(ag.mode)}};q(N.prototype,r.prototype,g.prototype,{action_icons_def:g.prototype.action_icons_def.concat([{name:"show_more_rows_icon",title:"To minimize track height, not all feature rows are displayed. Click to display more rows.",css_class:"exclamation",on_click_fn:function(ac){$(".tooltip").remove();ac.slotters[ac.view.resolution_px_b].max_rows*=2;ac.request_draw({clear_tile_cache:true})},hide:true}]),copy:function(ac){var ad=this.to_dict();q(ad,{data_manager:this.data_manager});var ae=new this.constructor(this.view,ac,ad);ae.change_mode(this.mode);ae.enabled=this.enabled;return ae},set_filters_manager:function(ac){this.filters_manager=ac;this.header_div.after(this.filters_manager.parent_div)},to_dict:function(){return{track_type:this.get_type(),dataset:{id:this.dataset.id,hda_ldda:this.dataset.get("hda_ldda")},prefs:this.prefs,mode:this.mode,filters:this.filters_manager.to_dict(),tool_state:(this.tool?this.tool.state_dict():{})}},set_min_max:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(isNaN(parseFloat(ac.prefs.min_value))||isNaN(parseFloat(ac.prefs.max_value))){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},change_mode:function(ad){var ac=this;ac.mode=ad;ac.config.get("values").mode=ad;if(ad==="Auto"){this.data_manager.clear()}ac.request_draw({clear_tile_cache:true});this.action_icons.mode_icon.attr("title","Set display mode (now: "+ac.mode+")");return ac},update_icons:function(){var ac=this;if(ac.filters_available){ac.action_icons.filters_icon.show()}else{ac.action_icons.filters_icon.hide()}if(ac.tool){ac.action_icons.tools_icon.show();ac.action_icons.param_space_viz_icon.show()}else{ac.action_icons.tools_icon.hide();ac.action_icons.param_space_viz_icon.hide()}},_gen_tile_cache_key:function(ad,ac){return ad+"_"+ac},request_draw:function(ac){if(ac&&ac.clear_tile_cache){this.tile_cache.clear()}this.view.request_redraw(ac,this)},before_draw:function(){this.max_height_px=0},_draw:function(aq){if(!this.can_draw()){return}var an=aq&&aq.clear_after,al=this.view.low,ag=this.view.high,aj=ag-al,ad=this.view.container.width(),ap=this.view.resolution_px_b,af=1/ap;if(this.is_overview){al=this.view.max_low;ag=this.view.max_high;ap=ad/(view.max_high-view.max_low);af=1/ap}this.before_draw();this.tiles_div.children().addClass("remove");var ac=Math.floor(al/(af*S)),ak,am,ah,ai=[],ao=[];while((ac*S*af)<ag){ak=Math.floor(ac*S*af);am=new y.GenomeRegion({chrom:this.view.chrom,start:ak,end:Math.min(ak+Math.ceil(S*af),this.view.max_high)});ah=this.draw_helper(am,ap,aq);ai.push(ah);$.when(ah).then(function(ar){ao.push(ar)});ac+=1}if(!an){this.tiles_div.children(".remove").removeClass("remove").remove()}var ae=this;$.when.apply($,ai).then(function(){ae.tiles_div.children(".remove").remove();ao=ab.filter(ao,function(ar){return ar!==null});if(ao.length!==0){ae.postdraw_actions(ao,ad,ap,an)}})},_add_yaxis_label:function(af,ah){var ad=this,ag=(af==="max"?"top":"bottom"),ai=(af==="max"?"max":"min"),ac=(af==="max"?"max_value":"min_value"),ae=this.container_div.find(".yaxislabel."+ag);ah=ah||function(){ad.request_draw({clear_tile_cache:true})};if(ae.length!==0){ae.text(ad.prefs[ac])}else{ae=$("<div/>").text(ad.prefs[ac]).make_text_editable({num_cols:12,on_finish:function(aj){$(".tooltip").remove();ad.config.set_param_value(ac,aj);ah()},help_text:"Set "+ai+" value"}).addClass("yaxislabel "+ag).css("color",this.prefs.label_color);this.container_div.prepend(ae)}},postdraw_actions:function(af,ag,ai,ac){var ae=ab.filter(af,function(aj){return(aj instanceof M)});if(ae.length>0){this.max_height_px=0;var ad=this;ab.each(af,function(aj){if(!(aj instanceof M)){aj.html_elt.remove();ad.draw_helper(aj.region,ai,{force:true,mode:"Coverage"})}});ad._add_yaxis_label("max")}else{this.container_div.find(".yaxislabel").remove();var ah=ab.find(af,function(aj){return aj.has_icons});if(ah){ab.each(af,function(aj){if(!aj.has_icons){aj.html_elt.css("padding-top",F)}})}}},get_mode:function(ac){return this.mode},update_auto_mode:function(ac){},_get_drawables:function(){return[this]},draw_helper:function(al,an,ao){if(!ao){ao={}}var ad=ao.force,ai=ao.mode||this.mode,af=1/an,ae=this,ag=this._get_drawables(),am=this._gen_tile_cache_key(an,al),ah=function(ap){return(ap&&"track" in ap)};var aj=(ad?undefined:ae.tile_cache.get_elt(am));if(aj){if(ah(aj)){ae.show_tile(aj,an)}return aj}if(ao.data_fetch===false){return null}var ak=function(){var ap=(ab.find(C,function(ar){return ar===ai})?"Coverage":ai);var aq=ab.map(ag,function(ar){return ar.data_manager.get_data(al,ap,af,ae.data_url_extra_params)});if(view.reference_track){aq.push(view.reference_track.data_manager.get_data(al,ai,af,view.reference_track.data_url_extra_params))}return aq};var ac=$.Deferred();ae.tile_cache.set_elt(am,ac);$.when.apply($,ak()).then(function(){var ap=ak(),av=ap,aB;if(view.reference_track){aB=view.reference_track.data_manager.subset_entry(ap.pop(),al)}var aw=[],at=[];ab.each(ag,function(aG,aD){var aF=aG.mode,aE=av[aD];if(aF==="Auto"){aF=aG.get_mode(aE);aG.update_auto_mode(aF)}aw.push(aF);at.push(aG.get_canvas_height(aE,aF,an,aq))});var au=ae.view.canvas_manager.new_canvas(),ax=al.get("start"),aC=al.get("end"),ar=0,aq=Math.ceil((aC-ax)*an)+ae.left_offset,az=ab.max(at),ay;au.width=aq;au.height=(ao.height||az);var aA=au.getContext("2d");aA.translate(ae.left_offset,0);if(ag.length>1){aA.globalAlpha=0.5;aA.globalCompositeOperation="source-over"}ab.each(ag,function(aE,aD){ay=aE.draw_tile(av[aD],aA,aw[aD],al,an,aB)});if(ay!==undefined){ae.tile_cache.set_elt(am,ay);ae.show_tile(ay,an)}ac.resolve(ay)});return ac},get_canvas_height:function(ac,ae,af,ad){return this.visible_height_px},_draw_line_track_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.LinePainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new M(this,ag,ai,af,ac.data)},draw_tile:function(ac,ad,ag,af,ah,ae){},show_tile:function(ae,ah){var ad=this,ac=ae.html_elt;ae.predisplay_actions();var ag=(ae.low-(this.is_overview?this.view.max_low:this.view.low))*ah;if(this.left_offset){ag-=this.left_offset}ac.css("left",ag);if(ac.hasClass("remove")){ac.removeClass("remove")}else{this.tiles_div.append(ac)}ac.css("height","auto");this.max_height_px=Math.max(this.max_height_px,ac.height()-2);ac.parent().children().css("height",this.max_height_px+"px");var af=this.max_height_px;if(this.visible_height_px!==0){af=Math.min(this.max_height_px,this.visible_height_px)}this.tiles_div.css("height",af+"px")},tool_region_and_parameters_str:function(af){var ac=this,ae=(af!==undefined?af.toString():"all"),ad=ab.values(ac.tool.get_inputs_dict()).join(", ");return" - region=["+ae+"], parameters=["+ad+"]"},data_and_mode_compatible:function(ac,ad){if(ad==="Auto"){return true}else{if(ad==="Coverage"){return ac.dataset_type==="bigwig"}else{if(ac.dataset_type==="bigwig"||ac.extra_info==="no_detail"){return false}else{return true}}}},can_subset:function(ac){if(ac.message||ac.extra_info==="no_detail"){return false}else{if(ac.dataset_type==="bigwig"){return(ac.data[1][0]-ac.data[0][0]===1)}}return true},init_for_tool_data:function(){this.data_manager.set("data_type","raw_data");this.data_query_wait=1000;this.dataset_check_type="state"}});var W=function(ad,ac){var ae={resize:false};g.call(this,ad,ac,ae);this.container_div.addClass("label-track")};q(W.prototype,g.prototype,{build_header_div:function(){},init:function(){this.enabled=true},predraw_init:function(){},_draw:function(ag){var ae=this.view,af=ae.high-ae.low,aj=Math.floor(Math.pow(10,Math.floor(Math.log(af)/Math.log(10)))),ac=Math.floor(ae.low/aj)*aj,ah=this.view.container.width(),ad=$("<div/>").addClass("label-container");while(ac<ae.high){var ai=(ac-ae.low)/af*ah;ad.append($("<div/>").addClass("label").text(commatize(ac)).css({left:ai}));ac+=aj}this.content_div.children(":first").remove();this.content_div.append(ad)}});var f=function(ad,ac,ag){N.call(this,ad,ac,ag);this.drawables=[];if("drawables" in ag){var af;for(var ae=0;ae<ag.drawables.length;ae++){af=ag.drawables[ae];this.drawables[ae]=p(af,ad,null);if(af.left_offset>this.left_offset){this.left_offset=af.left_offset}}this.enabled=true}ab.each(this.drawables,function(ah){if(ah instanceof d||ah instanceof T){ah.change_mode("Coverage")}});this.update_icons();this.obj_type="CompositeTrack"};q(f.prototype,N.prototype,{display_modes:C,action_icons_def:[{name:"composite_icon",title:"Show individual tracks",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_group()}}].concat(N.prototype.action_icons_def),to_dict:A.prototype.to_dict,add_drawable:A.prototype.add_drawable,unpack_drawables:A.prototype.unpack_drawables,change_mode:function(ac){N.prototype.change_mode.call(this,ac);for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad].change_mode(ac)}},init:function(){var ae=[];for(var ad=0;ad<this.drawables.length;ad++){ae.push(this.drawables[ad].init())}var ac=this;$.when.apply($,ae).then(function(){ac.enabled=true;ac.request_draw()})},update_icons:function(){this.action_icons.filters_icon.hide();this.action_icons.tools_icon.hide();this.action_icons.param_space_viz_icon.hide()},can_draw:r.prototype.can_draw,_get_drawables:function(){return this.drawables},show_group:function(){var af=new P(this.view,this.container,{name:this.prefs.name}),ac;for(var ae=0;ae<this.drawables.length;ae++){ac=this.drawables[ae];ac.update_icons();af.add_drawable(ac);ac.container=af;af.content_div.append(ac.container_div)}var ad=this.container.replace_drawable(this,af,true);af.request_draw({clear_tile_cache:true})},before_draw:function(){N.prototype.before_draw.call(this);var ad=ab.min(ab.map(this.drawables,function(ae){return ae.prefs.min_value})),ac=ab.max(ab.map(this.drawables,function(ae){return ae.prefs.max_value}));this.prefs.min_value=ad;this.prefs.max_value=ac;ab.each(this.drawables,function(ae){ae.prefs.min_value=ad;ae.prefs.max_value=ac})},update_all_min_max:function(){var ac=this;ab.each(this.drawables,function(ad){ad.prefs.min_value=ac.prefs.min_value;ad.prefs.max_value=ac.prefs.max_value});this.request_draw({clear_tile_cache:true})},postdraw_actions:function(ai,ac,al,ah){N.prototype.postdraw_actions.call(this,ai,ac,al,ah);var ag=-1,ae;for(ae=0;ae<ai.length;ae++){var aj=ai[ae].html_elt.find("canvas").height();if(aj>ag){ag=aj}}for(ae=0;ae<ai.length;ae++){var af=ai[ae];if(af.html_elt.find("canvas").height()!==ag){this.draw_helper(af.region,al,{force:true,height:ag});af.html_elt.remove()}}var ad=this,ak=function(){ad.update_all_min_max()};this._add_yaxis_label("min",ak);this._add_yaxis_label("max",ak)}});var D=function(ac){N.call(this,ac,{content_div:ac.top_labeltrack},{resize:false});this.left_offset=ac.canvas_manager.char_width_px;this.container_div.addClass("reference-track");this.data_url=galaxy_config.root+"api/genomes/"+this.view.dbkey;this.data_url_extra_params={reference:true};this.data_manager=new y.GenomeReferenceDataManager({data_url:this.data_url,can_subset:this.can_subset});this.hide_contents()};q(D.prototype,r.prototype,N.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"height",type:"int",default_value:13,hidden:true}]),build_header_div:function(){},init:function(){this.data_manager.clear();this.enabled=true},predraw_init:function(){},can_draw:r.prototype.can_draw,draw_helper:function(ad,ae,ac){if(ae>this.view.canvas_manager.char_width_px){this.tiles_div.show();return N.prototype.draw_helper.call(this,ad,ae,ac)}else{this.tiles_div.hide();return null}},can_subset:function(ac){return true},draw_tile:function(ae,ak,af,ah,al){var ad=this.data_manager.subset_entry(ae,ah),aj=ad.data;var ac=ak.canvas;ak.font=ak.canvas.manager.default_font;ak.textAlign="center";for(var ag=0,ai=aj.length;ag<ai;ag++){ak.fillStyle=this.view.get_base_color(aj[ag]);ak.fillText(aj[ag],Math.floor(ag*al),10)}return new c(this,ah,al,ac,ad)}});var h=function(ad,ac,ae){this.mode="Histogram";N.call(this,ad,ac,ae)};q(h.prototype,r.prototype,N.prototype,{display_modes:C,config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Color",type:"color"},{key:"min_value",label:"Min Value",type:"float",default_value:undefined},{key:"max_value",label:"Max Value",type:"float",default_value:undefined},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:30,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},before_draw:function(){},draw_tile:function(ac,ad,af,ae,ag){return this._draw_line_track_tile(ac,ad,af,ae,ag)},can_subset:function(ac){return(ac.data[1][0]-ac.data[0][0]===1)},postdraw_actions:function(ad,ae,af,ac){this._add_yaxis_label("max");this._add_yaxis_label("min")}});var t=function(ad,ac,ae){this.mode="Heatmap";N.call(this,ad,ac,ae)};q(t.prototype,r.prototype,N.prototype,{display_modes:["Heatmap"],config_params:ab.union(r.prototype.config_params,[{key:"pos_color",label:"Positive Color",type:"color",default_value:"#FF8C00"},{key:"neg_color",label:"Negative Color",type:"color",default_value:"#4169E1"},{key:"min_value",label:"Min Value",type:"float",default_value:-1},{key:"max_value",label:"Max Value",type:"float",default_value:1},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:500,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.DiagonalHeatmapPainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new c(this,ag,ai,af,ac.data)}});var d=function(ad,ac,ae){N.call(this,ad,ac,ae);this.container_div.addClass("feature-track");this.summary_draw_height=30;this.slotters={};this.start_end_dct={};this.left_offset=200;this.set_painter_from_config()};q(d.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true,help:"Show the number of items in each bin when drawing summary histogram"},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"connector_style",label:"Connector style",type:"select",default_value:"fishbones",options:[{label:"Line with arrows",value:"fishbone"},{label:"Arcs",value:"arcs"}]},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.set_painter_from_config();this.request_draw({clear_tile_cache:true})},set_painter_from_config:function(){if(this.config.get("values").connector_style==="arcs"){this.painter=L.ArcLinkedFeaturePainter}else{this.painter=L.LinkedFeaturePainter}},postdraw_actions:function(am,ae,an,al){N.prototype.postdraw_actions.call(this,am,ae,an,al);var ag=this,ah;if(ag.filters_manager){var af=ag.filters_manager.filters,aj;for(aj=0;aj<af.length;aj++){af[aj].update_ui_elt()}var ai=false,ak,ad;for(ah=0;ah<am.length;ah++){if(am[ah].data.length){ak=am[ah].data[0];for(aj=0;aj<af.length;aj++){ad=af[aj];if(ad.applies_to(ak)&&ad.min!==ad.max){ai=true;break}}}}if(ag.filters_available!==ai){ag.filters_available=ai;if(!ag.filters_available){ag.filters_manager.hide()}ag.update_icons()}}if(am[0] instanceof O){var ac=true;for(ah=0;ah<am.length;ah++){if(!am[ah].all_slotted){ac=false;break}}if(!ac){this.action_icons.show_more_rows_icon.show()}else{this.action_icons.show_more_rows_icon.hide()}}else{this.action_icons.show_more_rows_icon.hide()}},update_auto_mode:function(ac){if(this.mode==="Auto"){if(ac==="no_detail"){ac="feature spans"}this.action_icons.mode_icon.attr("title","Set display mode (now: Auto/"+ac+")")}},incremental_slots:function(ag,ac,af){var ad=this.view.canvas_manager.dummy_context,ae=this.slotters[ag];if(!ae||(ae.mode!==af)){ae=new (u.FeatureSlotter)(ag,af,B,function(ah){return ad.measureText(ah)});this.slotters[ag]=ae}return ae.slot_features(ac)},get_mode:function(ac){if(ac.extra_info==="no_detail"||this.is_overview){mode="no_detail"}else{if(this.view.high-this.view.low>I){mode="Squish"}else{mode="Pack"}}return mode},get_canvas_height:function(ac,ag,ah,ad){if(ag==="Coverage"||ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var af=this.incremental_slots(ah,ac.data,ag);var ae=new (this.painter)(null,null,null,this.prefs,ag);return Math.max(this.min_height_px,ae.get_required_height(af,ad))}},draw_tile:function(am,aq,ao,af,aj,ae){var ap=this,ad=aq.canvas,ax=af.get("start"),ac=af.get("end"),ag=this.left_offset;if(am.dataset_type==="bigwig"){return this._draw_line_track_tile(am,aq,ao,af,aj)}var ai=[],an=this.slotters[aj].slots;all_slotted=true;if(am.data){var ak=this.filters_manager.filters;for(var ar=0,au=am.data.length;ar<au;ar++){var ah=am.data[ar];var at=false;var al;for(var aw=0,aB=ak.length;aw<aB;aw++){al=ak[aw];al.update_attrs(ah);if(!al.keep(ah)){at=true;break}}if(!at){ai.push(ah);if(!(ah[0] in an)){all_slotted=false}}}}var aA=(this.filters_manager.alpha_filter?new E(this.filters_manager.alpha_filter):null),ay=(this.filters_manager.height_filter?new E(this.filters_manager.height_filter):null),az=new (this.painter)(ai,ax,ac,this.prefs,ao,aA,ay,ae,function(aC){return ap.view.get_base_color(aC)});var av=null;aq.fillStyle=this.prefs.block_color;aq.font=aq.canvas.manager.default_font;aq.textAlign="right";if(am.data){av=az.draw(aq,ad.width,ad.height,aj,an);av.translation=-ag}return new O(ap,af,aj,ad,am.data,ao,am.message,all_slotted,av)}});var Z=function(ad,ac,ae){N.call(this,ad,ac,ae);this.painter=L.VariantPainter;this.summary_draw_height=30;this.left_offset=30};q(Z.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Histogram color",type:"color"},{key:"show_sample_data",label:"Show sample data",type:"bool",default_value:true},{key:"show_labels",label:"Show summary and sample labels",type:"bool",default_value:true},{key:"summary_height",label:"Locus summary height",type:"float",default_value:20},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,af,ah,ag,ai){if(ac.dataset_type==="bigwig"){return this._draw_line_track_tile(ac,af,"Histogram",ag,ai)}else{var ae=this.view,ad=new (this.painter)(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah,function(aj){return ae.get_base_color(aj)});ad.draw(af,af.canvas.width,af.canvas.height,ai);return new c(this,ag,ai,af.canvas,ac.data)}},get_canvas_height:function(ac,ag,ah,ae){if(ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var ad=(this.dataset.get_metadata("sample_names")?this.dataset.get_metadata("sample_names").length:0);if(ad===0&&ac.data.length!==0){ad=ac.data[0][7].match(/,/g);if(ad===null){ad=1}else{ad=ad.length+1}}var af=new (this.painter)(null,null,null,this.prefs,ag);return af.get_required_height(ad)}},predraw_init:function(){var ac=[g.prototype.predraw_init.call(this)];if(!this.dataset.get_metadata("sample_names")){ac.push(this.dataset.fetch())}return ac},postdraw_actions:function(ag,ah,aj,ad){N.prototype.postdraw_actions.call(this,ag,ah,aj,ad);var af=ab.filter(ag,function(ak){return(ak instanceof M)});var ae=this.dataset.get_metadata("sample_names");if(af.length===0&&this.prefs.show_labels&&ae&&ae.length>1){var ac;if(this.container_div.find(".yaxislabel.variant").length===0){ac=this.prefs.summary_height/2;this.tiles_div.prepend($("<div/>").text("Summary").addClass("yaxislabel variant top").css({"font-size":ac+"px",top:(this.prefs.summary_height-ac)/2+"px"}));if(this.prefs.show_sample_data){var ai=ae.join("<br/>");this.tiles_div.prepend($("<div/>").html(ai).addClass("yaxislabel variant top sample").css({top:this.prefs.summary_height,}))}}ac=(this.mode==="Squish"?5:10)+"px";$(this.tiles_div).find(".sample").css({"font-size":ac,"line-height":ac});$(this.tiles_div).find(".yaxislabel").css("color",this.prefs.label_color)}else{this.container_div.find(".yaxislabel.variant").remove()}}});var T=function(ad,ac,ae){d.call(this,ad,ac,ae);this.painter=(ad.reference_track?L.RefBasedReadPainter:L.ReadPainter);this.update_icons()};q(T.prototype,r.prototype,N.prototype,d.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block and sense strand color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_insertions",label:"Show insertions",type:"bool",default_value:false},{key:"show_differences",label:"Show differences only",type:"bool",default_value:true},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})}});var e={CompositeTrack:f,DrawableGroup:P,DiagonalHeatmapTrack:t,FeatureTrack:d,LineTrack:h,ReadTrack:T,VariantTrack:Z,VcfTrack:Z};var p=function(ae,ad,ac){if("copy" in ae){return ae.copy(ac)}else{var af=ae.obj_type;if(!af){af=ae.track_type}return new e[af](ad,ac,ae)}};return{TracksterView:Y,DrawableGroup:P,LineTrack:h,FeatureTrack:d,DiagonalHeatmapTrack:t,ReadTrack:T,VariantTrack:Z,CompositeTrack:f,object_from_template:p}}); \ No newline at end of file +define(["libs/underscore","viz/visualization","viz/trackster/util","viz/trackster/slotting","viz/trackster/painters","viz/trackster/filters","mvc/data","mvc/tools"],function(ab,y,l,u,L,i,X,R){var q=ab.extend;var n={};var k=function(ac,ad){n[ac.attr("id")]=ad};var m=function(ac,ad,af,ae){af=".group";n[ac.attr("id")]=ae;ac.bind("drag",{handle:"."+ad,relative:true},function(an,ao){var am=$(this),ar=$(this).parent(),aj=ar.children(".track,.group"),al=n[$(this).attr("id")],ai,ah,ap,ag,ak;ah=$(this).parents(af);if(ah.length!==0){ap=ah.position().top;ag=ap+ah.outerHeight();var aq=n[ah.attr("id")];if(ao.offsetY<ap){$(this).insertBefore(ah);aq.remove_drawable(al);aq.container.add_drawable_before(al,aq);return}else{if(ao.offsetY>ag){$(this).insertAfter(ah);aq.remove_drawable(al);aq.container.add_drawable(al);return}}}ah=null;for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));ap=ai.position().top;ag=ap+ai.outerHeight();if(ai.is(af)&&this!==ai.get(0)&&ao.offsetY>=ap&&ao.offsetY<=ag){if(ao.offsetY-ap<ag-ao.offsetY){ai.find(".content-div").prepend(this)}else{ai.find(".content-div").append(this)}if(al.container){al.container.remove_drawable(al)}n[ai.attr("id")].add_drawable(al);return}}for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));if(ao.offsetY<ai.position().top&&!(ai.hasClass("reference-track")||ai.hasClass("intro"))){break}}if(ak===aj.length){if(this!==aj.get(ak-1)){ar.append(this);n[ar.attr("id")].move_drawable(al,ak)}}else{if(this!==aj.get(ak)){$(this).insertBefore(aj.get(ak));n[ar.attr("id")].move_drawable(al,(ao.deltaY>0?ak-1:ak))}}}).bind("dragstart",function(){$(this).addClass("dragging")}).bind("dragend",function(){$(this).removeClass("dragging")})};var F=20,B=100,I=12000,S=400,K=5000,x=100,o="Cannot display dataset due to an error. ",J="A converter for this dataset is not installed. Please check your datatypes_conf.xml file.",G="No data for this chrom/contig.",w="Preparing data. This can take a while for a large dataset. If the visualization is saved and closed, preparation will continue in the background.",z="Tool cannot be rerun: ",b="Loading data...",U="Ready for display",Q=10,H=20,C=["Histogram","Line","Filled","Intensity"];function V(ad,ac){if(!ac){ac=0}var ae=Math.pow(10,ac);return Math.round(ad*ae)/ae}var r=function(ad,ac,af){if(!r.id_counter){r.id_counter=0}this.id=r.id_counter++;this.view=ad;this.container=ac;this.drag_handle_class=af.drag_handle_class;this.is_overview=false;this.action_icons={};this.config=new j({params:this.config_params,onchange:this.config_onchange,saved_values:af.prefs});this.prefs=this.config.get("values");if(!this.prefs.name){this.prefs.name=af.name}if(this.config_onchange){this.config.on("change:values",this.config_onchange,this)}this.container_div=this.build_container_div();this.header_div=this.build_header_div();if(this.header_div){this.container_div.append(this.header_div);this.icons_div=$("<div/>").addClass("track-icons").hide().appendTo(this.header_div);this.build_action_icons(this.action_icons_def);this.header_div.append($("<div style='clear: both'/>"));this.header_div.dblclick(function(ag){ag.stopPropagation()});var ae=this;this.container_div.hover(function(){ae.icons_div.show()},function(){ae.icons_div.hide()});$("<div style='clear: both'/>").appendTo(this.container_div)}};r.prototype.action_icons_def=[{name:"toggle_icon",title:"Hide/show content",css_class:"toggle",on_click_fn:function(ac){if(ac.prefs.content_visible){ac.action_icons.toggle_icon.addClass("toggle-expand").removeClass("toggle");ac.hide_contents();ac.prefs.content_visible=false}else{ac.action_icons.toggle_icon.addClass("toggle").removeClass("toggle-expand");ac.prefs.content_visible=true;ac.show_contents()}}},{name:"settings_icon",title:"Edit settings",css_class:"gear",on_click_fn:function(ad){var ac=new a({model:ad.config});ac.render()}},{name:"remove_icon",title:"Remove",css_class:"remove-icon",on_click_fn:function(ac){$(".tooltip").remove();ac.remove()}}];q(r.prototype,{config_params:[{key:"name",label:"Name",type:"text",default_value:""},{key:"content_visible",type:"bool",default_value:true,hidden:true}],config_onchange:function(){this.track.set_name(this.track.config.get("values").name)},init:function(){},changed:function(){this.view.changed()},can_draw:function(){if(this.enabled&&this.prefs.content_visible){return true}return false},request_draw:function(){},_draw:function(ac){},to_dict:function(){},set_name:function(ac){this.old_name=this.prefs.name;this.prefs.name=ac;this.name_div.text(this.prefs.name)},revert_name:function(){if(this.old_name){this.prefs.name=this.old_name;this.name_div.text(this.prefs.name)}},remove:function(){this.changed();this.container.remove_drawable(this);var ac=this.view;this.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})},build_container_div:function(){},build_header_div:function(){},add_action_icon:function(ad,ai,ah,ag,ac,af){var ae=this;this.action_icons[ad]=$("<a/>").attr("title",ai).addClass("icon-button").addClass(ah).tooltip().click(function(){ag(ae)}).appendTo(this.icons_div);if(af){this.action_icons[ad].hide()}},build_action_icons:function(ac){var ae;for(var ad=0;ad<ac.length;ad++){ae=ac[ad];this.add_action_icon(ae.name,ae.title,ae.css_class,ae.on_click_fn,ae.prepend,ae.hide)}},update_icons:function(){},hide_contents:function(){},show_contents:function(){},get_drawables:function(){}});var A=function(ad,ac,ae){r.call(this,ad,ac,ae);this.obj_type=ae.obj_type;this.drawables=[]};q(A.prototype,r.prototype,{unpack_drawables:function(ae){this.drawables=[];var ad;for(var ac=0;ac<ae.length;ac++){ad=p(ae[ac],this.view,this);this.add_drawable(ad)}},init:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].init()}},_draw:function(ac){for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad]._draw(ac)}},to_dict:function(){var ad=[];for(var ac=0;ac<this.drawables.length;ac++){ad.push(this.drawables[ac].to_dict())}return{prefs:this.prefs,obj_type:this.obj_type,drawables:ad}},add_drawable:function(ac){this.drawables.push(ac);ac.container=this;this.changed()},add_drawable_before:function(ae,ac){this.changed();var ad=this.drawables.indexOf(ac);if(ad!==-1){this.drawables.splice(ad,0,ae);return true}return false},replace_drawable:function(ae,ac,ad){var af=this.drawables.indexOf(ae);if(af!==-1){this.drawables[af]=ac;if(ad){ae.container_div.replaceWith(ac.container_div)}this.changed()}return af},remove_drawable:function(ad){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);ad.container=null;this.changed();return true}return false},move_drawable:function(ad,ae){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);this.drawables.splice(ae,0,ad);this.changed();return true}return false},get_drawables:function(){return this.drawables},get_tracks:function(af){var ac=this.drawables.slice(0),ad=[],ae;while(ac.length!==0){ae=ac.shift();if(ae instanceof af){ad.push(ae)}else{if(ae.drawables){ac=ac.concat(ae.drawables)}}}return ad}});var P=function(ad,ac,af){q(af,{obj_type:"DrawableGroup",drag_handle_class:"group-handle"});A.call(this,ad,ac,af);this.content_div=$("<div/>").addClass("content-div").attr("id","group_"+this.id+"_content_div").appendTo(this.container_div);k(this.container_div,this);k(this.content_div,this);m(this.container_div,this.drag_handle_class,".group",this);this.filters_manager=new i.FiltersManager(this);this.header_div.after(this.filters_manager.parent_div);this.saved_filters_managers=[];if("drawables" in af){this.unpack_drawables(af.drawables)}if("filters" in af){var ae=this.filters_manager;this.filters_manager=new i.FiltersManager(this,af.filters);ae.parent_div.replaceWith(this.filters_manager.parent_div);if(af.filters.visible){this.setup_multitrack_filtering()}}};q(P.prototype,r.prototype,A.prototype,{action_icons_def:[r.prototype.action_icons_def[0],r.prototype.action_icons_def[1],{name:"composite_icon",title:"Show composite track",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_composite_track()}},{name:"filters_icon",title:"Filters",css_class:"filters-icon",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters();ac._restore_filter_managers()}else{ac.setup_multitrack_filtering();ac.request_draw({clear_tile_cache:true})}ac.filters_manager.toggle()}},r.prototype.action_icons_def[2]],build_container_div:function(){var ac=$("<div/>").addClass("group").attr("id","group_"+this.id);if(this.container){this.container.content_div.append(ac)}return ac},build_header_div:function(){var ac=$("<div/>").addClass("track-header");ac.append($("<div/>").addClass(this.drag_handle_class));this.name_div=$("<div/>").addClass("track-name").text(this.prefs.name).appendTo(ac);return ac},hide_contents:function(){this.tiles_div.hide()},show_contents:function(){this.tiles_div.show();this.request_draw()},update_icons:function(){var ae=this.drawables.length;if(ae===0){this.action_icons.composite_icon.hide();this.action_icons.filters_icon.hide()}else{if(ae===1){if(this.drawables[0] instanceof f){this.action_icons.composite_icon.show()}this.action_icons.filters_icon.hide()}else{var al,ak,ai,ao=true,ag=this.drawables[0].get_type(),ac=0;for(al=0;al<ae;al++){ai=this.drawables[al];if(ai.get_type()!==ag){can_composite=false;break}if(ai instanceof d){ac++}}if(ao||ac===1){this.action_icons.composite_icon.show()}else{this.action_icons.composite_icon.hide();$(".tooltip").remove()}if(ac>1&&ac===this.drawables.length){var ap={},ad;ai=this.drawables[0];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];ap[ad.name]=[ad]}for(al=1;al<this.drawables.length;al++){ai=this.drawables[al];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];if(ad.name in ap){ap[ad.name].push(ad)}}}this.filters_manager.remove_all();var af,ah,aj,am;for(var an in ap){af=ap[an];if(af.length===ac){ah=new i.NumberFilter({name:af[0].name,index:af[0].index});this.filters_manager.add_filter(ah)}}if(this.filters_manager.filters.length>0){this.action_icons.filters_icon.show()}else{this.action_icons.filters_icon.hide()}}else{this.action_icons.filters_icon.hide()}}}},_restore_filter_managers:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].filters_manager=this.saved_filters_managers[ac]}this.saved_filters_managers=[]},setup_multitrack_filtering:function(){if(this.filters_manager.filters.length>0){this.saved_filters_managers=[];for(var ac=0;ac<this.drawables.length;ac++){drawable=this.drawables[ac];this.saved_filters_managers.push(drawable.filters_manager);drawable.filters_manager=this.filters_manager}}this.filters_manager.init_filters()},show_composite_track:function(){var ad=new f(this.view,this.view,{name:this.prefs.name,drawables:this.drawables});var ac=this.container.replace_drawable(this,ad,true);ad.request_draw()},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);this.update_icons()},remove_drawable:function(ac){A.prototype.remove_drawable.call(this,ac);this.update_icons()},to_dict:function(){if(this.filters_manager.visible()){this._restore_filter_managers()}var ac=q(A.prototype.to_dict.call(this),{filters:this.filters_manager.to_dict()});if(this.filters_manager.visible()){this.setup_multitrack_filtering()}return ac},request_draw:function(ac){ab.each(this.drawables,function(ad){ad.request_draw(ac)})}});var Y=Backbone.View.extend({initialize:function(ac){q(ac,{obj_type:"View"});A.call(this,"View",ac.container,ac);this.chrom=null;this.vis_id=ac.vis_id;this.dbkey=ac.dbkey;this.label_tracks=[];this.tracks_to_be_redrawn=[];this.max_low=0;this.max_high=0;this.zoom_factor=3;this.min_separation=30;this.has_changes=false;this.load_chroms_deferred=null;this.render();this.canvas_manager=new y.CanvasManager(this.container.get(0).ownerDocument);this.reset();this.config=new j({track:this,params:[{key:"a_color",label:"A Color",type:"color",default_value:"#FF0000"},{key:"c_color",label:"C Color",type:"color",default_value:"#00FF00"},{key:"g_color",label:"G Color",type:"color",default_value:"#0000FF"},{key:"t_color",label:"T Color",type:"color",default_value:"#FF00FF"},{key:"n_color",label:"N Color",type:"color",default_value:"#AAAAAA"}],saved_values:ac.prefs,onchange:function(){track.request_redraw({clear_tile_cache:true})}})},render:function(){this.requested_redraw=false;var ae=this.container,ac=this;this.top_container=$("<div/>").addClass("top-container").appendTo(ae);this.browser_content_div=$("<div/>").addClass("content").appendTo(ae);this.bottom_container=$("<div/>").addClass("bottom-container").appendTo(ae);this.top_labeltrack=$("<div/>").addClass("top-labeltrack").appendTo(this.top_container);this.viewport_container=$("<div/>").addClass("viewport-container").attr("id","viewport-container").appendTo(this.browser_content_div);this.content_div=this.viewport_container;k(this.viewport_container,ac);this.intro_div=$("<div/>").addClass("intro").appendTo(this.viewport_container).hide();var af=$("<div/>").text("Add Datasets to Visualization").addClass("action-button").appendTo(this.intro_div).click(function(){y.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":ac.dbkey},function(ag){ab.each(ag,function(ah){ac.add_drawable(p(ah,ac,ac))})})});this.nav_labeltrack=$("<div/>").addClass("nav-labeltrack").appendTo(this.bottom_container);this.nav_container=$("<div/>").addClass("trackster-nav-container").prependTo(this.top_container);this.nav=$("<div/>").addClass("trackster-nav").appendTo(this.nav_container);this.overview=$("<div/>").addClass("overview").appendTo(this.bottom_container);this.overview_viewport=$("<div/>").addClass("overview-viewport").appendTo(this.overview);this.overview_close=$("<a/>").attr("title","Close overview").addClass("icon-button overview-close tooltip").hide().appendTo(this.overview_viewport);this.overview_highlight=$("<div/>").addClass("overview-highlight").hide().appendTo(this.overview_viewport);this.overview_box_background=$("<div/>").addClass("overview-boxback").appendTo(this.overview_viewport);this.overview_box=$("<div/>").addClass("overview-box").appendTo(this.overview_viewport);this.default_overview_height=this.overview_box.height();this.nav_controls=$("<div/>").addClass("nav-controls").appendTo(this.nav);this.chrom_select=$("<select/>").attr({name:"chrom"}).addClass("chrom-nav").append("<option value=''>Loading</option>").appendTo(this.nav_controls);var ad=function(ag){if(ag.type==="focusout"||(ag.keyCode||ag.which)===13||(ag.keyCode||ag.which)===27){if((ag.keyCode||ag.which)!==27){ac.go_to($(this).val())}$(this).hide();$(this).val("");ac.location_span.show();ac.chrom_select.show()}ag.stopPropagation()};this.nav_input=$("<input/>").addClass("nav-input").hide().bind("keyup focusout",ad).appendTo(this.nav_controls);this.location_span=$("<span/>").addClass("location").attr("title","Click to change location").tooltip({placement:"bottom"}).appendTo(this.nav_controls);this.location_span.click(function(){ac.location_span.hide();ac.chrom_select.hide();ac.nav_input.val(ac.chrom+":"+ac.low+"-"+ac.high);ac.nav_input.css("display","inline-block");ac.nav_input.select();ac.nav_input.focus();ac.nav_input.autocomplete({source:function(ai,ag){var aj=[],ah=$.map(ac.get_tracks(d),function(ak){return ak.data_manager.search_features(ai.term).success(function(al){aj=aj.concat(al)})});$.when.apply($,ah).done(function(){ag($.map(aj,function(ak){return{label:ak[0],value:ak[1]}}))})}})});if(this.vis_id!==undefined){this.hidden_input=$("<input/>").attr("type","hidden").val(this.vis_id).appendTo(this.nav_controls)}this.zo_link=$("<a/>").attr("id","zoom-out").attr("title","Zoom out").tooltip({placement:"bottom"}).click(function(){ac.zoom_out()}).appendTo(this.nav_controls);this.zi_link=$("<a/>").attr("id","zoom-in").attr("title","Zoom in").tooltip({placement:"bottom"}).click(function(){ac.zoom_in()}).appendTo(this.nav_controls);this.load_chroms_deferred=this.load_chroms({low:0});this.chrom_select.bind("change",function(){ac.change_chrom(ac.chrom_select.val())});this.browser_content_div.click(function(ag){$(this).find("input").trigger("blur")});this.browser_content_div.bind("dblclick",function(ag){ac.zoom_in(ag.pageX,this.viewport_container)});this.overview_box.bind("dragstart",function(ag,ah){this.current_x=ah.offsetX}).bind("drag",function(ag,ai){var aj=ai.offsetX-this.current_x;this.current_x=ai.offsetX;var ah=Math.round(aj/ac.viewport_container.width()*(ac.max_high-ac.max_low));ac.move_delta(-ah)});this.overview_close.click(function(){ac.reset_overview()});this.viewport_container.bind("draginit",function(ag,ah){if(ag.clientX>ac.viewport_container.width()-16){return false}}).bind("dragstart",function(ag,ah){ah.original_low=ac.low;ah.current_height=ag.clientY;ah.current_x=ah.offsetX}).bind("drag",function(ai,ak){var ag=$(this);var al=ak.offsetX-ak.current_x;var ah=ag.scrollTop()-(ai.clientY-ak.current_height);ag.scrollTop(ah);ak.current_height=ai.clientY;ak.current_x=ak.offsetX;var aj=Math.round(al/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}).bind("mousewheel",function(ai,ak,ah,ag){if(ah){ah*=50;var aj=Math.round(-ah/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}});this.top_labeltrack.bind("dragstart",function(ag,ah){return $("<div/>").addClass("zoom-area").css("height",ac.browser_content_div.height()+ac.top_labeltrack.height()+ac.nav_labeltrack.height()+1).appendTo($(this))}).bind("drag",function(ak,al){$(al.proxy).css({left:Math.min(ak.pageX,al.startX)-ac.container.offset().left,width:Math.abs(ak.pageX-al.startX)});var ah=Math.min(ak.pageX,al.startX)-ac.container.offset().left,ag=Math.max(ak.pageX,al.startX)-ac.container.offset().left,aj=(ac.high-ac.low),ai=ac.viewport_container.width();ac.update_location(Math.round(ah/ai*aj)+ac.low,Math.round(ag/ai*aj)+ac.low)}).bind("dragend",function(al,am){var ah=Math.min(al.pageX,am.startX),ag=Math.max(al.pageX,am.startX),aj=(ac.high-ac.low),ai=ac.viewport_container.width(),ak=ac.low;ac.low=Math.round(ah/ai*aj)+ak;ac.high=Math.round(ag/ai*aj)+ak;$(am.proxy).remove();ac.request_redraw()});this.add_label_track(new W(this,{content_div:this.top_labeltrack}));this.add_label_track(new W(this,{content_div:this.nav_labeltrack}));$(window).bind("resize",function(){if(this.resize_timer){clearTimeout(this.resize_timer)}this.resize_timer=setTimeout(function(){ac.resize_window()},500)});$(document).bind("redraw",function(){ac.redraw()});this.reset();$(window).trigger("resize")},get_base_color:function(ac){return this.config.get("values")[ac.toLowerCase()+"_color"]||this.config.get("values").n_color}});q(Y.prototype,A.prototype,{changed:function(){this.has_changes=true},update_intro_div:function(){if(this.drawables.length===0){this.intro_div.show()}else{this.intro_div.hide()}},trigger_navigate:function(ad,af,ac,ag){if(this.timer){clearTimeout(this.timer)}if(ag){var ae=this;this.timer=setTimeout(function(){ae.trigger("navigate",ad+":"+af+"-"+ac)},500)}else{view.trigger("navigate",ad+":"+af+"-"+ac)}},update_location:function(ac,ae){this.location_span.text(commatize(ac)+" - "+commatize(ae));this.nav_input.val(this.chrom+":"+commatize(ac)+"-"+commatize(ae));var ad=view.chrom_select.val();if(ad!==""){this.trigger_navigate(ad,view.low,view.high,true)}},load_chroms:function(ae){ae.num=x;var ac=this,ad=$.Deferred();$.ajax({url:galaxy_config.root+"api/genomes/"+this.dbkey,data:ae,dataType:"json",success:function(ag){if(ag.chrom_info.length===0){return}if(ag.reference){var ah=new D(ac);ac.add_label_track(ah);ac.reference_track=ah}ac.chrom_data=ag.chrom_info;var ak='<option value="">Select Chrom/Contig</option>';for(var aj=0,af=ac.chrom_data.length;aj<af;aj++){var ai=ac.chrom_data[aj].chrom;ak+='<option value="'+ai+'">'+ai+"</option>"}if(ag.prev_chroms){ak+='<option value="previous">Previous '+x+"</option>"}if(ag.next_chroms){ak+='<option value="next">Next '+x+"</option>"}ac.chrom_select.html(ak);ac.chrom_start_index=ag.start_index;ad.resolve(ag.chrom_info)},error:function(){alert("Could not load chroms for this dbkey: "+ac.dbkey)}});return ad},change_chrom:function(ah,ad,aj){var ae=this;if(!ae.chrom_data){ae.load_chroms_deferred.then(function(){ae.change_chrom(ah,ad,aj)});return}if(!ah||ah==="None"){return}if(ah==="previous"){ae.load_chroms({low:this.chrom_start_index-x});return}if(ah==="next"){ae.load_chroms({low:this.chrom_start_index+x});return}var ai=$.grep(ae.chrom_data,function(ak,al){return ak.chrom===ah})[0];if(ai===undefined){ae.load_chroms({chrom:ah},function(){ae.change_chrom(ah,ad,aj)});return}else{if(ah!==ae.chrom){ae.chrom=ah;ae.chrom_select.val(ae.chrom);ae.max_high=ai.len-1;ae.reset();for(var ag=0,ac=ae.drawables.length;ag<ac;ag++){var af=ae.drawables[ag];if(af.init){af.init()}}if(ae.reference_track){ae.reference_track.init()}}if(ad!==undefined&&aj!==undefined){ae.low=Math.max(ad,0);ae.high=Math.min(aj,ae.max_high)}else{ae.low=0;ae.high=ae.max_high}ae.reset_overview();ae.request_redraw()}},go_to:function(ag){ag=ag.replace(/,/g,"");ag=ag.replace(/:|\-/g," ");var ad=ag.split(/\s+/),af=ad[0],ae=(ad[1]?parseInt(ad[1],10):null),ac=(ad[2]?parseInt(ad[2],10):null);if(!ac){ae=ae-15;ac=ae+15}this.change_chrom(af,ae,ac)},move_fraction:function(ae){var ac=this;var ad=ac.high-ac.low;this.move_delta(ae*ad)},move_delta:function(af){var ac=this;var ae=ac.high-ac.low;if(ac.low-af<ac.max_low){ac.low=ac.max_low;ac.high=ac.max_low+ae}else{if(ac.high-af>ac.max_high){ac.high=ac.max_high;ac.low=ac.max_high-ae}else{ac.high-=af;ac.low-=af}}ac.request_redraw({data_fetch:false});if(this.redraw_on_move_fn){clearTimeout(this.redraw_on_move_fn)}this.redraw_on_move_fn=setTimeout(function(){ac.request_redraw()},200);var ad=ac.chrom_select.val();this.trigger_navigate(ad,ac.low,ac.high,true)},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);ac.init();this.changed();this.update_intro_div()},add_label_track:function(ac){ac.view=this;ac.init();this.label_tracks.push(ac)},remove_drawable:function(ae,ad){A.prototype.remove_drawable.call(this,ae);if(ad){var ac=this;ae.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})}},reset:function(){this.low=this.max_low;this.high=this.max_high;this.viewport_container.find(".yaxislabel").remove()},request_redraw:function(ad,ae){var ac=this,af=(ae?[ae]:ac.drawables);ab.each(af,function(ag){var ah=ab.find(ac.tracks_to_be_redrawn,function(ai){return ai[0]===ag});if(ah){ah[1]=ad}else{ac.tracks_to_be_redrawn.push([ag,ad])}});if(!this.requested_redraw){requestAnimationFrame(function(){ac._redraw()});this.requested_redraw=true}},_redraw:function(){this.requested_redraw=false;var ac=this.low,ag=this.high;if(ac<this.max_low){ac=this.max_low}if(ag>this.max_high){ag=this.max_high}var ad=this.high-this.low;if(this.high!==0&&ad<this.min_separation){ag=ac+this.min_separation}this.low=Math.floor(ac);this.high=Math.ceil(ag);this.update_location(this.low,this.high);this.resolution_px_b=this.viewport_container.width()/(this.high-this.low);var af=(this.low/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ah=((this.high-this.low)/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ae=13;this.overview_box.css({left:af,width:Math.max(ae,ah)}).show();if(ah<ae){this.overview_box.css("left",af-(ae-ah)/2)}if(this.overview_highlight){this.overview_highlight.css({left:af,width:ah})}ab.each(this.tracks_to_be_redrawn,function(ak){var ai=ak[0],aj=ak[1];if(ai){ai._draw(aj)}});this.tracks_to_be_redrawn=[];ab.each(this.label_tracks,function(ai){ai._draw()})},zoom_in:function(ad,ae){if(this.max_high===0||this.high-this.low<=this.min_separation){return}var af=this.high-this.low,ag=af/2+this.low,ac=(af/this.zoom_factor)/2;if(ad){ag=ad/this.viewport_container.width()*(this.high-this.low)+this.low}this.low=Math.round(ag-ac);this.high=Math.round(ag+ac);this.changed();this.request_redraw()},zoom_out:function(){if(this.max_high===0){return}var ad=this.high-this.low,ae=ad/2+this.low,ac=(ad*this.zoom_factor)/2;this.low=Math.round(ae-ac);this.high=Math.round(ae+ac);this.changed();this.request_redraw()},resize_window:function(){this.viewport_container.height(this.container.height()-this.top_container.height()-this.bottom_container.height());this.request_redraw()},set_overview:function(ae){if(this.overview_drawable){if(this.overview_drawable.dataset.id===ae.dataset.id){return}this.overview_viewport.find(".track").remove()}var ad=ae.copy({content_div:this.overview_viewport}),ac=this;ad.header_div.hide();ad.is_overview=true;ac.overview_drawable=ad;this.overview_drawable.postdraw_actions=function(){ac.overview_highlight.show().height(ac.overview_drawable.content_div.height());ac.overview_viewport.height(ac.overview_drawable.content_div.height()+ac.overview_box.outerHeight());ac.overview_close.show();ac.resize_window()};ac.overview_drawable.request_draw();this.changed()},reset_overview:function(){$(".tooltip").remove();this.overview_viewport.find(".track-tile").remove();this.overview_viewport.height(this.default_overview_height);this.overview_box.height(this.default_overview_height);this.overview_close.hide();this.overview_highlight.hide();view.resize_window();view.overview_drawable=null}});var s=R.Tool.extend({defaults:{track:null},initialize:function(ac){R.Tool.prototype.initialize.call(this,ac);var ad=true;if(ac.tool_state!==undefined&&ac.tool_state.hidden!==undefined){ad=ac.tool_state.hidden}this.set("hidden",ad);this.remove_inputs(["data","hidden_data","conditional"])},state_dict:function(ac){return ab.extend(this.get_inputs_dict(),{hidden:!this.is_visible()})}});var v=Backbone.View.extend({events:{"change input":"update_value"},render:function(){var ae=this.$el.addClass("param-row"),af=this.model;var ac=$("<div>").addClass("param-label").text(af.get("label")).appendTo(ae);var ad=$("<div/>").addClass("param-input").html(af.get("html")).appendTo(ae);ad.find(":input").val(af.get("value"));$("<div style='clear: both;'/>").appendTo(ae)},update_value:function(ac){this.model.set_value($(ac.target).val())}});var aa=Backbone.View.extend({initialize:function(ac){this.model.on("change:hidden",this.set_visible,this)},render:function(){var ad=this;tool=this.model,parent_div=this.$el.addClass("dynamic-tool").hide();parent_div.bind("drag",function(ah){ah.stopPropagation()}).click(function(ah){ah.stopPropagation()}).bind("dblclick",function(ah){ah.stopPropagation()}).keydown(function(ah){ah.stopPropagation()});var ae=$("<div class='tool-name'>").appendTo(parent_div).text(tool.get("name"));tool.get("inputs").each(function(ai){var ah=new v({model:ai});ah.render();parent_div.append(ah.$el)});parent_div.find("input").click(function(){$(this).select()});var af=$("<div>").addClass("param-row").appendTo(parent_div);var ag=$("<input type='submit'>").attr("value","Run on complete dataset").appendTo(af);var ac=$("<input type='submit'>").attr("value","Run on visible region").appendTo(af);ac.click(function(){ad.run_on_region()});ag.click(function(){ad.run_on_dataset()});if(tool.is_visible()){this.$el.show()}},set_visible:function(){if(this.model.is_visible()){this.$el.show()}else{this.$el.hide()}},update_params:function(){for(var ac=0;ac<this.params.length;ac++){this.params[ac].update_value()}},run_on_dataset:function(){var ac=this.model;this.run({target_dataset_id:this.model.get("track").dataset.id,action:"rerun",tool_id:ac.id},null,function(ad){Galaxy.modal.show({title:ac.get("name")+" is Running",body:ac.get("name")+" is running on the complete dataset. Tool outputs are in dataset's history.",buttons:{Close:function(){Galaxy.modal.hide()}}})})},run_on_region:function(){var ad=this.model.get("track"),ag=this.model,ai=new y.GenomeRegion({chrom:ad.view.chrom,start:ad.view.low,end:ad.view.high}),aj={target_dataset_id:ad.dataset.id,action:"rerun",tool_id:ag.id,regions:[ai.toJSON()]},ah=ad,al=ag.get("name")+ah.tool_region_and_parameters_str(ai),ac;if(ah.container===view){var ak=new P(view,view,{name:ad.prefs.name});var af=ah.container.replace_drawable(ah,ak,false);ak.container_div.insertBefore(ah.view.content_div.children()[af]);ak.add_drawable(ah);ah.container_div.appendTo(ak.content_div);ac=ak}else{ac=ah.container}var ae=new ah.constructor(view,ac,{name:al,hda_ldda:"hda"});ae.init_for_tool_data();ae.change_mode(ah.mode);ae.set_filters_manager(ah.filters_manager.copy(ae));ae.update_icons();ac.add_drawable(ae);ae.tiles_div.text("Starting job.");this.run(aj,ae,function(am){ae.set_dataset(new X.Dataset(am));ae.tiles_div.text("Running job.");ae.init()})},run:function(ac,ae,af){ac.inputs=this.model.get_inputs_dict();var ad=new l.ServerStateDeferred({ajax_settings:{url:galaxy_config.root+"api/tools",data:JSON.stringify(ac),dataType:"json",contentType:"application/json",type:"POST"},interval:2000,success_fn:function(ag){return ag!=="pending"}});$.when(ad.go()).then(function(ag){if(ag==="no converter"){ae.container_div.addClass("error");ae.content_div.text(J)}else{if(ag.error){ae.container_div.addClass("error");ae.content_div.text(z+ag.message)}else{af(ag)}}})}});var E=function(ac,ad){L.Scaler.call(this,ad);this.filter=ac};E.prototype.gen_val=function(ac){if(this.filter.high===Number.MAX_VALUE||this.filter.low===-Number.MAX_VALUE||this.filter.low===this.filter.high){return this.default_val}return((parseFloat(ac[this.filter.index])-this.filter.low)/(this.filter.high-this.filter.low))};var j=Backbone.Model.extend({initialize:function(ad){var ac={};ab.each(ad.params,function(ae){ac[ae.key]=(ae.type==="color"&&!ae.default_value?l.get_random_color():ae.default_value)});if(ad.saved_values){ab.each(this.get("params"),function(ae){if(ae.key in ad.saved_values){ac[ae.key]=ad.saved_values[ae.key]}})}this.set("values",ac)},set_param_default_value:function(ad,ac){var ae=ab.find(this.get("params"),function(af){return af.key===ad});if(ae){ae.default_value=ac}},set_param_value:function(ac,ad){var ae=ab.find(this.get("params"),function(af){return af.key===ac});if(ae){if(typeof ad==="string"||ad instanceof String){if(ad.trim()===""){ad=ae.default_value}else{if(ae.type==="float"){ad=parseFloat(ad)}else{if(ae.type==="int"){ad=parseInt(ad,10)}}}}}if(this.get("values")[ac]!==ad){this.get("values")[ac]=ad;this.trigger("change:values");return true}else{return false}}});var a=Backbone.View.extend({render:function(){var aj=this.model;var ac=$("<div/>").keydown(function(ak){ak.stopPropagation()});var ai;function ah(ao,ak){for(var at=0;at<ao.length;at++){ai=ao[at];if(ai.hidden){continue}var am="param_"+at;var ax=aj.get("values")[ai.key];var az=$("<div class='form-row' />").appendTo(ak);az.append($("<label />").attr("for",am).text(ai.label+":"));if(ai.type==="bool"){az.append($('<input type="checkbox" />').attr("id",am).attr("name",am).attr("checked",ax))}else{if(ai.type==="text"){az.append($('<input type="text"/>').attr("id",am).val(ax).click(function(){$(this).select()}))}else{if(ai.type==="select"){var av=$("<select />").attr("id",am);for(var aq=0;aq<ai.options.length;aq++){$("<option/>").text(ai.options[aq].label).attr("value",ai.options[aq].value).appendTo(av)}av.val(ax);az.append(av)}else{if(ai.type==="color"){var ay=$("<div/>").appendTo(az),au=$("<input/>").attr({id:am,name:am}).val(ax).addClass("color-input").appendTo(ay).click(function(aB){$(".tooltip").removeClass("in");var aA=$(this).siblings(".tooltip").addClass("in");aA.css({left:$(this).position().left+$(this).width()+5,top:$(this).position().top+Galaxy.modal.scrollTop()-($(aA).height()/2)+($(this).height()/2)}).show();aA.click(function(aC){aC.stopPropagation()});$(document).bind("click.color-picker",function(){aA.hide();$(document).unbind("click.color-picker")});aB.stopPropagation()}),ar=$("<a href='javascript:void(0)'/>").addClass("icon-button arrow-circle").appendTo(ay).attr("title","Set new random color").tooltip(),aw=$("<div class='tooltip right' style='position: absolute;' />").appendTo(ay).hide(),an=$("<div class='tooltip-inner' style='text-align: inherit'></div>").appendTo(aw),al=$("<div class='tooltip-arrow'></div>").appendTo(aw),ap=$.farbtastic(an,{width:100,height:100,callback:au,color:ax});ay.append($("<div/>").css("clear","both"));(function(aA){ar.click(function(){aA.setColor(l.get_random_color())})})(ap)}else{az.append($("<input />").attr("id",am).attr("name",am).val(ax))}}}}if(ai.help){az.append($("<div class='help'/>").text(ai.help))}}}ah(aj.get("params"),ac);var ad=this,ag=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ae=function(){ad.update_from_form($(Galaxy.modal.el));Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},af=function(ak){if((ak.keyCode||ak.which)===27){ag()}else{if((ak.keyCode||ak.which)===13){ae()}}};$(window).bind("keypress.check_enter_esc",af);Galaxy.modal.show({title:"Configure",body:ac,buttons:{Cancel:ag,Ok:ae}})},update_from_form:function(ac){var ad=this.model;var ae=false;ab.each(ad.get("params"),function(ah,af){if(!ah.hidden){var ai="param_"+af;var ag=ac.find("#"+ai).val();if(ah.type==="bool"){ag=ac.find("#"+ai).is(":checked")}ae=ad.set_param_value(ah.key,ag)||ae}})}});var c=function(ac,af,ag,ad,ae){this.track=ac;this.region=af;this.low=af.get("start");this.high=af.get("end");this.w_scale=ag;this.canvas=ad;this.html_elt=$("<div class='track-tile'/>").append(ad);this.data=ae;this.stale=false};c.prototype.predisplay_actions=function(){};var M=function(ac,af,ag,ad,ae){c.call(this,ac,af,ag,ad,ae)};M.prototype.predisplay_actions=function(){};var O=function(af,am,ao,ae,ah,ai,ap,ad,al){c.call(this,af,am,ao,ae,ah);this.mode=ai;this.all_slotted=ad;this.feature_mapper=al;this.has_icons=false;if(ap){this.has_icons=true;var aj=this;ae=this.html_elt.children()[0],message_div=$("<div/>").addClass("tile-message").css({height:F,width:ae.width}).prependTo(this.html_elt);var ak=new y.GenomeRegion({chrom:af.view.chrom,start:this.low,end:this.high}),an=ah.length,ag=$("<a/>").addClass("icon more-down").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data including depth").tooltip().appendTo(message_div),ac=$("<a/>").addClass("icon more-across").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data excluding depth").tooltip().appendTo(message_div);ag.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.DEEP_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()});ac.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.BROAD_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()})}};q(O.prototype,c.prototype);O.prototype.predisplay_actions=function(){var ad=this,ac={};if(ad.mode!=="Pack"){return}$(this.html_elt).hover(function(){this.hovered=true;$(this).mousemove()},function(){this.hovered=false;$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()}).mousemove(function(ao){if(!this.hovered){return}var aj=$(this).offset(),an=ao.pageX-aj.left,am=ao.pageY-aj.top,at=ad.feature_mapper.get_feature_data(an,am),ak=(at?at[0]:null);$(this).parents(".track-content").children(".overlay").children(".feature-popup").each(function(){if(!ak||$(this).attr("id")!==ak.toString()){$(this).remove()}});if(at){var af=ac[ak];if(!af){var ap={name:at[3],start:at[1],end:at[2],strand:at[4]},ai=ad.track.filters_manager.filters,ah;for(var al=0;al<ai.length;al++){ah=ai[al];ap[ah.name]=at[ah.index]}af=$("<div/>").attr("id",ak).addClass("feature-popup");var au=$("<table/>"),ar,aq,av;for(ar in ap){aq=ap[ar];av=$("<tr/>").appendTo(au);$("<th/>").appendTo(av).text(ar);$("<td/>").attr("align","left").appendTo(av).text(typeof(aq)==="number"?V(aq,2):aq)}af.append($("<div class='feature-popup-inner'>").append(au));ac[ak]=af}af.appendTo($(this).parents(".track-content").children(".overlay"));var ag=an+parseInt(ad.html_elt.css("left"),10)-af.width()/2,ae=am+parseInt(ad.html_elt.css("top"),10)+7;af.css("left",ag+"px").css("top",ae+"px")}else{if(!ao.isPropagationStopped()){ao.stopPropagation();$(this).siblings().each(function(){$(this).trigger(ao)})}}}).mouseleave(function(){$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()})};var g=function(ad,ac,ae){q(ae,{drag_handle_class:"draghandle"});r.call(this,ad,ac,ae);this.dataset=null;if(ae.dataset){this.dataset=(ae.dataset instanceof Backbone.Model?ae.dataset:new X.Dataset(ae.dataset))}this.dataset_check_type="converted_datasets_state";this.data_url_extra_params={};this.data_query_wait=("data_query_wait" in ae?ae.data_query_wait:K);this.data_manager=("data_manager" in ae?ae.data_manager:new y.GenomeDataManager({dataset:this.dataset,genome:new y.Genome({key:ad.dbkey,chroms_info:{chrom_info:ad.chrom_data}}),data_mode_compatible:this.data_and_mode_compatible,can_subset:this.can_subset}));this.min_height_px=16;this.max_height_px=800;this.visible_height_px=this.prefs.height;this.content_div=$("<div class='track-content'>").appendTo(this.container_div);if(this.container){this.container.content_div.append(this.container_div);if(!("resize" in ae)||ae.resize){this.add_resize_handle()}}};q(g.prototype,r.prototype,{action_icons_def:[{name:"mode_icon",title:"Set display mode",css_class:"chevron-expand",on_click_fn:function(){}},r.prototype.action_icons_def[0],{name:"overview_icon",title:"Set as overview",css_class:"application-dock-270",on_click_fn:function(ac){ac.view.set_overview(ac)}},r.prototype.action_icons_def[1],{name:"filters_icon",title:"Filters",css_class:"ui-slider-050",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters()}else{ac.filters_manager.init_filters()}ac.filters_manager.toggle()}},{name:"tools_icon",title:"Tool",css_class:"hammer",on_click_fn:function(ac){ac.tool.toggle();if(ac.tool.is_visible()){ac.set_name(ac.prefs.name+ac.tool_region_and_parameters_str())}else{ac.revert_name()}$(".tooltip").remove()}},{name:"param_space_viz_icon",title:"Tool parameter space visualization",css_class:"arrow-split",on_click_fn:function(ac){var af='<strong>Tool</strong>: <%= track.tool.get("name") %><br/><strong>Dataset</strong>: <%= track.prefs.name %><br/><strong>Region(s)</strong>: <select name="regions"><option value="cur">current viewing area</option><option value="bookmarks">bookmarks</option><option value="both">current viewing area and bookmarks</option></select>',ae=ab.template(af,{track:ac});var ah=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ad=function(){var aj=$('select[name="regions"] option:selected').val(),al,ai=new y.GenomeRegion({chrom:view.chrom,start:view.low,end:view.high}),ak=ab.map($(".bookmark"),function(am){return new y.GenomeRegion({from_str:$(am).children(".position").text()})});if(aj==="cur"){al=[ai]}else{if(aj==="bookmarks"){al=ak}else{al=[ai].concat(ak)}}Galaxy.modal.hide();window.location.href=galaxy_config.root+"visualization/sweepster?"+$.param({dataset_id:ac.dataset.id,hda_ldda:ac.dataset.get("hda_ldda"),regions:JSON.stringify(new Backbone.Collection(al).toJSON())})},ag=function(ai){if((ai.keyCode||ai.which)===27){ah()}else{if((ai.keyCode||ai.which)===13){ad()}}};Galaxy.modal.show({title:"Visualize tool parameter space and output from different parameter settings?",body:ae,buttons:{No:ah,Yes:ad}})}},r.prototype.action_icons_def[2]],can_draw:function(){return this.dataset&&r.prototype.can_draw.call(this)},build_container_div:function(){return $("<div/>").addClass("track").attr("id","track_"+this.id)},build_header_div:function(){var ac=$("<div class='track-header'/>");if(this.view.editor){this.drag_div=$("<div/>").addClass(this.drag_handle_class).appendTo(ac)}this.name_div=$("<div/>").addClass("track-name").appendTo(ac).text(this.prefs.name).attr("id",this.prefs.name.replace(/\s+/g,"-").replace(/[^a-zA-Z0-9\-]/g,"").toLowerCase());return ac},set_dataset:function(ac){this.dataset=ac;this.data_manager.set("dataset",ac)},on_resize:function(){this.request_draw({clear_tile_cache:true})},add_resize_handle:function(){var ac=this;var af=false;var ae=false;var ad=$("<div class='track-resize'>");$(ac.container_div).hover(function(){if(ac.prefs.content_visible){af=true;ad.show()}},function(){af=false;if(!ae){ad.hide()}});ad.hide().bind("dragstart",function(ag,ah){ae=true;ah.original_height=$(ac.content_div).height()}).bind("drag",function(ah,ai){var ag=Math.min(Math.max(ai.original_height+ai.deltaY,ac.min_height_px),ac.max_height_px);$(ac.tiles_div).css("height",ag);ac.visible_height_px=(ac.max_height_px===ag?0:ag);ac.on_resize()}).bind("dragend",function(ag,ah){ac.tile_cache.clear();ae=false;if(!af){ad.hide()}ac.config.get("values").height=ac.visible_height_px;ac.changed()}).appendTo(ac.container_div)},set_display_modes:function(af,ai){this.display_modes=af;this.mode=(ai?ai:(this.config&&this.config.get("values").mode?this.config.get("values").mode:this.display_modes[0]));this.action_icons.mode_icon.attr("title","Set display mode (now: "+this.mode+")");var ad=this,ag={};for(var ae=0,ac=ad.display_modes.length;ae<ac;ae++){var ah=ad.display_modes[ae];ag[ah]=function(aj){return function(){ad.change_mode(aj);ad.icons_div.show();ad.container_div.mouseleave(function(){ad.icons_div.hide()})}}(ah)}make_popupmenu(this.action_icons.mode_icon,ag)},build_action_icons:function(){r.prototype.build_action_icons.call(this,this.action_icons_def);if(this.display_modes!==undefined){this.set_display_modes(this.display_modes)}},hide_contents:function(){this.tiles_div.hide();this.container_div.find(".yaxislabel, .track-resize").hide()},show_contents:function(){this.tiles_div.show();this.container_div.find(".yaxislabel, .track-resize").show();this.request_draw()},get_type:function(){if(this instanceof W){return"LabelTrack"}else{if(this instanceof D){return"ReferenceTrack"}else{if(this instanceof h){return"LineTrack"}else{if(this instanceof T){return"ReadTrack"}else{if(this instanceof Z){return"VariantTrack"}else{if(this instanceof f){return"CompositeTrack"}else{if(this instanceof d){return"FeatureTrack"}}}}}}}return""},show_message:function(ac){this.tiles_div.remove();return $("<span/>").addClass("message").html(ac).appendTo(this.content_div)},init:function(ae){var ad=this;ad.enabled=false;ad.tile_cache.clear();ad.data_manager.clear();ad.content_div.children().remove();ad.container_div.removeClass("nodata error pending");ad.tiles_div=$("<div/>").addClass("tiles").appendTo(ad.content_div);if(!ad.dataset.id){return}var ac=$.Deferred(),af={hda_ldda:ad.dataset.get("hda_ldda"),data_type:this.dataset_check_type,chrom:ad.view.chrom,retry:ae};$.getJSON(this.dataset.url(),af,function(ag){if(!ag||ag==="error"||ag.kind==="error"){ad.container_div.addClass("error");var ah=ad.show_message(o);if(ag.message){ah.append($("<a href='javascript:void(0);'></a>").text("View error").click(function(){Galaxy.modal.show({title:"Trackster Error",body:"<pre>"+ag.message+"</pre>",buttons:{Close:function(){Galaxy.modal.hide()}}})}));ah.append($("<span/>").text(" "));ah.append($("<a href='javascript:void(0);'></a>").text("Try again").click(function(){ad.init(true)}))}}else{if(ag==="no converter"){ad.container_div.addClass("error");ad.show_message(J)}else{if(ag==="no data"||(ag.data!==undefined&&(ag.data===null||ag.data.length===0))){ad.container_div.addClass("nodata");ad.show_message(G)}else{if(ag==="pending"){ad.container_div.addClass("pending");ad.show_message(w);setTimeout(function(){ad.init()},ad.data_query_wait)}else{if(ag==="data"||ag.status==="data"){if(ag.valid_chroms){ad.valid_chroms=ag.valid_chroms;ad.update_icons()}ad.tiles_div.text(U);if(ad.view.chrom){ad.tiles_div.text("");ad.tiles_div.css("height",ad.visible_height_px+"px");ad.enabled=true;$.when.apply($,ad.predraw_init()).done(function(){ac.resolve();ad.container_div.removeClass("nodata error pending");ad.request_draw()})}else{ac.resolve()}}}}}}});this.update_icons();return ac},predraw_init:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(af&&af.min&&af.max){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.config.set_param_default_value("min_value",ae);ac.config.set_param_default_value("max_value",ag);ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},get_drawables:function(){return this}});var N=function(ae,ad,ag){g.call(this,ae,ad,ag);var ac=this;m(ac.container_div,ac.drag_handle_class,".group",ac);this.filters_manager=new i.FiltersManager(this,("filters" in ag?ag.filters:null));this.data_manager.set("filters_manager",this.filters_manager);this.filters_available=false;this.tool=(ag.tool?new s(ab.extend(ag.tool,{track:this,tool_state:ag.tool_state})):null);this.tile_cache=new y.Cache(Q);this.left_offset=0;if(this.header_div){this.set_filters_manager(this.filters_manager);if(this.tool){var af=new aa({model:this.tool});af.render();this.dynamic_tool_div=af.$el;this.header_div.after(this.dynamic_tool_div)}}this.tiles_div=$("<div/>").addClass("tiles").appendTo(this.content_div);if(!this.prefs.content_visible){this.tiles_div.hide()}this.overlay_div=$("<div/>").addClass("overlay").appendTo(this.content_div);if(ag.mode){this.change_mode(ag.mode)}};q(N.prototype,r.prototype,g.prototype,{action_icons_def:g.prototype.action_icons_def.concat([{name:"show_more_rows_icon",title:"To minimize track height, not all feature rows are displayed. Click to display more rows.",css_class:"exclamation",on_click_fn:function(ac){$(".tooltip").remove();ac.slotters[ac.view.resolution_px_b].max_rows*=2;ac.request_draw({clear_tile_cache:true})},hide:true}]),copy:function(ac){var ad=this.to_dict();q(ad,{data_manager:this.data_manager});var ae=new this.constructor(this.view,ac,ad);ae.change_mode(this.mode);ae.enabled=this.enabled;return ae},set_filters_manager:function(ac){this.filters_manager=ac;this.header_div.after(this.filters_manager.parent_div)},to_dict:function(){return{track_type:this.get_type(),dataset:{id:this.dataset.id,hda_ldda:this.dataset.get("hda_ldda")},prefs:this.prefs,mode:this.mode,filters:this.filters_manager.to_dict(),tool_state:(this.tool?this.tool.state_dict():{})}},set_min_max:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(isNaN(parseFloat(ac.prefs.min_value))||isNaN(parseFloat(ac.prefs.max_value))){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},change_mode:function(ad){var ac=this;ac.mode=ad;ac.config.get("values").mode=ad;if(ad==="Auto"){this.data_manager.clear()}ac.request_draw({clear_tile_cache:true});this.action_icons.mode_icon.attr("title","Set display mode (now: "+ac.mode+")");return ac},update_icons:function(){var ac=this;if(ac.filters_available){ac.action_icons.filters_icon.show()}else{ac.action_icons.filters_icon.hide()}if(ac.tool){ac.action_icons.tools_icon.show();ac.action_icons.param_space_viz_icon.show()}else{ac.action_icons.tools_icon.hide();ac.action_icons.param_space_viz_icon.hide()}},_gen_tile_cache_key:function(ad,ac){return ad+"_"+ac},request_draw:function(ac){if(ac&&ac.clear_tile_cache){this.tile_cache.clear()}this.view.request_redraw(ac,this)},before_draw:function(){this.max_height_px=0},_draw:function(aq){if(!this.can_draw()){return}var an=aq&&aq.clear_after,al=this.view.low,ag=this.view.high,aj=ag-al,ad=this.view.container.width(),ap=this.view.resolution_px_b,af=1/ap;if(this.is_overview){al=this.view.max_low;ag=this.view.max_high;ap=ad/(view.max_high-view.max_low);af=1/ap}this.before_draw();this.tiles_div.children().addClass("remove");var ac=Math.floor(al/(af*S)),ak,am,ah,ai=[],ao=[];while((ac*S*af)<ag){ak=Math.floor(ac*S*af);am=new y.GenomeRegion({chrom:this.view.chrom,start:ak,end:Math.min(ak+Math.ceil(S*af),this.view.max_high)});ah=this.draw_helper(am,ap,aq);ai.push(ah);$.when(ah).then(function(ar){ao.push(ar)});ac+=1}if(!an){this.tiles_div.children(".remove").removeClass("remove").remove()}var ae=this;$.when.apply($,ai).then(function(){ae.tiles_div.children(".remove").remove();ao=ab.filter(ao,function(ar){return ar!==null});if(ao.length!==0){ae.postdraw_actions(ao,ad,ap,an)}})},_add_yaxis_label:function(af,ah){var ad=this,ag=(af==="max"?"top":"bottom"),ai=(af==="max"?"max":"min"),ac=(af==="max"?"max_value":"min_value"),ae=this.container_div.find(".yaxislabel."+ag);ah=ah||function(){ad.request_draw({clear_tile_cache:true})};if(ae.length!==0){ae.text(ad.prefs[ac])}else{ae=$("<div/>").text(ad.prefs[ac]).make_text_editable({num_cols:12,on_finish:function(aj){$(".tooltip").remove();ad.config.set_param_value(ac,aj);ah()},help_text:"Set "+ai+" value"}).addClass("yaxislabel "+ag).css("color",this.prefs.label_color);this.container_div.prepend(ae)}},postdraw_actions:function(af,ag,ai,ac){var ae=ab.filter(af,function(aj){return(aj instanceof M)});if(ae.length>0){this.max_height_px=0;var ad=this;ab.each(af,function(aj){if(!(aj instanceof M)){aj.html_elt.remove();ad.draw_helper(aj.region,ai,{force:true,mode:"Coverage"})}});ad._add_yaxis_label("max")}else{this.container_div.find(".yaxislabel").remove();var ah=ab.find(af,function(aj){return aj.has_icons});if(ah){ab.each(af,function(aj){if(!aj.has_icons){aj.html_elt.css("padding-top",F)}})}}},get_mode:function(ac){return this.mode},update_auto_mode:function(ac){},_get_drawables:function(){return[this]},draw_helper:function(al,an,ao){if(!ao){ao={}}var ad=ao.force,ai=ao.mode||this.mode,af=1/an,ae=this,ag=this._get_drawables(),am=this._gen_tile_cache_key(an,al),ah=function(ap){return(ap&&"track" in ap)};var aj=(ad?undefined:ae.tile_cache.get_elt(am));if(aj){if(ah(aj)){ae.show_tile(aj,an)}return aj}if(ao.data_fetch===false){return null}var ak=function(){var ap=(ab.find(C,function(ar){return ar===ai})?"Coverage":ai);var aq=ab.map(ag,function(ar){return ar.data_manager.get_data(al,ap,af,ae.data_url_extra_params)});if(view.reference_track){aq.push(view.reference_track.data_manager.get_data(al,ai,af,view.reference_track.data_url_extra_params))}return aq};var ac=$.Deferred();ae.tile_cache.set_elt(am,ac);$.when.apply($,ak()).then(function(){var ap=ak(),av=ap,aB;if(view.reference_track){aB=view.reference_track.data_manager.subset_entry(ap.pop(),al)}var aw=[],at=[];ab.each(ag,function(aG,aD){var aF=aG.mode,aE=av[aD];if(aF==="Auto"){aF=aG.get_mode(aE);aG.update_auto_mode(aF)}aw.push(aF);at.push(aG.get_canvas_height(aE,aF,an,aq))});var au=ae.view.canvas_manager.new_canvas(),ax=al.get("start"),aC=al.get("end"),ar=0,aq=Math.ceil((aC-ax)*an)+ae.left_offset,az=ab.max(at),ay;au.width=aq;au.height=(ao.height||az);var aA=au.getContext("2d");aA.translate(ae.left_offset,0);if(ag.length>1){aA.globalAlpha=0.5;aA.globalCompositeOperation="source-over"}ab.each(ag,function(aE,aD){ay=aE.draw_tile(av[aD],aA,aw[aD],al,an,aB)});if(ay!==undefined){ae.tile_cache.set_elt(am,ay);ae.show_tile(ay,an)}ac.resolve(ay)});return ac},get_canvas_height:function(ac,ae,af,ad){return this.visible_height_px},_draw_line_track_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.LinePainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new M(this,ag,ai,af,ac.data)},draw_tile:function(ac,ad,ag,af,ah,ae){},show_tile:function(ae,ah){var ad=this,ac=ae.html_elt;ae.predisplay_actions();var ag=(ae.low-(this.is_overview?this.view.max_low:this.view.low))*ah;if(this.left_offset){ag-=this.left_offset}ac.css("left",ag);if(ac.hasClass("remove")){ac.removeClass("remove")}else{this.tiles_div.append(ac)}ac.css("height","auto");this.max_height_px=Math.max(this.max_height_px,ac.height()-2);ac.parent().children().css("height",this.max_height_px+"px");var af=this.max_height_px;if(this.visible_height_px!==0){af=Math.min(this.max_height_px,this.visible_height_px)}this.tiles_div.css("height",af+"px")},tool_region_and_parameters_str:function(af){var ac=this,ae=(af!==undefined?af.toString():"all"),ad=ab.values(ac.tool.get_inputs_dict()).join(", ");return" - region=["+ae+"], parameters=["+ad+"]"},data_and_mode_compatible:function(ac,ad){if(ad==="Auto"){return true}else{if(ad==="Coverage"){return ac.dataset_type==="bigwig"}else{if(ac.dataset_type==="bigwig"||ac.extra_info==="no_detail"){return false}else{return true}}}},can_subset:function(ac){if(ac.message||ac.extra_info==="no_detail"){return false}else{if(ac.dataset_type==="bigwig"){return(ac.data[1][0]-ac.data[0][0]===1)}}return true},init_for_tool_data:function(){this.data_manager.set("data_type","raw_data");this.data_query_wait=1000;this.dataset_check_type="state"}});var W=function(ad,ac){var ae={resize:false};g.call(this,ad,ac,ae);this.container_div.addClass("label-track")};q(W.prototype,g.prototype,{build_header_div:function(){},init:function(){this.enabled=true},predraw_init:function(){},_draw:function(ag){var ae=this.view,af=ae.high-ae.low,aj=Math.floor(Math.pow(10,Math.floor(Math.log(af)/Math.log(10)))),ac=Math.floor(ae.low/aj)*aj,ah=this.view.container.width(),ad=$("<div/>").addClass("label-container");while(ac<ae.high){var ai=(ac-ae.low)/af*ah;ad.append($("<div/>").addClass("label").text(commatize(ac)).css({left:ai}));ac+=aj}this.content_div.children(":first").remove();this.content_div.append(ad)}});var f=function(ad,ac,ag){N.call(this,ad,ac,ag);this.drawables=[];if("drawables" in ag){var af;for(var ae=0;ae<ag.drawables.length;ae++){af=ag.drawables[ae];this.drawables[ae]=p(af,ad,null);if(af.left_offset>this.left_offset){this.left_offset=af.left_offset}}this.enabled=true}ab.each(this.drawables,function(ah){if(ah instanceof d||ah instanceof T){ah.change_mode("Coverage")}});this.update_icons();this.obj_type="CompositeTrack"};q(f.prototype,N.prototype,{display_modes:C,action_icons_def:[{name:"composite_icon",title:"Show individual tracks",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_group()}}].concat(N.prototype.action_icons_def),to_dict:A.prototype.to_dict,add_drawable:A.prototype.add_drawable,unpack_drawables:A.prototype.unpack_drawables,change_mode:function(ac){N.prototype.change_mode.call(this,ac);for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad].change_mode(ac)}},init:function(){var ae=[];for(var ad=0;ad<this.drawables.length;ad++){ae.push(this.drawables[ad].init())}var ac=this;$.when.apply($,ae).then(function(){ac.enabled=true;ac.request_draw()})},update_icons:function(){this.action_icons.filters_icon.hide();this.action_icons.tools_icon.hide();this.action_icons.param_space_viz_icon.hide()},can_draw:r.prototype.can_draw,_get_drawables:function(){return this.drawables},show_group:function(){var af=new P(this.view,this.container,{name:this.prefs.name}),ac;for(var ae=0;ae<this.drawables.length;ae++){ac=this.drawables[ae];ac.update_icons();af.add_drawable(ac);ac.container=af;af.content_div.append(ac.container_div)}var ad=this.container.replace_drawable(this,af,true);af.request_draw({clear_tile_cache:true})},before_draw:function(){N.prototype.before_draw.call(this);var ad=ab.min(ab.map(this.drawables,function(ae){return ae.prefs.min_value})),ac=ab.max(ab.map(this.drawables,function(ae){return ae.prefs.max_value}));this.prefs.min_value=ad;this.prefs.max_value=ac;ab.each(this.drawables,function(ae){ae.prefs.min_value=ad;ae.prefs.max_value=ac})},update_all_min_max:function(){var ac=this;ab.each(this.drawables,function(ad){ad.prefs.min_value=ac.prefs.min_value;ad.prefs.max_value=ac.prefs.max_value});this.request_draw({clear_tile_cache:true})},postdraw_actions:function(ai,ac,al,ah){N.prototype.postdraw_actions.call(this,ai,ac,al,ah);var ag=-1,ae;for(ae=0;ae<ai.length;ae++){var aj=ai[ae].html_elt.find("canvas").height();if(aj>ag){ag=aj}}for(ae=0;ae<ai.length;ae++){var af=ai[ae];if(af.html_elt.find("canvas").height()!==ag){this.draw_helper(af.region,al,{force:true,height:ag});af.html_elt.remove()}}var ad=this,ak=function(){ad.update_all_min_max()};this._add_yaxis_label("min",ak);this._add_yaxis_label("max",ak)}});var D=function(ac){N.call(this,ac,{content_div:ac.top_labeltrack},{resize:false});this.left_offset=ac.canvas_manager.char_width_px;this.container_div.addClass("reference-track");this.data_url=galaxy_config.root+"api/genomes/"+this.view.dbkey;this.data_url_extra_params={reference:true};this.data_manager=new y.GenomeReferenceDataManager({data_url:this.data_url,can_subset:this.can_subset});this.hide_contents()};q(D.prototype,r.prototype,N.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"height",type:"int",default_value:13,hidden:true}]),build_header_div:function(){},init:function(){this.data_manager.clear();this.enabled=true},predraw_init:function(){},can_draw:r.prototype.can_draw,draw_helper:function(ad,ae,ac){if(ae>this.view.canvas_manager.char_width_px){this.tiles_div.show();return N.prototype.draw_helper.call(this,ad,ae,ac)}else{this.tiles_div.hide();return null}},can_subset:function(ac){return true},draw_tile:function(ae,ak,af,ah,al){var ad=this.data_manager.subset_entry(ae,ah),aj=ad.data;var ac=ak.canvas;ak.font=ak.canvas.manager.default_font;ak.textAlign="center";for(var ag=0,ai=aj.length;ag<ai;ag++){ak.fillStyle=this.view.get_base_color(aj[ag]);ak.fillText(aj[ag],Math.floor(ag*al),10)}return new c(this,ah,al,ac,ad)}});var h=function(ad,ac,ae){this.mode="Histogram";N.call(this,ad,ac,ae)};q(h.prototype,r.prototype,N.prototype,{display_modes:C,config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Color",type:"color"},{key:"min_value",label:"Min Value",type:"float",default_value:undefined},{key:"max_value",label:"Max Value",type:"float",default_value:undefined},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:30,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},before_draw:function(){},draw_tile:function(ac,ad,af,ae,ag){return this._draw_line_track_tile(ac,ad,af,ae,ag)},can_subset:function(ac){return(ac.data[1][0]-ac.data[0][0]===1)},postdraw_actions:function(ad,ae,af,ac){this._add_yaxis_label("max");this._add_yaxis_label("min")}});var t=function(ad,ac,ae){this.mode="Heatmap";N.call(this,ad,ac,ae)};q(t.prototype,r.prototype,N.prototype,{display_modes:["Heatmap"],config_params:ab.union(r.prototype.config_params,[{key:"pos_color",label:"Positive Color",type:"color",default_value:"#FF8C00"},{key:"neg_color",label:"Negative Color",type:"color",default_value:"#4169E1"},{key:"min_value",label:"Min Value",type:"float",default_value:-1},{key:"max_value",label:"Max Value",type:"float",default_value:1},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:500,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.DiagonalHeatmapPainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new c(this,ag,ai,af,ac.data)}});var d=function(ad,ac,ae){N.call(this,ad,ac,ae);this.container_div.addClass("feature-track");this.summary_draw_height=30;this.slotters={};this.start_end_dct={};this.left_offset=200;this.set_painter_from_config()};q(d.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true,help:"Show the number of items in each bin when drawing summary histogram"},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"connector_style",label:"Connector style",type:"select",default_value:"fishbones",options:[{label:"Line with arrows",value:"fishbone"},{label:"Arcs",value:"arcs"}]},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.set_painter_from_config();this.request_draw({clear_tile_cache:true})},set_painter_from_config:function(){if(this.config.get("values").connector_style==="arcs"){this.painter=L.ArcLinkedFeaturePainter}else{this.painter=L.LinkedFeaturePainter}},postdraw_actions:function(am,ae,an,al){N.prototype.postdraw_actions.call(this,am,ae,an,al);var ag=this,ah;if(ag.filters_manager){var af=ag.filters_manager.filters,aj;for(aj=0;aj<af.length;aj++){af[aj].update_ui_elt()}var ai=false,ak,ad;for(ah=0;ah<am.length;ah++){if(am[ah].data.length){ak=am[ah].data[0];for(aj=0;aj<af.length;aj++){ad=af[aj];if(ad.applies_to(ak)&&ad.min!==ad.max){ai=true;break}}}}if(ag.filters_available!==ai){ag.filters_available=ai;if(!ag.filters_available){ag.filters_manager.hide()}ag.update_icons()}}if(am[0] instanceof O){var ac=true;for(ah=0;ah<am.length;ah++){if(!am[ah].all_slotted){ac=false;break}}if(!ac){this.action_icons.show_more_rows_icon.show()}else{this.action_icons.show_more_rows_icon.hide()}}else{this.action_icons.show_more_rows_icon.hide()}},update_auto_mode:function(ac){if(this.mode==="Auto"){if(ac==="no_detail"){ac="feature spans"}this.action_icons.mode_icon.attr("title","Set display mode (now: Auto/"+ac+")")}},incremental_slots:function(ag,ac,af){var ad=this.view.canvas_manager.dummy_context,ae=this.slotters[ag];if(!ae||(ae.mode!==af)){ae=new (u.FeatureSlotter)(ag,af,B,function(ah){return ad.measureText(ah)});this.slotters[ag]=ae}return ae.slot_features(ac)},get_mode:function(ac){if(ac.extra_info==="no_detail"||this.is_overview){mode="no_detail"}else{if(this.view.high-this.view.low>I){mode="Squish"}else{mode="Pack"}}return mode},get_canvas_height:function(ac,ag,ah,ad){if(ag==="Coverage"||ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var af=this.incremental_slots(ah,ac.data,ag);var ae=new (this.painter)(null,null,null,this.prefs,ag);return Math.max(this.min_height_px,ae.get_required_height(af,ad))}},draw_tile:function(am,aq,ao,af,aj,ae){var ap=this,ad=aq.canvas,ax=af.get("start"),ac=af.get("end"),ag=this.left_offset;if(am.dataset_type==="bigwig"){return this._draw_line_track_tile(am,aq,ao,af,aj)}var ai=[],an=this.slotters[aj].slots;all_slotted=true;if(am.data){var ak=this.filters_manager.filters;for(var ar=0,au=am.data.length;ar<au;ar++){var ah=am.data[ar];var at=false;var al;for(var aw=0,aB=ak.length;aw<aB;aw++){al=ak[aw];al.update_attrs(ah);if(!al.keep(ah)){at=true;break}}if(!at){ai.push(ah);if(!(ah[0] in an)){all_slotted=false}}}}var aA=(this.filters_manager.alpha_filter?new E(this.filters_manager.alpha_filter):null),ay=(this.filters_manager.height_filter?new E(this.filters_manager.height_filter):null),az=new (this.painter)(ai,ax,ac,this.prefs,ao,aA,ay,ae,function(aC){return ap.view.get_base_color(aC)});var av=null;aq.fillStyle=this.prefs.block_color;aq.font=aq.canvas.manager.default_font;aq.textAlign="right";if(am.data){av=az.draw(aq,ad.width,ad.height,aj,an);av.translation=-ag}return new O(ap,af,aj,ad,am.data,ao,am.message,all_slotted,av)}});var Z=function(ad,ac,ae){N.call(this,ad,ac,ae);this.painter=L.VariantPainter;this.summary_draw_height=30;this.left_offset=30};q(Z.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Histogram color",type:"color"},{key:"show_sample_data",label:"Show sample data",type:"bool",default_value:true},{key:"show_labels",label:"Show summary and sample labels",type:"bool",default_value:true},{key:"summary_height",label:"Locus summary height",type:"float",default_value:20},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,af,ah,ag,ai){if(ac.dataset_type==="bigwig"){return this._draw_line_track_tile(ac,af,"Histogram",ag,ai)}else{var ae=this.view,ad=new (this.painter)(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah,function(aj){return ae.get_base_color(aj)});ad.draw(af,af.canvas.width,af.canvas.height,ai);return new c(this,ag,ai,af.canvas,ac.data)}},get_canvas_height:function(ac,ag,ah,ae){if(ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var ad=(this.dataset.get_metadata("sample_names")?this.dataset.get_metadata("sample_names").length:0);if(ad===0&&ac.data.length!==0){ad=ac.data[0][7].match(/,/g);if(ad===null){ad=1}else{ad=ad.length+1}}var af=new (this.painter)(null,null,null,this.prefs,ag);return af.get_required_height(ad)}},predraw_init:function(){var ac=[g.prototype.predraw_init.call(this)];if(!this.dataset.get_metadata("sample_names")){ac.push(this.dataset.fetch())}return ac},postdraw_actions:function(ag,ah,aj,ad){N.prototype.postdraw_actions.call(this,ag,ah,aj,ad);var af=ab.filter(ag,function(ak){return(ak instanceof M)});var ae=this.dataset.get_metadata("sample_names");if(af.length===0&&this.prefs.show_labels&&ae&&ae.length>1){var ac;if(this.container_div.find(".yaxislabel.variant").length===0){ac=this.prefs.summary_height/2;this.tiles_div.prepend($("<div/>").text("Summary").addClass("yaxislabel variant top").css({"font-size":ac+"px",top:(this.prefs.summary_height-ac)/2+"px"}));if(this.prefs.show_sample_data){var ai=ae.join("<br/>");this.tiles_div.prepend($("<div/>").html(ai).addClass("yaxislabel variant top sample").css({top:this.prefs.summary_height,}))}}ac=(this.mode==="Squish"?5:10)+"px";$(this.tiles_div).find(".sample").css({"font-size":ac,"line-height":ac});$(this.tiles_div).find(".yaxislabel").css("color",this.prefs.label_color)}else{this.container_div.find(".yaxislabel.variant").remove()}}});var T=function(ad,ac,ae){d.call(this,ad,ac,ae);this.painter=(ad.reference_track?L.RefBasedReadPainter:L.ReadPainter);this.update_icons()};q(T.prototype,r.prototype,N.prototype,d.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block and sense strand color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_insertions",label:"Show insertions",type:"bool",default_value:false},{key:"show_differences",label:"Show differences only",type:"bool",default_value:true},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})}});var e={CompositeTrack:f,DrawableGroup:P,DiagonalHeatmapTrack:t,FeatureTrack:d,LineTrack:h,ReadTrack:T,VariantTrack:Z,VcfTrack:Z};var p=function(ae,ad,ac){if("copy" in ae){return ae.copy(ac)}else{var af=ae.obj_type;if(!af){af=ae.track_type}return new e[af](ad,ac,ae)}};return{TracksterView:Y,DrawableGroup:P,LineTrack:h,FeatureTrack:d,DiagonalHeatmapTrack:t,ReadTrack:T,VariantTrack:Z,CompositeTrack:f,object_from_template:p}}); \ No newline at end of file diff -r c1bd56cbe034548518eb87463e1524b45fc6b52a -r cf7ff18cb3573c42c4bd77459112b40298df0ff6 static/scripts/packed/viz/trackster_ui.js --- a/static/scripts/packed/viz/trackster_ui.js +++ b/static/scripts/packed/viz/trackster_ui.js @@ -1,1 +1,1 @@ -define(["base","libs/underscore","viz/trackster/slotting","viz/trackster/painters","viz/trackster/tracks","viz/visualization"],function(a,f,e,c,d,h){var j=d.object_from_template;var b=function(l,k){if(!k){k={}}var m=new IconButtonCollection(f.map(l,function(n){return new IconButton(f.extend(n,k))}));return new IconButtonMenuView({collection:m})};var g=a.Base.extend({initialize:function(k){this.baseURL=k},createButtonMenu:function(){var k=this,l=b([{icon_class:"plus-button",title:"Add tracks",on_click:function(){h.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":view.dbkey},function(m){f.each(m,function(n){view.add_drawable(j(n,view,view))})})}},{icon_class:"block--plus",title:"Add group",on_click:function(){view.add_drawable(new d.DrawableGroup(view,view,{name:"New Group"}))}},{icon_class:"bookmarks",title:"Bookmarks",on_click:function(){force_right_panel(($("div#right").css("right")=="0px"?"hide":"show"))}},{icon_class:"globe",title:"Circster",on_click:function(){window.location=k.baseURL+"visualization/circster?id="+view.vis_id}},{icon_class:"disk--arrow",title:"Save",on_click:function(){Galaxy.modal.show({title:"Saving...",body:"progress"});var m=[];$(".bookmark").each(function(){m.push({position:$(this).children(".position").text(),annotation:$(this).children(".annotation").text()})});var n=(view.overview_drawable?view.overview_drawable.prefs.name:null),o={view:view.to_dict(),viewport:{chrom:view.chrom,start:view.low,end:view.high,overview:n},bookmarks:m};$.ajax({url:galaxy_config.root+"visualization/save",type:"POST",dataType:"json",data:{id:view.vis_id,title:view.prefs.name,dbkey:view.dbkey,type:"trackster",vis_json:JSON.stringify(o)}}).success(function(p){Galaxy.modal.hide();view.vis_id=p.vis_id;view.has_changes=false;window.history.pushState({},"",p.url+window.location.hash)}).error(function(){Galaxy.modal.show({title:"Could Not Save",body:"Could not save visualization. Please try again later.",buttons:{Cancel:function(){Galaxy.modal.hide()}}})})}},{icon_class:"cross-circle",title:"Close",on_click:function(){window.location=galaxy_config.root+"visualization"}}],{tooltip_config:{placement:"bottom"}});this.buttonMenu=l;return l},add_bookmarks:function(){var k=this,l=this.baseURL;Galaxy.modal.show({title:"Select dataset for new bookmarks",body:"progress"});$.ajax({url:this.baseURL+"/visualization/list_histories",data:{"f-dbkey":view.dbkey},error:function(){alert("Grid failed")},success:function(m){Galaxy.modal.show({title:"Select dataset for new bookmarks",body:m,buttons:{Cancel:function(){Galaxy.modal.hide()},Insert:function(){$("input[name=id]:checked,input[name=ldda_ids]:checked").first().each(function(){var n,o=$(this).val();if($(this).attr("name")==="id"){n={hda_id:o}}else{n={ldda_id:o}}$.ajax({url:this.baseURL+"/visualization/bookmarks_from_dataset",data:n,dataType:"json"}).then(function(p){for(i=0;i<p.data.length;i++){var q=p.data[i];k.add_bookmark(q[0],q[1])}})});Galaxy.modal.hide()}}})}})},add_bookmark:function(o,m,k){var q=$("#right .unified-panel-body"),s=$("<div/>").addClass("bookmark").appendTo(q);var t=$("<div/>").addClass("position").appendTo(s),p=$("<a href=''/>").text(o).appendTo(t).click(function(){view.go_to(o);return false}),n=$("<div/>").text(m).appendTo(s);if(k){var r=$("<div/>").addClass("delete-icon-container").prependTo(s).click(function(){s.slideUp("fast");s.remove();view.has_changes=true;return false}),l=$("<a href=''/>").addClass("icon-button delete").appendTo(r);n.make_text_editable({num_rows:3,use_textarea:true,help_text:"Edit bookmark note"}).addClass("annotation")}view.has_changes=true;return s},create_visualization:function(p,k,o,q,n){var m=this,l=new d.TracksterView(p);l.editor=true;$.when(l.load_chroms_deferred).then(function(B){if(k){var z=k.chrom,r=k.start,w=k.end,t=k.overview;if(z&&(r!==undefined)&&w){l.change_chrom(z,r,w)}else{l.change_chrom(B[0].chrom)}}else{l.change_chrom(B[0].chrom)}if(o){var u,s,v;for(var x=0;x<o.length;x++){l.add_drawable(j(o[x],l,l))}}l.update_intro_div();var A;for(var x=0;x<l.drawables.length;x++){if(l.drawables[x].prefs.name===t){l.set_overview(l.drawables[x]);break}}if(q){var y;for(var x=0;x<q.length;x++){y=q[x];m.add_bookmark(y.position,y.annotation,n)}}l.has_changes=false});return l},init_keyboard_nav:function(k){$(document).keydown(function(l){if($(l.srcElement).is(":input")){return}switch(l.which){case 37:k.move_fraction(0.25);break;case 38:var m=Math.round(k.viewport_container.height()/15);k.viewport_container.scrollTop(k.viewport_container.scrollTop()-20);break;case 39:k.move_fraction(-0.25);break;case 40:var m=Math.round(k.viewport_container.height()/15);k.viewport_container.scrollTop(k.viewport_container.scrollTop()+20);break}})}});return{object_from_template:j,TracksterUI:g}}); \ No newline at end of file +define(["base","libs/underscore","viz/trackster/slotting","viz/trackster/painters","viz/trackster/tracks","viz/visualization"],function(a,f,e,c,d,h){var j=d.object_from_template;var b=function(l,k){if(!k){k={}}var m=new IconButtonCollection(f.map(l,function(n){return new IconButton(f.extend(n,k))}));return new IconButtonMenuView({collection:m})};var g=a.Base.extend({initialize:function(k){this.baseURL=k},createButtonMenu:function(){var k=this,l=b([{icon_class:"plus-button",title:"Add tracks",on_click:function(){h.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":view.dbkey},function(m){f.each(m,function(n){view.add_drawable(j(n,view,view))})})}},{icon_class:"block--plus",title:"Add group",on_click:function(){view.add_drawable(new d.DrawableGroup(view,view,{name:"New Group"}))}},{icon_class:"bookmarks",title:"Bookmarks",on_click:function(){force_right_panel(($("div#right").css("right")=="0px"?"hide":"show"))}},{icon_class:"globe",title:"Circster",on_click:function(){window.location=k.baseURL+"visualization/circster?id="+view.vis_id}},{icon_class:"disk--arrow",title:"Save",on_click:function(){Galaxy.modal.show({title:"Saving...",body:"progress"});var m=[];$(".bookmark").each(function(){m.push({position:$(this).children(".position").text(),annotation:$(this).children(".annotation").text()})});var n=(view.overview_drawable?view.overview_drawable.prefs.name:null),o={view:view.to_dict(),viewport:{chrom:view.chrom,start:view.low,end:view.high,overview:n},bookmarks:m};$.ajax({url:galaxy_config.root+"visualization/save",type:"POST",dataType:"json",data:{id:view.vis_id,title:view.prefs.name,dbkey:view.dbkey,type:"trackster",vis_json:JSON.stringify(o)}}).success(function(p){Galaxy.modal.hide();view.vis_id=p.vis_id;view.has_changes=false;window.history.pushState({},"",p.url+window.location.hash)}).error(function(){Galaxy.modal.show({title:"Could Not Save",body:"Could not save visualization. Please try again later.",buttons:{Cancel:function(){Galaxy.modal.hide()}}})})}},{icon_class:"cross-circle",title:"Close",on_click:function(){window.location=galaxy_config.root+"visualization"}}],{tooltip_config:{placement:"bottom"}});this.buttonMenu=l;return l},add_bookmarks:function(){var k=this,l=this.baseURL;Galaxy.modal.show({title:"Select dataset for new bookmarks",body:"progress"});$.ajax({url:this.baseURL+"/visualization/list_histories",data:{"f-dbkey":view.dbkey},error:function(){alert("Grid failed")},success:function(m){Galaxy.modal.show({title:"Select dataset for new bookmarks",body:m,buttons:{Cancel:function(){Galaxy.modal.hide()},Insert:function(){$("input[name=id]:checked,input[name=ldda_ids]:checked").first().each(function(){var n,o=$(this).val();if($(this).attr("name")==="id"){n={hda_id:o}}else{n={ldda_id:o}}$.ajax({url:this.baseURL+"/visualization/bookmarks_from_dataset",data:n,dataType:"json"}).then(function(p){for(i=0;i<p.data.length;i++){var q=p.data[i];k.add_bookmark(q[0],q[1])}})});Galaxy.modal.hide()}}})}})},add_bookmark:function(o,m,k){var q=$("#right .unified-panel-body"),s=$("<div/>").addClass("bookmark").appendTo(q);var t=$("<div/>").addClass("position").appendTo(s),p=$("<a href=''/>").text(o).appendTo(t).click(function(){view.go_to(o);return false}),n=$("<div/>").text(m).appendTo(s);if(k){var r=$("<div/>").addClass("delete-icon-container").prependTo(s).click(function(){s.slideUp("fast");s.remove();view.has_changes=true;return false}),l=$("<a href=''/>").addClass("icon-button delete").appendTo(r);n.make_text_editable({num_rows:3,use_textarea:true,help_text:"Edit bookmark note"}).addClass("annotation")}view.has_changes=true;return s},create_visualization:function(p,k,o,q,n){var m=this,l=new d.TracksterView(p);l.editor=true;$.when(l.load_chroms_deferred).then(function(B){if(k){var z=k.chrom,r=k.start,w=k.end,t=k.overview;if(z&&(r!==undefined)&&w){l.change_chrom(z,r,w)}else{l.change_chrom(B[0].chrom)}}else{l.change_chrom(B[0].chrom)}if(o){var u,s,v;for(var x=0;x<o.length;x++){l.add_drawable(j(o[x],l,l))}}l.update_intro_div();var A;for(var x=0;x<l.drawables.length;x++){if(l.drawables[x].prefs.name===t){l.set_overview(l.drawables[x]);break}}if(q){var y;for(var x=0;x<q.length;x++){y=q[x];m.add_bookmark(y.position,y.annotation,n)}}l.has_changes=false});return l},init_keyboard_nav:function(k){$(document).keyup(function(l){if($(l.srcElement).is(":input")){return}switch(l.which){case 37:k.move_fraction(0.25);break;case 38:var m=Math.round(k.viewport_container.height()/15);k.viewport_container.scrollTop(k.viewport_container.scrollTop()-20);break;case 39:k.move_fraction(-0.25);break;case 40:var m=Math.round(k.viewport_container.height()/15);k.viewport_container.scrollTop(k.viewport_container.scrollTop()+20);break}})}});return{object_from_template:j,TracksterUI:g}}); \ No newline at end of file diff -r c1bd56cbe034548518eb87463e1524b45fc6b52a -r cf7ff18cb3573c42c4bd77459112b40298df0ff6 static/scripts/viz/trackster/tracks.js --- a/static/scripts/viz/trackster/tracks.js +++ b/static/scripts/viz/trackster/tracks.js @@ -972,9 +972,12 @@ view.location_span.show(); view.chrom_select.show(); } + + // Suppress key presses so that they do impact viz. + e.stopPropagation(); }; this.nav_input = $("<input/>").addClass("nav-input").hide().bind("keyup focusout", submit_nav).appendTo(this.nav_controls); - this.location_span = $("<span/>").addClass("location").attr('original-title', 'Click to change location').tooltip( { placement: 'bottom' } ).appendTo(this.nav_controls); + this.location_span = $("<span/>").addClass("location").attr('title', 'Click to change location').tooltip( { placement: 'bottom' } ).appendTo(this.nav_controls); this.location_span.click(function() { view.location_span.hide(); view.chrom_select.hide(); @@ -1299,7 +1302,7 @@ view.reference_track.init(); } } - if (low && high) { + if (low !== undefined && high !== undefined) { view.low = Math.max(low, 0); view.high = Math.min(high, view.max_high); } diff -r c1bd56cbe034548518eb87463e1524b45fc6b52a -r cf7ff18cb3573c42c4bd77459112b40298df0ff6 static/scripts/viz/trackster_ui.js --- a/static/scripts/viz/trackster_ui.js +++ b/static/scripts/viz/trackster_ui.js @@ -292,7 +292,7 @@ */ init_keyboard_nav: function(view) { // Keyboard navigation. Scroll ~7% of height when scrolling up/down. - $(document).keydown(function(e) { + $(document).keyup(function(e) { // Do not navigate if arrow keys used in input element. if ($(e.srcElement).is(':input')) { return; https://bitbucket.org/galaxy/galaxy-central/commits/db5c4a4c9699/ Changeset: db5c4a4c9699 User: jeremy goecks Date: 2014-02-25 22:43:51 Summary: Automated merge of stable to default. Affected #: 4 files diff -r 43dfc8ccc72ea49314c25dce9248d66d279dfe01 -r db5c4a4c9699f304ee1e18854a7f402b790353e6 static/scripts/packed/viz/trackster/tracks.js --- a/static/scripts/packed/viz/trackster/tracks.js +++ b/static/scripts/packed/viz/trackster/tracks.js @@ -1,1 +1,1 @@ -define(["libs/underscore","viz/visualization","viz/trackster/util","viz/trackster/slotting","viz/trackster/painters","viz/trackster/filters","mvc/data","mvc/tools"],function(ab,y,l,u,L,i,X,R){var q=ab.extend;var n={};var k=function(ac,ad){n[ac.attr("id")]=ad};var m=function(ac,ad,af,ae){af=".group";n[ac.attr("id")]=ae;ac.bind("drag",{handle:"."+ad,relative:true},function(an,ao){var am=$(this),ar=$(this).parent(),aj=ar.children(".track,.group"),al=n[$(this).attr("id")],ai,ah,ap,ag,ak;ah=$(this).parents(af);if(ah.length!==0){ap=ah.position().top;ag=ap+ah.outerHeight();var aq=n[ah.attr("id")];if(ao.offsetY<ap){$(this).insertBefore(ah);aq.remove_drawable(al);aq.container.add_drawable_before(al,aq);return}else{if(ao.offsetY>ag){$(this).insertAfter(ah);aq.remove_drawable(al);aq.container.add_drawable(al);return}}}ah=null;for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));ap=ai.position().top;ag=ap+ai.outerHeight();if(ai.is(af)&&this!==ai.get(0)&&ao.offsetY>=ap&&ao.offsetY<=ag){if(ao.offsetY-ap<ag-ao.offsetY){ai.find(".content-div").prepend(this)}else{ai.find(".content-div").append(this)}if(al.container){al.container.remove_drawable(al)}n[ai.attr("id")].add_drawable(al);return}}for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));if(ao.offsetY<ai.position().top&&!(ai.hasClass("reference-track")||ai.hasClass("intro"))){break}}if(ak===aj.length){if(this!==aj.get(ak-1)){ar.append(this);n[ar.attr("id")].move_drawable(al,ak)}}else{if(this!==aj.get(ak)){$(this).insertBefore(aj.get(ak));n[ar.attr("id")].move_drawable(al,(ao.deltaY>0?ak-1:ak))}}}).bind("dragstart",function(){$(this).addClass("dragging")}).bind("dragend",function(){$(this).removeClass("dragging")})};var F=20,B=100,I=12000,S=400,K=5000,x=100,o="Cannot display dataset due to an error. ",J="A converter for this dataset is not installed. Please check your datatypes_conf.xml file.",G="No data for this chrom/contig.",w="Preparing data. This can take a while for a large dataset. If the visualization is saved and closed, preparation will continue in the background.",z="Tool cannot be rerun: ",b="Loading data...",U="Ready for display",Q=10,H=20,C=["Histogram","Line","Filled","Intensity"];function V(ad,ac){if(!ac){ac=0}var ae=Math.pow(10,ac);return Math.round(ad*ae)/ae}var r=function(ad,ac,af){if(!r.id_counter){r.id_counter=0}this.id=r.id_counter++;this.view=ad;this.container=ac;this.drag_handle_class=af.drag_handle_class;this.is_overview=false;this.action_icons={};this.config=new j({params:this.config_params,onchange:this.config_onchange,saved_values:af.prefs});this.prefs=this.config.get("values");if(!this.prefs.name){this.prefs.name=af.name}if(this.config_onchange){this.config.on("change:values",this.config_onchange,this)}this.container_div=this.build_container_div();this.header_div=this.build_header_div();if(this.header_div){this.container_div.append(this.header_div);this.icons_div=$("<div/>").addClass("track-icons").hide().appendTo(this.header_div);this.build_action_icons(this.action_icons_def);this.header_div.append($("<div style='clear: both'/>"));this.header_div.dblclick(function(ag){ag.stopPropagation()});var ae=this;this.container_div.hover(function(){ae.icons_div.show()},function(){ae.icons_div.hide()});$("<div style='clear: both'/>").appendTo(this.container_div)}};r.prototype.action_icons_def=[{name:"toggle_icon",title:"Hide/show content",css_class:"toggle",on_click_fn:function(ac){if(ac.prefs.content_visible){ac.action_icons.toggle_icon.addClass("toggle-expand").removeClass("toggle");ac.hide_contents();ac.prefs.content_visible=false}else{ac.action_icons.toggle_icon.addClass("toggle").removeClass("toggle-expand");ac.prefs.content_visible=true;ac.show_contents()}}},{name:"settings_icon",title:"Edit settings",css_class:"gear",on_click_fn:function(ad){var ac=new a({model:ad.config});ac.render()}},{name:"remove_icon",title:"Remove",css_class:"remove-icon",on_click_fn:function(ac){$(".tooltip").remove();ac.remove()}}];q(r.prototype,{config_params:[{key:"name",label:"Name",type:"text",default_value:""},{key:"content_visible",type:"bool",default_value:true,hidden:true}],config_onchange:function(){this.track.set_name(this.track.config.get("values").name)},init:function(){},changed:function(){this.view.changed()},can_draw:function(){if(this.enabled&&this.prefs.content_visible){return true}return false},request_draw:function(){},_draw:function(ac){},to_dict:function(){},set_name:function(ac){this.old_name=this.prefs.name;this.prefs.name=ac;this.name_div.text(this.prefs.name)},revert_name:function(){if(this.old_name){this.prefs.name=this.old_name;this.name_div.text(this.prefs.name)}},remove:function(){this.changed();this.container.remove_drawable(this);var ac=this.view;this.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})},build_container_div:function(){},build_header_div:function(){},add_action_icon:function(ad,ai,ah,ag,ac,af){var ae=this;this.action_icons[ad]=$("<a/>").attr("title",ai).addClass("icon-button").addClass(ah).tooltip().click(function(){ag(ae)}).appendTo(this.icons_div);if(af){this.action_icons[ad].hide()}},build_action_icons:function(ac){var ae;for(var ad=0;ad<ac.length;ad++){ae=ac[ad];this.add_action_icon(ae.name,ae.title,ae.css_class,ae.on_click_fn,ae.prepend,ae.hide)}},update_icons:function(){},hide_contents:function(){},show_contents:function(){},get_drawables:function(){}});var A=function(ad,ac,ae){r.call(this,ad,ac,ae);this.obj_type=ae.obj_type;this.drawables=[]};q(A.prototype,r.prototype,{unpack_drawables:function(ae){this.drawables=[];var ad;for(var ac=0;ac<ae.length;ac++){ad=p(ae[ac],this.view,this);this.add_drawable(ad)}},init:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].init()}},_draw:function(ac){for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad]._draw(ac)}},to_dict:function(){var ad=[];for(var ac=0;ac<this.drawables.length;ac++){ad.push(this.drawables[ac].to_dict())}return{prefs:this.prefs,obj_type:this.obj_type,drawables:ad}},add_drawable:function(ac){this.drawables.push(ac);ac.container=this;this.changed()},add_drawable_before:function(ae,ac){this.changed();var ad=this.drawables.indexOf(ac);if(ad!==-1){this.drawables.splice(ad,0,ae);return true}return false},replace_drawable:function(ae,ac,ad){var af=this.drawables.indexOf(ae);if(af!==-1){this.drawables[af]=ac;if(ad){ae.container_div.replaceWith(ac.container_div)}this.changed()}return af},remove_drawable:function(ad){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);ad.container=null;this.changed();return true}return false},move_drawable:function(ad,ae){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);this.drawables.splice(ae,0,ad);this.changed();return true}return false},get_drawables:function(){return this.drawables},get_tracks:function(af){var ac=this.drawables.slice(0),ad=[],ae;while(ac.length!==0){ae=ac.shift();if(ae instanceof af){ad.push(ae)}else{if(ae.drawables){ac=ac.concat(ae.drawables)}}}return ad}});var P=function(ad,ac,af){q(af,{obj_type:"DrawableGroup",drag_handle_class:"group-handle"});A.call(this,ad,ac,af);this.content_div=$("<div/>").addClass("content-div").attr("id","group_"+this.id+"_content_div").appendTo(this.container_div);k(this.container_div,this);k(this.content_div,this);m(this.container_div,this.drag_handle_class,".group",this);this.filters_manager=new i.FiltersManager(this);this.header_div.after(this.filters_manager.parent_div);this.saved_filters_managers=[];if("drawables" in af){this.unpack_drawables(af.drawables)}if("filters" in af){var ae=this.filters_manager;this.filters_manager=new i.FiltersManager(this,af.filters);ae.parent_div.replaceWith(this.filters_manager.parent_div);if(af.filters.visible){this.setup_multitrack_filtering()}}};q(P.prototype,r.prototype,A.prototype,{action_icons_def:[r.prototype.action_icons_def[0],r.prototype.action_icons_def[1],{name:"composite_icon",title:"Show composite track",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_composite_track()}},{name:"filters_icon",title:"Filters",css_class:"filters-icon",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters();ac._restore_filter_managers()}else{ac.setup_multitrack_filtering();ac.request_draw({clear_tile_cache:true})}ac.filters_manager.toggle()}},r.prototype.action_icons_def[2]],build_container_div:function(){var ac=$("<div/>").addClass("group").attr("id","group_"+this.id);if(this.container){this.container.content_div.append(ac)}return ac},build_header_div:function(){var ac=$("<div/>").addClass("track-header");ac.append($("<div/>").addClass(this.drag_handle_class));this.name_div=$("<div/>").addClass("track-name").text(this.prefs.name).appendTo(ac);return ac},hide_contents:function(){this.tiles_div.hide()},show_contents:function(){this.tiles_div.show();this.request_draw()},update_icons:function(){var ae=this.drawables.length;if(ae===0){this.action_icons.composite_icon.hide();this.action_icons.filters_icon.hide()}else{if(ae===1){if(this.drawables[0] instanceof f){this.action_icons.composite_icon.show()}this.action_icons.filters_icon.hide()}else{var al,ak,ai,ao=true,ag=this.drawables[0].get_type(),ac=0;for(al=0;al<ae;al++){ai=this.drawables[al];if(ai.get_type()!==ag){can_composite=false;break}if(ai instanceof d){ac++}}if(ao||ac===1){this.action_icons.composite_icon.show()}else{this.action_icons.composite_icon.hide();$(".tooltip").remove()}if(ac>1&&ac===this.drawables.length){var ap={},ad;ai=this.drawables[0];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];ap[ad.name]=[ad]}for(al=1;al<this.drawables.length;al++){ai=this.drawables[al];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];if(ad.name in ap){ap[ad.name].push(ad)}}}this.filters_manager.remove_all();var af,ah,aj,am;for(var an in ap){af=ap[an];if(af.length===ac){ah=new i.NumberFilter({name:af[0].name,index:af[0].index});this.filters_manager.add_filter(ah)}}if(this.filters_manager.filters.length>0){this.action_icons.filters_icon.show()}else{this.action_icons.filters_icon.hide()}}else{this.action_icons.filters_icon.hide()}}}},_restore_filter_managers:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].filters_manager=this.saved_filters_managers[ac]}this.saved_filters_managers=[]},setup_multitrack_filtering:function(){if(this.filters_manager.filters.length>0){this.saved_filters_managers=[];for(var ac=0;ac<this.drawables.length;ac++){drawable=this.drawables[ac];this.saved_filters_managers.push(drawable.filters_manager);drawable.filters_manager=this.filters_manager}}this.filters_manager.init_filters()},show_composite_track:function(){var ad=new f(this.view,this.view,{name:this.prefs.name,drawables:this.drawables});var ac=this.container.replace_drawable(this,ad,true);ad.request_draw()},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);this.update_icons()},remove_drawable:function(ac){A.prototype.remove_drawable.call(this,ac);this.update_icons()},to_dict:function(){if(this.filters_manager.visible()){this._restore_filter_managers()}var ac=q(A.prototype.to_dict.call(this),{filters:this.filters_manager.to_dict()});if(this.filters_manager.visible()){this.setup_multitrack_filtering()}return ac},request_draw:function(ac){ab.each(this.drawables,function(ad){ad.request_draw(ac)})}});var Y=Backbone.View.extend({initialize:function(ac){q(ac,{obj_type:"View"});A.call(this,"View",ac.container,ac);this.chrom=null;this.vis_id=ac.vis_id;this.dbkey=ac.dbkey;this.label_tracks=[];this.tracks_to_be_redrawn=[];this.max_low=0;this.max_high=0;this.zoom_factor=3;this.min_separation=30;this.has_changes=false;this.load_chroms_deferred=null;this.render();this.canvas_manager=new y.CanvasManager(this.container.get(0).ownerDocument);this.reset();this.config=new j({track:this,params:[{key:"a_color",label:"A Color",type:"color",default_value:"#FF0000"},{key:"c_color",label:"C Color",type:"color",default_value:"#00FF00"},{key:"g_color",label:"G Color",type:"color",default_value:"#0000FF"},{key:"t_color",label:"T Color",type:"color",default_value:"#FF00FF"},{key:"n_color",label:"N Color",type:"color",default_value:"#AAAAAA"}],saved_values:ac.prefs,onchange:function(){track.request_redraw({clear_tile_cache:true})}})},render:function(){this.requested_redraw=false;var ae=this.container,ac=this;this.top_container=$("<div/>").addClass("top-container").appendTo(ae);this.browser_content_div=$("<div/>").addClass("content").appendTo(ae);this.bottom_container=$("<div/>").addClass("bottom-container").appendTo(ae);this.top_labeltrack=$("<div/>").addClass("top-labeltrack").appendTo(this.top_container);this.viewport_container=$("<div/>").addClass("viewport-container").attr("id","viewport-container").appendTo(this.browser_content_div);this.content_div=this.viewport_container;k(this.viewport_container,ac);this.intro_div=$("<div/>").addClass("intro").appendTo(this.viewport_container).hide();var af=$("<div/>").text("Add Datasets to Visualization").addClass("action-button").appendTo(this.intro_div).click(function(){y.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":ac.dbkey},function(ag){ab.each(ag,function(ah){ac.add_drawable(p(ah,ac,ac))})})});this.nav_labeltrack=$("<div/>").addClass("nav-labeltrack").appendTo(this.bottom_container);this.nav_container=$("<div/>").addClass("trackster-nav-container").prependTo(this.top_container);this.nav=$("<div/>").addClass("trackster-nav").appendTo(this.nav_container);this.overview=$("<div/>").addClass("overview").appendTo(this.bottom_container);this.overview_viewport=$("<div/>").addClass("overview-viewport").appendTo(this.overview);this.overview_close=$("<a/>").attr("title","Close overview").addClass("icon-button overview-close tooltip").hide().appendTo(this.overview_viewport);this.overview_highlight=$("<div/>").addClass("overview-highlight").hide().appendTo(this.overview_viewport);this.overview_box_background=$("<div/>").addClass("overview-boxback").appendTo(this.overview_viewport);this.overview_box=$("<div/>").addClass("overview-box").appendTo(this.overview_viewport);this.default_overview_height=this.overview_box.height();this.nav_controls=$("<div/>").addClass("nav-controls").appendTo(this.nav);this.chrom_select=$("<select/>").attr({name:"chrom"}).addClass("chrom-nav").append("<option value=''>Loading</option>").appendTo(this.nav_controls);var ad=function(ag){if(ag.type==="focusout"||(ag.keyCode||ag.which)===13||(ag.keyCode||ag.which)===27){if((ag.keyCode||ag.which)!==27){ac.go_to($(this).val())}$(this).hide();$(this).val("");ac.location_span.show();ac.chrom_select.show()}};this.nav_input=$("<input/>").addClass("nav-input").hide().bind("keyup focusout",ad).appendTo(this.nav_controls);this.location_span=$("<span/>").addClass("location").attr("original-title","Click to change location").tooltip({placement:"bottom"}).appendTo(this.nav_controls);this.location_span.click(function(){ac.location_span.hide();ac.chrom_select.hide();ac.nav_input.val(ac.chrom+":"+ac.low+"-"+ac.high);ac.nav_input.css("display","inline-block");ac.nav_input.select();ac.nav_input.focus();ac.nav_input.autocomplete({source:function(ai,ag){var aj=[],ah=$.map(ac.get_tracks(d),function(ak){return ak.data_manager.search_features(ai.term).success(function(al){aj=aj.concat(al)})});$.when.apply($,ah).done(function(){ag($.map(aj,function(ak){return{label:ak[0],value:ak[1]}}))})}})});if(this.vis_id!==undefined){this.hidden_input=$("<input/>").attr("type","hidden").val(this.vis_id).appendTo(this.nav_controls)}this.zo_link=$("<a/>").attr("id","zoom-out").attr("title","Zoom out").tooltip({placement:"bottom"}).click(function(){ac.zoom_out()}).appendTo(this.nav_controls);this.zi_link=$("<a/>").attr("id","zoom-in").attr("title","Zoom in").tooltip({placement:"bottom"}).click(function(){ac.zoom_in()}).appendTo(this.nav_controls);this.load_chroms_deferred=this.load_chroms({low:0});this.chrom_select.bind("change",function(){ac.change_chrom(ac.chrom_select.val())});this.browser_content_div.click(function(ag){$(this).find("input").trigger("blur")});this.browser_content_div.bind("dblclick",function(ag){ac.zoom_in(ag.pageX,this.viewport_container)});this.overview_box.bind("dragstart",function(ag,ah){this.current_x=ah.offsetX}).bind("drag",function(ag,ai){var aj=ai.offsetX-this.current_x;this.current_x=ai.offsetX;var ah=Math.round(aj/ac.viewport_container.width()*(ac.max_high-ac.max_low));ac.move_delta(-ah)});this.overview_close.click(function(){ac.reset_overview()});this.viewport_container.bind("draginit",function(ag,ah){if(ag.clientX>ac.viewport_container.width()-16){return false}}).bind("dragstart",function(ag,ah){ah.original_low=ac.low;ah.current_height=ag.clientY;ah.current_x=ah.offsetX}).bind("drag",function(ai,ak){var ag=$(this);var al=ak.offsetX-ak.current_x;var ah=ag.scrollTop()-(ai.clientY-ak.current_height);ag.scrollTop(ah);ak.current_height=ai.clientY;ak.current_x=ak.offsetX;var aj=Math.round(al/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}).bind("mousewheel",function(ai,ak,ah,ag){if(ah){ah*=50;var aj=Math.round(-ah/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}});this.top_labeltrack.bind("dragstart",function(ag,ah){return $("<div/>").addClass("zoom-area").css("height",ac.browser_content_div.height()+ac.top_labeltrack.height()+ac.nav_labeltrack.height()+1).appendTo($(this))}).bind("drag",function(ak,al){$(al.proxy).css({left:Math.min(ak.pageX,al.startX)-ac.container.offset().left,width:Math.abs(ak.pageX-al.startX)});var ah=Math.min(ak.pageX,al.startX)-ac.container.offset().left,ag=Math.max(ak.pageX,al.startX)-ac.container.offset().left,aj=(ac.high-ac.low),ai=ac.viewport_container.width();ac.update_location(Math.round(ah/ai*aj)+ac.low,Math.round(ag/ai*aj)+ac.low)}).bind("dragend",function(al,am){var ah=Math.min(al.pageX,am.startX),ag=Math.max(al.pageX,am.startX),aj=(ac.high-ac.low),ai=ac.viewport_container.width(),ak=ac.low;ac.low=Math.round(ah/ai*aj)+ak;ac.high=Math.round(ag/ai*aj)+ak;$(am.proxy).remove();ac.request_redraw()});this.add_label_track(new W(this,{content_div:this.top_labeltrack}));this.add_label_track(new W(this,{content_div:this.nav_labeltrack}));$(window).bind("resize",function(){if(this.resize_timer){clearTimeout(this.resize_timer)}this.resize_timer=setTimeout(function(){ac.resize_window()},500)});$(document).bind("redraw",function(){ac.redraw()});this.reset();$(window).trigger("resize")},get_base_color:function(ac){return this.config.get("values")[ac.toLowerCase()+"_color"]||this.config.get("values").n_color}});q(Y.prototype,A.prototype,{changed:function(){this.has_changes=true},update_intro_div:function(){if(this.drawables.length===0){this.intro_div.show()}else{this.intro_div.hide()}},trigger_navigate:function(ad,af,ac,ag){if(this.timer){clearTimeout(this.timer)}if(ag){var ae=this;this.timer=setTimeout(function(){ae.trigger("navigate",ad+":"+af+"-"+ac)},500)}else{view.trigger("navigate",ad+":"+af+"-"+ac)}},update_location:function(ac,ae){this.location_span.text(commatize(ac)+" - "+commatize(ae));this.nav_input.val(this.chrom+":"+commatize(ac)+"-"+commatize(ae));var ad=view.chrom_select.val();if(ad!==""){this.trigger_navigate(ad,view.low,view.high,true)}},load_chroms:function(ae){ae.num=x;var ac=this,ad=$.Deferred();$.ajax({url:galaxy_config.root+"api/genomes/"+this.dbkey,data:ae,dataType:"json",success:function(ag){if(ag.chrom_info.length===0){return}if(ag.reference){var ah=new D(ac);ac.add_label_track(ah);ac.reference_track=ah}ac.chrom_data=ag.chrom_info;var ak='<option value="">Select Chrom/Contig</option>';for(var aj=0,af=ac.chrom_data.length;aj<af;aj++){var ai=ac.chrom_data[aj].chrom;ak+='<option value="'+ai+'">'+ai+"</option>"}if(ag.prev_chroms){ak+='<option value="previous">Previous '+x+"</option>"}if(ag.next_chroms){ak+='<option value="next">Next '+x+"</option>"}ac.chrom_select.html(ak);ac.chrom_start_index=ag.start_index;ad.resolve(ag.chrom_info)},error:function(){alert("Could not load chroms for this dbkey: "+ac.dbkey)}});return ad},change_chrom:function(ah,ad,aj){var ae=this;if(!ae.chrom_data){ae.load_chroms_deferred.then(function(){ae.change_chrom(ah,ad,aj)});return}if(!ah||ah==="None"){return}if(ah==="previous"){ae.load_chroms({low:this.chrom_start_index-x});return}if(ah==="next"){ae.load_chroms({low:this.chrom_start_index+x});return}var ai=$.grep(ae.chrom_data,function(ak,al){return ak.chrom===ah})[0];if(ai===undefined){ae.load_chroms({chrom:ah},function(){ae.change_chrom(ah,ad,aj)});return}else{if(ah!==ae.chrom){ae.chrom=ah;ae.chrom_select.val(ae.chrom);ae.max_high=ai.len-1;ae.reset();for(var ag=0,ac=ae.drawables.length;ag<ac;ag++){var af=ae.drawables[ag];if(af.init){af.init()}}if(ae.reference_track){ae.reference_track.init()}}if(ad&&aj){ae.low=Math.max(ad,0);ae.high=Math.min(aj,ae.max_high)}else{ae.low=0;ae.high=ae.max_high}ae.reset_overview();ae.request_redraw()}},go_to:function(ag){ag=ag.replace(/,/g,"");ag=ag.replace(/:|\-/g," ");var ad=ag.split(/\s+/),af=ad[0],ae=(ad[1]?parseInt(ad[1],10):null),ac=(ad[2]?parseInt(ad[2],10):null);if(!ac){ae=ae-15;ac=ae+15}this.change_chrom(af,ae,ac)},move_fraction:function(ae){var ac=this;var ad=ac.high-ac.low;this.move_delta(ae*ad)},move_delta:function(af){var ac=this;var ae=ac.high-ac.low;if(ac.low-af<ac.max_low){ac.low=ac.max_low;ac.high=ac.max_low+ae}else{if(ac.high-af>ac.max_high){ac.high=ac.max_high;ac.low=ac.max_high-ae}else{ac.high-=af;ac.low-=af}}ac.request_redraw({data_fetch:false});if(this.redraw_on_move_fn){clearTimeout(this.redraw_on_move_fn)}this.redraw_on_move_fn=setTimeout(function(){ac.request_redraw()},200);var ad=ac.chrom_select.val();this.trigger_navigate(ad,ac.low,ac.high,true)},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);ac.init();this.changed();this.update_intro_div()},add_label_track:function(ac){ac.view=this;ac.init();this.label_tracks.push(ac)},remove_drawable:function(ae,ad){A.prototype.remove_drawable.call(this,ae);if(ad){var ac=this;ae.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})}},reset:function(){this.low=this.max_low;this.high=this.max_high;this.viewport_container.find(".yaxislabel").remove()},request_redraw:function(ad,ae){var ac=this,af=(ae?[ae]:ac.drawables);ab.each(af,function(ag){var ah=ab.find(ac.tracks_to_be_redrawn,function(ai){return ai[0]===ag});if(ah){ah[1]=ad}else{ac.tracks_to_be_redrawn.push([ag,ad])}});if(!this.requested_redraw){requestAnimationFrame(function(){ac._redraw()});this.requested_redraw=true}},_redraw:function(){this.requested_redraw=false;var ac=this.low,ag=this.high;if(ac<this.max_low){ac=this.max_low}if(ag>this.max_high){ag=this.max_high}var ad=this.high-this.low;if(this.high!==0&&ad<this.min_separation){ag=ac+this.min_separation}this.low=Math.floor(ac);this.high=Math.ceil(ag);this.update_location(this.low,this.high);this.resolution_px_b=this.viewport_container.width()/(this.high-this.low);var af=(this.low/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ah=((this.high-this.low)/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ae=13;this.overview_box.css({left:af,width:Math.max(ae,ah)}).show();if(ah<ae){this.overview_box.css("left",af-(ae-ah)/2)}if(this.overview_highlight){this.overview_highlight.css({left:af,width:ah})}ab.each(this.tracks_to_be_redrawn,function(ak){var ai=ak[0],aj=ak[1];if(ai){ai._draw(aj)}});this.tracks_to_be_redrawn=[];ab.each(this.label_tracks,function(ai){ai._draw()})},zoom_in:function(ad,ae){if(this.max_high===0||this.high-this.low<=this.min_separation){return}var af=this.high-this.low,ag=af/2+this.low,ac=(af/this.zoom_factor)/2;if(ad){ag=ad/this.viewport_container.width()*(this.high-this.low)+this.low}this.low=Math.round(ag-ac);this.high=Math.round(ag+ac);this.changed();this.request_redraw()},zoom_out:function(){if(this.max_high===0){return}var ad=this.high-this.low,ae=ad/2+this.low,ac=(ad*this.zoom_factor)/2;this.low=Math.round(ae-ac);this.high=Math.round(ae+ac);this.changed();this.request_redraw()},resize_window:function(){this.viewport_container.height(this.container.height()-this.top_container.height()-this.bottom_container.height());this.request_redraw()},set_overview:function(ae){if(this.overview_drawable){if(this.overview_drawable.dataset.id===ae.dataset.id){return}this.overview_viewport.find(".track").remove()}var ad=ae.copy({content_div:this.overview_viewport}),ac=this;ad.header_div.hide();ad.is_overview=true;ac.overview_drawable=ad;this.overview_drawable.postdraw_actions=function(){ac.overview_highlight.show().height(ac.overview_drawable.content_div.height());ac.overview_viewport.height(ac.overview_drawable.content_div.height()+ac.overview_box.outerHeight());ac.overview_close.show();ac.resize_window()};ac.overview_drawable.request_draw();this.changed()},reset_overview:function(){$(".tooltip").remove();this.overview_viewport.find(".track-tile").remove();this.overview_viewport.height(this.default_overview_height);this.overview_box.height(this.default_overview_height);this.overview_close.hide();this.overview_highlight.hide();view.resize_window();view.overview_drawable=null}});var s=R.Tool.extend({defaults:{track:null},initialize:function(ac){R.Tool.prototype.initialize.call(this,ac);var ad=true;if(ac.tool_state!==undefined&&ac.tool_state.hidden!==undefined){ad=ac.tool_state.hidden}this.set("hidden",ad);this.remove_inputs(["data","hidden_data","conditional"])},state_dict:function(ac){return ab.extend(this.get_inputs_dict(),{hidden:!this.is_visible()})}});var v=Backbone.View.extend({events:{"change input":"update_value"},render:function(){var ae=this.$el.addClass("param-row"),af=this.model;var ac=$("<div>").addClass("param-label").text(af.get("label")).appendTo(ae);var ad=$("<div/>").addClass("param-input").html(af.get("html")).appendTo(ae);ad.find(":input").val(af.get("value"));$("<div style='clear: both;'/>").appendTo(ae)},update_value:function(ac){this.model.set_value($(ac.target).val())}});var aa=Backbone.View.extend({initialize:function(ac){this.model.on("change:hidden",this.set_visible,this)},render:function(){var ad=this;tool=this.model,parent_div=this.$el.addClass("dynamic-tool").hide();parent_div.bind("drag",function(ah){ah.stopPropagation()}).click(function(ah){ah.stopPropagation()}).bind("dblclick",function(ah){ah.stopPropagation()}).keydown(function(ah){ah.stopPropagation()});var ae=$("<div class='tool-name'>").appendTo(parent_div).text(tool.get("name"));tool.get("inputs").each(function(ai){var ah=new v({model:ai});ah.render();parent_div.append(ah.$el)});parent_div.find("input").click(function(){$(this).select()});var af=$("<div>").addClass("param-row").appendTo(parent_div);var ag=$("<input type='submit'>").attr("value","Run on complete dataset").appendTo(af);var ac=$("<input type='submit'>").attr("value","Run on visible region").appendTo(af);ac.click(function(){ad.run_on_region()});ag.click(function(){ad.run_on_dataset()});if(tool.is_visible()){this.$el.show()}},set_visible:function(){if(this.model.is_visible()){this.$el.show()}else{this.$el.hide()}},update_params:function(){for(var ac=0;ac<this.params.length;ac++){this.params[ac].update_value()}},run_on_dataset:function(){var ac=this.model;this.run({target_dataset_id:this.model.get("track").dataset.id,action:"rerun",tool_id:ac.id},null,function(ad){Galaxy.modal.show({title:ac.get("name")+" is Running",body:ac.get("name")+" is running on the complete dataset. Tool outputs are in dataset's history.",buttons:{Close:function(){Galaxy.modal.hide()}}})})},run_on_region:function(){var ad=this.model.get("track"),ag=this.model,ai=new y.GenomeRegion({chrom:ad.view.chrom,start:ad.view.low,end:ad.view.high}),aj={target_dataset_id:ad.dataset.id,action:"rerun",tool_id:ag.id,regions:[ai.toJSON()]},ah=ad,al=ag.get("name")+ah.tool_region_and_parameters_str(ai),ac;if(ah.container===view){var ak=new P(view,view,{name:ad.prefs.name});var af=ah.container.replace_drawable(ah,ak,false);ak.container_div.insertBefore(ah.view.content_div.children()[af]);ak.add_drawable(ah);ah.container_div.appendTo(ak.content_div);ac=ak}else{ac=ah.container}var ae=new ah.constructor(view,ac,{name:al,hda_ldda:"hda"});ae.init_for_tool_data();ae.change_mode(ah.mode);ae.set_filters_manager(ah.filters_manager.copy(ae));ae.update_icons();ac.add_drawable(ae);ae.tiles_div.text("Starting job.");this.run(aj,ae,function(am){ae.set_dataset(new X.Dataset(am));ae.tiles_div.text("Running job.");ae.init()})},run:function(ac,ae,af){ac.inputs=this.model.get_inputs_dict();var ad=new l.ServerStateDeferred({ajax_settings:{url:galaxy_config.root+"api/tools",data:JSON.stringify(ac),dataType:"json",contentType:"application/json",type:"POST"},interval:2000,success_fn:function(ag){return ag!=="pending"}});$.when(ad.go()).then(function(ag){if(ag==="no converter"){ae.container_div.addClass("error");ae.content_div.text(J)}else{if(ag.error){ae.container_div.addClass("error");ae.content_div.text(z+ag.message)}else{af(ag)}}})}});var E=function(ac,ad){L.Scaler.call(this,ad);this.filter=ac};E.prototype.gen_val=function(ac){if(this.filter.high===Number.MAX_VALUE||this.filter.low===-Number.MAX_VALUE||this.filter.low===this.filter.high){return this.default_val}return((parseFloat(ac[this.filter.index])-this.filter.low)/(this.filter.high-this.filter.low))};var j=Backbone.Model.extend({initialize:function(ad){var ac={};ab.each(ad.params,function(ae){ac[ae.key]=(ae.type==="color"&&!ae.default_value?l.get_random_color():ae.default_value)});if(ad.saved_values){ab.each(this.get("params"),function(ae){if(ae.key in ad.saved_values){ac[ae.key]=ad.saved_values[ae.key]}})}this.set("values",ac)},set_param_default_value:function(ad,ac){var ae=ab.find(this.get("params"),function(af){return af.key===ad});if(ae){ae.default_value=ac}},set_param_value:function(ac,ad){var ae=ab.find(this.get("params"),function(af){return af.key===ac});if(ae){if(typeof ad==="string"||ad instanceof String){if(ad.trim()===""){ad=ae.default_value}else{if(ae.type==="float"){ad=parseFloat(ad)}else{if(ae.type==="int"){ad=parseInt(ad,10)}}}}}if(this.get("values")[ac]!==ad){this.get("values")[ac]=ad;this.trigger("change:values");return true}else{return false}}});var a=Backbone.View.extend({render:function(){var aj=this.model;var ac=$("<div/>").keydown(function(ak){ak.stopPropagation()});var ai;function ah(ao,ak){for(var at=0;at<ao.length;at++){ai=ao[at];if(ai.hidden){continue}var am="param_"+at;var ax=aj.get("values")[ai.key];var az=$("<div class='form-row' />").appendTo(ak);az.append($("<label />").attr("for",am).text(ai.label+":"));if(ai.type==="bool"){az.append($('<input type="checkbox" />').attr("id",am).attr("name",am).attr("checked",ax))}else{if(ai.type==="text"){az.append($('<input type="text"/>').attr("id",am).val(ax).click(function(){$(this).select()}))}else{if(ai.type==="select"){var av=$("<select />").attr("id",am);for(var aq=0;aq<ai.options.length;aq++){$("<option/>").text(ai.options[aq].label).attr("value",ai.options[aq].value).appendTo(av)}av.val(ax);az.append(av)}else{if(ai.type==="color"){var ay=$("<div/>").appendTo(az),au=$("<input/>").attr({id:am,name:am}).val(ax).addClass("color-input").appendTo(ay).click(function(aB){$(".tooltip").removeClass("in");var aA=$(this).siblings(".tooltip").addClass("in");aA.css({left:$(this).position().left+$(this).width()+5,top:$(this).position().top+Galaxy.modal.scrollTop()-($(aA).height()/2)+($(this).height()/2)}).show();aA.click(function(aC){aC.stopPropagation()});$(document).bind("click.color-picker",function(){aA.hide();$(document).unbind("click.color-picker")});aB.stopPropagation()}),ar=$("<a href='javascript:void(0)'/>").addClass("icon-button arrow-circle").appendTo(ay).attr("title","Set new random color").tooltip(),aw=$("<div class='tooltip right' style='position: absolute;' />").appendTo(ay).hide(),an=$("<div class='tooltip-inner' style='text-align: inherit'></div>").appendTo(aw),al=$("<div class='tooltip-arrow'></div>").appendTo(aw),ap=$.farbtastic(an,{width:100,height:100,callback:au,color:ax});ay.append($("<div/>").css("clear","both"));(function(aA){ar.click(function(){aA.setColor(l.get_random_color())})})(ap)}else{az.append($("<input />").attr("id",am).attr("name",am).val(ax))}}}}if(ai.help){az.append($("<div class='help'/>").text(ai.help))}}}ah(aj.get("params"),ac);var ad=this,ag=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ae=function(){ad.update_from_form($(Galaxy.modal.el));Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},af=function(ak){if((ak.keyCode||ak.which)===27){ag()}else{if((ak.keyCode||ak.which)===13){ae()}}};$(window).bind("keypress.check_enter_esc",af);Galaxy.modal.show({title:"Configure",body:ac,buttons:{Cancel:ag,Ok:ae}})},update_from_form:function(ac){var ad=this.model;var ae=false;ab.each(ad.get("params"),function(ah,af){if(!ah.hidden){var ai="param_"+af;var ag=ac.find("#"+ai).val();if(ah.type==="bool"){ag=ac.find("#"+ai).is(":checked")}ae=ad.set_param_value(ah.key,ag)||ae}})}});var c=function(ac,af,ag,ad,ae){this.track=ac;this.region=af;this.low=af.get("start");this.high=af.get("end");this.w_scale=ag;this.canvas=ad;this.html_elt=$("<div class='track-tile'/>").append(ad);this.data=ae;this.stale=false};c.prototype.predisplay_actions=function(){};var M=function(ac,af,ag,ad,ae){c.call(this,ac,af,ag,ad,ae)};M.prototype.predisplay_actions=function(){};var O=function(af,am,ao,ae,ah,ai,ap,ad,al){c.call(this,af,am,ao,ae,ah);this.mode=ai;this.all_slotted=ad;this.feature_mapper=al;this.has_icons=false;if(ap){this.has_icons=true;var aj=this;ae=this.html_elt.children()[0],message_div=$("<div/>").addClass("tile-message").css({height:F,width:ae.width}).prependTo(this.html_elt);var ak=new y.GenomeRegion({chrom:af.view.chrom,start:this.low,end:this.high}),an=ah.length,ag=$("<a/>").addClass("icon more-down").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data including depth").tooltip().appendTo(message_div),ac=$("<a/>").addClass("icon more-across").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data excluding depth").tooltip().appendTo(message_div);ag.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.DEEP_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()});ac.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.BROAD_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()})}};q(O.prototype,c.prototype);O.prototype.predisplay_actions=function(){var ad=this,ac={};if(ad.mode!=="Pack"){return}$(this.html_elt).hover(function(){this.hovered=true;$(this).mousemove()},function(){this.hovered=false;$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()}).mousemove(function(ao){if(!this.hovered){return}var aj=$(this).offset(),an=ao.pageX-aj.left,am=ao.pageY-aj.top,at=ad.feature_mapper.get_feature_data(an,am),ak=(at?at[0]:null);$(this).parents(".track-content").children(".overlay").children(".feature-popup").each(function(){if(!ak||$(this).attr("id")!==ak.toString()){$(this).remove()}});if(at){var af=ac[ak];if(!af){var ap={name:at[3],start:at[1],end:at[2],strand:at[4]},ai=ad.track.filters_manager.filters,ah;for(var al=0;al<ai.length;al++){ah=ai[al];ap[ah.name]=at[ah.index]}af=$("<div/>").attr("id",ak).addClass("feature-popup");var au=$("<table/>"),ar,aq,av;for(ar in ap){aq=ap[ar];av=$("<tr/>").appendTo(au);$("<th/>").appendTo(av).text(ar);$("<td/>").attr("align","left").appendTo(av).text(typeof(aq)==="number"?V(aq,2):aq)}af.append($("<div class='feature-popup-inner'>").append(au));ac[ak]=af}af.appendTo($(this).parents(".track-content").children(".overlay"));var ag=an+parseInt(ad.html_elt.css("left"),10)-af.width()/2,ae=am+parseInt(ad.html_elt.css("top"),10)+7;af.css("left",ag+"px").css("top",ae+"px")}else{if(!ao.isPropagationStopped()){ao.stopPropagation();$(this).siblings().each(function(){$(this).trigger(ao)})}}}).mouseleave(function(){$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()})};var g=function(ad,ac,ae){q(ae,{drag_handle_class:"draghandle"});r.call(this,ad,ac,ae);this.dataset=null;if(ae.dataset){this.dataset=(ae.dataset instanceof Backbone.Model?ae.dataset:new X.Dataset(ae.dataset))}this.dataset_check_type="converted_datasets_state";this.data_url_extra_params={};this.data_query_wait=("data_query_wait" in ae?ae.data_query_wait:K);this.data_manager=("data_manager" in ae?ae.data_manager:new y.GenomeDataManager({dataset:this.dataset,genome:new y.Genome({key:ad.dbkey,chroms_info:{chrom_info:ad.chrom_data}}),data_mode_compatible:this.data_and_mode_compatible,can_subset:this.can_subset}));this.min_height_px=16;this.max_height_px=800;this.visible_height_px=this.prefs.height;this.content_div=$("<div class='track-content'>").appendTo(this.container_div);if(this.container){this.container.content_div.append(this.container_div);if(!("resize" in ae)||ae.resize){this.add_resize_handle()}}};q(g.prototype,r.prototype,{action_icons_def:[{name:"mode_icon",title:"Set display mode",css_class:"chevron-expand",on_click_fn:function(){}},r.prototype.action_icons_def[0],{name:"overview_icon",title:"Set as overview",css_class:"application-dock-270",on_click_fn:function(ac){ac.view.set_overview(ac)}},r.prototype.action_icons_def[1],{name:"filters_icon",title:"Filters",css_class:"ui-slider-050",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters()}else{ac.filters_manager.init_filters()}ac.filters_manager.toggle()}},{name:"tools_icon",title:"Tool",css_class:"hammer",on_click_fn:function(ac){ac.tool.toggle();if(ac.tool.is_visible()){ac.set_name(ac.prefs.name+ac.tool_region_and_parameters_str())}else{ac.revert_name()}$(".tooltip").remove()}},{name:"param_space_viz_icon",title:"Tool parameter space visualization",css_class:"arrow-split",on_click_fn:function(ac){var af='<strong>Tool</strong>: <%= track.tool.get("name") %><br/><strong>Dataset</strong>: <%= track.prefs.name %><br/><strong>Region(s)</strong>: <select name="regions"><option value="cur">current viewing area</option><option value="bookmarks">bookmarks</option><option value="both">current viewing area and bookmarks</option></select>',ae=ab.template(af,{track:ac});var ah=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ad=function(){var aj=$('select[name="regions"] option:selected').val(),al,ai=new y.GenomeRegion({chrom:view.chrom,start:view.low,end:view.high}),ak=ab.map($(".bookmark"),function(am){return new y.GenomeRegion({from_str:$(am).children(".position").text()})});if(aj==="cur"){al=[ai]}else{if(aj==="bookmarks"){al=ak}else{al=[ai].concat(ak)}}Galaxy.modal.hide();window.location.href=galaxy_config.root+"visualization/sweepster?"+$.param({dataset_id:ac.dataset.id,hda_ldda:ac.dataset.get("hda_ldda"),regions:JSON.stringify(new Backbone.Collection(al).toJSON())})},ag=function(ai){if((ai.keyCode||ai.which)===27){ah()}else{if((ai.keyCode||ai.which)===13){ad()}}};Galaxy.modal.show({title:"Visualize tool parameter space and output from different parameter settings?",body:ae,buttons:{No:ah,Yes:ad}})}},r.prototype.action_icons_def[2]],can_draw:function(){return this.dataset&&r.prototype.can_draw.call(this)},build_container_div:function(){return $("<div/>").addClass("track").attr("id","track_"+this.id)},build_header_div:function(){var ac=$("<div class='track-header'/>");if(this.view.editor){this.drag_div=$("<div/>").addClass(this.drag_handle_class).appendTo(ac)}this.name_div=$("<div/>").addClass("track-name").appendTo(ac).text(this.prefs.name).attr("id",this.prefs.name.replace(/\s+/g,"-").replace(/[^a-zA-Z0-9\-]/g,"").toLowerCase());return ac},set_dataset:function(ac){this.dataset=ac;this.data_manager.set("dataset",ac)},on_resize:function(){this.request_draw({clear_tile_cache:true})},add_resize_handle:function(){var ac=this;var af=false;var ae=false;var ad=$("<div class='track-resize'>");$(ac.container_div).hover(function(){if(ac.prefs.content_visible){af=true;ad.show()}},function(){af=false;if(!ae){ad.hide()}});ad.hide().bind("dragstart",function(ag,ah){ae=true;ah.original_height=$(ac.content_div).height()}).bind("drag",function(ah,ai){var ag=Math.min(Math.max(ai.original_height+ai.deltaY,ac.min_height_px),ac.max_height_px);$(ac.tiles_div).css("height",ag);ac.visible_height_px=(ac.max_height_px===ag?0:ag);ac.on_resize()}).bind("dragend",function(ag,ah){ac.tile_cache.clear();ae=false;if(!af){ad.hide()}ac.config.get("values").height=ac.visible_height_px;ac.changed()}).appendTo(ac.container_div)},set_display_modes:function(af,ai){this.display_modes=af;this.mode=(ai?ai:(this.config&&this.config.get("values").mode?this.config.get("values").mode:this.display_modes[0]));this.action_icons.mode_icon.attr("title","Set display mode (now: "+this.mode+")");var ad=this,ag={};for(var ae=0,ac=ad.display_modes.length;ae<ac;ae++){var ah=ad.display_modes[ae];ag[ah]=function(aj){return function(){ad.change_mode(aj);ad.icons_div.show();ad.container_div.mouseleave(function(){ad.icons_div.hide()})}}(ah)}make_popupmenu(this.action_icons.mode_icon,ag)},build_action_icons:function(){r.prototype.build_action_icons.call(this,this.action_icons_def);if(this.display_modes!==undefined){this.set_display_modes(this.display_modes)}},hide_contents:function(){this.tiles_div.hide();this.container_div.find(".yaxislabel, .track-resize").hide()},show_contents:function(){this.tiles_div.show();this.container_div.find(".yaxislabel, .track-resize").show();this.request_draw()},get_type:function(){if(this instanceof W){return"LabelTrack"}else{if(this instanceof D){return"ReferenceTrack"}else{if(this instanceof h){return"LineTrack"}else{if(this instanceof T){return"ReadTrack"}else{if(this instanceof Z){return"VariantTrack"}else{if(this instanceof f){return"CompositeTrack"}else{if(this instanceof d){return"FeatureTrack"}}}}}}}return""},show_message:function(ac){this.tiles_div.remove();return $("<span/>").addClass("message").html(ac).appendTo(this.content_div)},init:function(ae){var ad=this;ad.enabled=false;ad.tile_cache.clear();ad.data_manager.clear();ad.content_div.children().remove();ad.container_div.removeClass("nodata error pending");ad.tiles_div=$("<div/>").addClass("tiles").appendTo(ad.content_div);if(!ad.dataset.id){return}var ac=$.Deferred(),af={hda_ldda:ad.dataset.get("hda_ldda"),data_type:this.dataset_check_type,chrom:ad.view.chrom,retry:ae};$.getJSON(this.dataset.url(),af,function(ag){if(!ag||ag==="error"||ag.kind==="error"){ad.container_div.addClass("error");var ah=ad.show_message(o);if(ag.message){ah.append($("<a href='javascript:void(0);'></a>").text("View error").click(function(){Galaxy.modal.show({title:"Trackster Error",body:"<pre>"+ag.message+"</pre>",buttons:{Close:function(){Galaxy.modal.hide()}}})}));ah.append($("<span/>").text(" "));ah.append($("<a href='javascript:void(0);'></a>").text("Try again").click(function(){ad.init(true)}))}}else{if(ag==="no converter"){ad.container_div.addClass("error");ad.show_message(J)}else{if(ag==="no data"||(ag.data!==undefined&&(ag.data===null||ag.data.length===0))){ad.container_div.addClass("nodata");ad.show_message(G)}else{if(ag==="pending"){ad.container_div.addClass("pending");ad.show_message(w);setTimeout(function(){ad.init()},ad.data_query_wait)}else{if(ag==="data"||ag.status==="data"){if(ag.valid_chroms){ad.valid_chroms=ag.valid_chroms;ad.update_icons()}ad.tiles_div.text(U);if(ad.view.chrom){ad.tiles_div.text("");ad.tiles_div.css("height",ad.visible_height_px+"px");ad.enabled=true;$.when.apply($,ad.predraw_init()).done(function(){ac.resolve();ad.container_div.removeClass("nodata error pending");ad.request_draw()})}else{ac.resolve()}}}}}}});this.update_icons();return ac},predraw_init:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(af&&af.min&&af.max){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.config.set_param_default_value("min_value",ae);ac.config.set_param_default_value("max_value",ag);ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},get_drawables:function(){return this}});var N=function(ae,ad,ag){g.call(this,ae,ad,ag);var ac=this;m(ac.container_div,ac.drag_handle_class,".group",ac);this.filters_manager=new i.FiltersManager(this,("filters" in ag?ag.filters:null));this.data_manager.set("filters_manager",this.filters_manager);this.filters_available=false;this.tool=(ag.tool?new s(ab.extend(ag.tool,{track:this,tool_state:ag.tool_state})):null);this.tile_cache=new y.Cache(Q);this.left_offset=0;if(this.header_div){this.set_filters_manager(this.filters_manager);if(this.tool){var af=new aa({model:this.tool});af.render();this.dynamic_tool_div=af.$el;this.header_div.after(this.dynamic_tool_div)}}this.tiles_div=$("<div/>").addClass("tiles").appendTo(this.content_div);if(!this.prefs.content_visible){this.tiles_div.hide()}this.overlay_div=$("<div/>").addClass("overlay").appendTo(this.content_div);if(ag.mode){this.change_mode(ag.mode)}};q(N.prototype,r.prototype,g.prototype,{action_icons_def:g.prototype.action_icons_def.concat([{name:"show_more_rows_icon",title:"To minimize track height, not all feature rows are displayed. Click to display more rows.",css_class:"exclamation",on_click_fn:function(ac){$(".tooltip").remove();ac.slotters[ac.view.resolution_px_b].max_rows*=2;ac.request_draw({clear_tile_cache:true})},hide:true}]),copy:function(ac){var ad=this.to_dict();q(ad,{data_manager:this.data_manager});var ae=new this.constructor(this.view,ac,ad);ae.change_mode(this.mode);ae.enabled=this.enabled;return ae},set_filters_manager:function(ac){this.filters_manager=ac;this.header_div.after(this.filters_manager.parent_div)},to_dict:function(){return{track_type:this.get_type(),dataset:{id:this.dataset.id,hda_ldda:this.dataset.get("hda_ldda")},prefs:this.prefs,mode:this.mode,filters:this.filters_manager.to_dict(),tool_state:(this.tool?this.tool.state_dict():{})}},set_min_max:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(isNaN(parseFloat(ac.prefs.min_value))||isNaN(parseFloat(ac.prefs.max_value))){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},change_mode:function(ad){var ac=this;ac.mode=ad;ac.config.get("values").mode=ad;if(ad==="Auto"){this.data_manager.clear()}ac.request_draw({clear_tile_cache:true});this.action_icons.mode_icon.attr("title","Set display mode (now: "+ac.mode+")");return ac},update_icons:function(){var ac=this;if(ac.filters_available){ac.action_icons.filters_icon.show()}else{ac.action_icons.filters_icon.hide()}if(ac.tool){ac.action_icons.tools_icon.show();ac.action_icons.param_space_viz_icon.show()}else{ac.action_icons.tools_icon.hide();ac.action_icons.param_space_viz_icon.hide()}},_gen_tile_cache_key:function(ad,ac){return ad+"_"+ac},request_draw:function(ac){if(ac&&ac.clear_tile_cache){this.tile_cache.clear()}this.view.request_redraw(ac,this)},before_draw:function(){this.max_height_px=0},_draw:function(aq){if(!this.can_draw()){return}var an=aq&&aq.clear_after,al=this.view.low,ag=this.view.high,aj=ag-al,ad=this.view.container.width(),ap=this.view.resolution_px_b,af=1/ap;if(this.is_overview){al=this.view.max_low;ag=this.view.max_high;ap=ad/(view.max_high-view.max_low);af=1/ap}this.before_draw();this.tiles_div.children().addClass("remove");var ac=Math.floor(al/(af*S)),ak,am,ah,ai=[],ao=[];while((ac*S*af)<ag){ak=Math.floor(ac*S*af);am=new y.GenomeRegion({chrom:this.view.chrom,start:ak,end:Math.min(ak+Math.ceil(S*af),this.view.max_high)});ah=this.draw_helper(am,ap,aq);ai.push(ah);$.when(ah).then(function(ar){ao.push(ar)});ac+=1}if(!an){this.tiles_div.children(".remove").removeClass("remove").remove()}var ae=this;$.when.apply($,ai).then(function(){ae.tiles_div.children(".remove").remove();ao=ab.filter(ao,function(ar){return ar!==null});if(ao.length!==0){ae.postdraw_actions(ao,ad,ap,an)}})},_add_yaxis_label:function(af,ah){var ad=this,ag=(af==="max"?"top":"bottom"),ai=(af==="max"?"max":"min"),ac=(af==="max"?"max_value":"min_value"),ae=this.container_div.find(".yaxislabel."+ag);ah=ah||function(){ad.request_draw({clear_tile_cache:true})};if(ae.length!==0){ae.text(ad.prefs[ac])}else{ae=$("<div/>").text(ad.prefs[ac]).make_text_editable({num_cols:12,on_finish:function(aj){$(".tooltip").remove();ad.config.set_param_value(ac,aj);ah()},help_text:"Set "+ai+" value"}).addClass("yaxislabel "+ag).css("color",this.prefs.label_color);this.container_div.prepend(ae)}},postdraw_actions:function(af,ag,ai,ac){var ae=ab.filter(af,function(aj){return(aj instanceof M)});if(ae.length>0){this.max_height_px=0;var ad=this;ab.each(af,function(aj){if(!(aj instanceof M)){aj.html_elt.remove();ad.draw_helper(aj.region,ai,{force:true,mode:"Coverage"})}});ad._add_yaxis_label("max")}else{this.container_div.find(".yaxislabel").remove();var ah=ab.find(af,function(aj){return aj.has_icons});if(ah){ab.each(af,function(aj){if(!aj.has_icons){aj.html_elt.css("padding-top",F)}})}}},get_mode:function(ac){return this.mode},update_auto_mode:function(ac){},_get_drawables:function(){return[this]},draw_helper:function(al,an,ao){if(!ao){ao={}}var ad=ao.force,ai=ao.mode||this.mode,af=1/an,ae=this,ag=this._get_drawables(),am=this._gen_tile_cache_key(an,al),ah=function(ap){return(ap&&"track" in ap)};var aj=(ad?undefined:ae.tile_cache.get_elt(am));if(aj){if(ah(aj)){ae.show_tile(aj,an)}return aj}if(ao.data_fetch===false){return null}var ak=function(){var ap=(ab.find(C,function(ar){return ar===ai})?"Coverage":ai);var aq=ab.map(ag,function(ar){return ar.data_manager.get_data(al,ap,af,ae.data_url_extra_params)});if(view.reference_track){aq.push(view.reference_track.data_manager.get_data(al,ai,af,view.reference_track.data_url_extra_params))}return aq};var ac=$.Deferred();ae.tile_cache.set_elt(am,ac);$.when.apply($,ak()).then(function(){var ap=ak(),av=ap,aB;if(view.reference_track){aB=view.reference_track.data_manager.subset_entry(ap.pop(),al)}var aw=[],at=[];ab.each(ag,function(aG,aD){var aF=aG.mode,aE=av[aD];if(aF==="Auto"){aF=aG.get_mode(aE);aG.update_auto_mode(aF)}aw.push(aF);at.push(aG.get_canvas_height(aE,aF,an,aq))});var au=ae.view.canvas_manager.new_canvas(),ax=al.get("start"),aC=al.get("end"),ar=0,aq=Math.ceil((aC-ax)*an)+ae.left_offset,az=ab.max(at),ay;au.width=aq;au.height=(ao.height||az);var aA=au.getContext("2d");aA.translate(ae.left_offset,0);if(ag.length>1){aA.globalAlpha=0.5;aA.globalCompositeOperation="source-over"}ab.each(ag,function(aE,aD){ay=aE.draw_tile(av[aD],aA,aw[aD],al,an,aB)});if(ay!==undefined){ae.tile_cache.set_elt(am,ay);ae.show_tile(ay,an)}ac.resolve(ay)});return ac},get_canvas_height:function(ac,ae,af,ad){return this.visible_height_px},_draw_line_track_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.LinePainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new M(this,ag,ai,af,ac.data)},draw_tile:function(ac,ad,ag,af,ah,ae){},show_tile:function(ae,ah){var ad=this,ac=ae.html_elt;ae.predisplay_actions();var ag=(ae.low-(this.is_overview?this.view.max_low:this.view.low))*ah;if(this.left_offset){ag-=this.left_offset}ac.css("left",ag);if(ac.hasClass("remove")){ac.removeClass("remove")}else{this.tiles_div.append(ac)}ac.css("height","auto");this.max_height_px=Math.max(this.max_height_px,ac.height()-2);ac.parent().children().css("height",this.max_height_px+"px");var af=this.max_height_px;if(this.visible_height_px!==0){af=Math.min(this.max_height_px,this.visible_height_px)}this.tiles_div.css("height",af+"px")},tool_region_and_parameters_str:function(af){var ac=this,ae=(af!==undefined?af.toString():"all"),ad=ab.values(ac.tool.get_inputs_dict()).join(", ");return" - region=["+ae+"], parameters=["+ad+"]"},data_and_mode_compatible:function(ac,ad){if(ad==="Auto"){return true}else{if(ad==="Coverage"){return ac.dataset_type==="bigwig"}else{if(ac.dataset_type==="bigwig"||ac.extra_info==="no_detail"){return false}else{return true}}}},can_subset:function(ac){if(ac.message||ac.extra_info==="no_detail"){return false}else{if(ac.dataset_type==="bigwig"){return(ac.data[1][0]-ac.data[0][0]===1)}}return true},init_for_tool_data:function(){this.data_manager.set("data_type","raw_data");this.data_query_wait=1000;this.dataset_check_type="state"}});var W=function(ad,ac){var ae={resize:false};g.call(this,ad,ac,ae);this.container_div.addClass("label-track")};q(W.prototype,g.prototype,{build_header_div:function(){},init:function(){this.enabled=true},predraw_init:function(){},_draw:function(ag){var ae=this.view,af=ae.high-ae.low,aj=Math.floor(Math.pow(10,Math.floor(Math.log(af)/Math.log(10)))),ac=Math.floor(ae.low/aj)*aj,ah=this.view.container.width(),ad=$("<div/>").addClass("label-container");while(ac<ae.high){var ai=(ac-ae.low)/af*ah;ad.append($("<div/>").addClass("label").text(commatize(ac)).css({left:ai}));ac+=aj}this.content_div.children(":first").remove();this.content_div.append(ad)}});var f=function(ad,ac,ag){N.call(this,ad,ac,ag);this.drawables=[];if("drawables" in ag){var af;for(var ae=0;ae<ag.drawables.length;ae++){af=ag.drawables[ae];this.drawables[ae]=p(af,ad,null);if(af.left_offset>this.left_offset){this.left_offset=af.left_offset}}this.enabled=true}ab.each(this.drawables,function(ah){if(ah instanceof d||ah instanceof T){ah.change_mode("Coverage")}});this.update_icons();this.obj_type="CompositeTrack"};q(f.prototype,N.prototype,{display_modes:C,action_icons_def:[{name:"composite_icon",title:"Show individual tracks",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_group()}}].concat(N.prototype.action_icons_def),to_dict:A.prototype.to_dict,add_drawable:A.prototype.add_drawable,unpack_drawables:A.prototype.unpack_drawables,change_mode:function(ac){N.prototype.change_mode.call(this,ac);for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad].change_mode(ac)}},init:function(){var ae=[];for(var ad=0;ad<this.drawables.length;ad++){ae.push(this.drawables[ad].init())}var ac=this;$.when.apply($,ae).then(function(){ac.enabled=true;ac.request_draw()})},update_icons:function(){this.action_icons.filters_icon.hide();this.action_icons.tools_icon.hide();this.action_icons.param_space_viz_icon.hide()},can_draw:r.prototype.can_draw,_get_drawables:function(){return this.drawables},show_group:function(){var af=new P(this.view,this.container,{name:this.prefs.name}),ac;for(var ae=0;ae<this.drawables.length;ae++){ac=this.drawables[ae];ac.update_icons();af.add_drawable(ac);ac.container=af;af.content_div.append(ac.container_div)}var ad=this.container.replace_drawable(this,af,true);af.request_draw({clear_tile_cache:true})},before_draw:function(){N.prototype.before_draw.call(this);var ad=ab.min(ab.map(this.drawables,function(ae){return ae.prefs.min_value})),ac=ab.max(ab.map(this.drawables,function(ae){return ae.prefs.max_value}));this.prefs.min_value=ad;this.prefs.max_value=ac;ab.each(this.drawables,function(ae){ae.prefs.min_value=ad;ae.prefs.max_value=ac})},update_all_min_max:function(){var ac=this;ab.each(this.drawables,function(ad){ad.prefs.min_value=ac.prefs.min_value;ad.prefs.max_value=ac.prefs.max_value});this.request_draw({clear_tile_cache:true})},postdraw_actions:function(ai,ac,al,ah){N.prototype.postdraw_actions.call(this,ai,ac,al,ah);var ag=-1,ae;for(ae=0;ae<ai.length;ae++){var aj=ai[ae].html_elt.find("canvas").height();if(aj>ag){ag=aj}}for(ae=0;ae<ai.length;ae++){var af=ai[ae];if(af.html_elt.find("canvas").height()!==ag){this.draw_helper(af.region,al,{force:true,height:ag});af.html_elt.remove()}}var ad=this,ak=function(){ad.update_all_min_max()};this._add_yaxis_label("min",ak);this._add_yaxis_label("max",ak)}});var D=function(ac){N.call(this,ac,{content_div:ac.top_labeltrack},{resize:false});this.left_offset=ac.canvas_manager.char_width_px;this.container_div.addClass("reference-track");this.data_url=galaxy_config.root+"api/genomes/"+this.view.dbkey;this.data_url_extra_params={reference:true};this.data_manager=new y.GenomeReferenceDataManager({data_url:this.data_url,can_subset:this.can_subset});this.hide_contents()};q(D.prototype,r.prototype,N.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"height",type:"int",default_value:13,hidden:true}]),build_header_div:function(){},init:function(){this.data_manager.clear();this.enabled=true},predraw_init:function(){},can_draw:r.prototype.can_draw,draw_helper:function(ad,ae,ac){if(ae>this.view.canvas_manager.char_width_px){this.tiles_div.show();return N.prototype.draw_helper.call(this,ad,ae,ac)}else{this.tiles_div.hide();return null}},can_subset:function(ac){return true},draw_tile:function(ae,ak,af,ah,al){var ad=this.data_manager.subset_entry(ae,ah),aj=ad.data;var ac=ak.canvas;ak.font=ak.canvas.manager.default_font;ak.textAlign="center";for(var ag=0,ai=aj.length;ag<ai;ag++){ak.fillStyle=this.view.get_base_color(aj[ag]);ak.fillText(aj[ag],Math.floor(ag*al),10)}return new c(this,ah,al,ac,ad)}});var h=function(ad,ac,ae){this.mode="Histogram";N.call(this,ad,ac,ae)};q(h.prototype,r.prototype,N.prototype,{display_modes:C,config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Color",type:"color"},{key:"min_value",label:"Min Value",type:"float",default_value:undefined},{key:"max_value",label:"Max Value",type:"float",default_value:undefined},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:30,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},before_draw:function(){},draw_tile:function(ac,ad,af,ae,ag){return this._draw_line_track_tile(ac,ad,af,ae,ag)},can_subset:function(ac){return(ac.data[1][0]-ac.data[0][0]===1)},postdraw_actions:function(ad,ae,af,ac){this._add_yaxis_label("max");this._add_yaxis_label("min")}});var t=function(ad,ac,ae){this.mode="Heatmap";N.call(this,ad,ac,ae)};q(t.prototype,r.prototype,N.prototype,{display_modes:["Heatmap"],config_params:ab.union(r.prototype.config_params,[{key:"pos_color",label:"Positive Color",type:"color",default_value:"#FF8C00"},{key:"neg_color",label:"Negative Color",type:"color",default_value:"#4169E1"},{key:"min_value",label:"Min Value",type:"float",default_value:-1},{key:"max_value",label:"Max Value",type:"float",default_value:1},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:500,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.DiagonalHeatmapPainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new c(this,ag,ai,af,ac.data)}});var d=function(ad,ac,ae){N.call(this,ad,ac,ae);this.container_div.addClass("feature-track");this.summary_draw_height=30;this.slotters={};this.start_end_dct={};this.left_offset=200;this.set_painter_from_config()};q(d.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true,help:"Show the number of items in each bin when drawing summary histogram"},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"connector_style",label:"Connector style",type:"select",default_value:"fishbones",options:[{label:"Line with arrows",value:"fishbone"},{label:"Arcs",value:"arcs"}]},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.set_painter_from_config();this.request_draw({clear_tile_cache:true})},set_painter_from_config:function(){if(this.config.get("values").connector_style==="arcs"){this.painter=L.ArcLinkedFeaturePainter}else{this.painter=L.LinkedFeaturePainter}},postdraw_actions:function(am,ae,an,al){N.prototype.postdraw_actions.call(this,am,ae,an,al);var ag=this,ah;if(ag.filters_manager){var af=ag.filters_manager.filters,aj;for(aj=0;aj<af.length;aj++){af[aj].update_ui_elt()}var ai=false,ak,ad;for(ah=0;ah<am.length;ah++){if(am[ah].data.length){ak=am[ah].data[0];for(aj=0;aj<af.length;aj++){ad=af[aj];if(ad.applies_to(ak)&&ad.min!==ad.max){ai=true;break}}}}if(ag.filters_available!==ai){ag.filters_available=ai;if(!ag.filters_available){ag.filters_manager.hide()}ag.update_icons()}}if(am[0] instanceof O){var ac=true;for(ah=0;ah<am.length;ah++){if(!am[ah].all_slotted){ac=false;break}}if(!ac){this.action_icons.show_more_rows_icon.show()}else{this.action_icons.show_more_rows_icon.hide()}}else{this.action_icons.show_more_rows_icon.hide()}},update_auto_mode:function(ac){if(this.mode==="Auto"){if(ac==="no_detail"){ac="feature spans"}this.action_icons.mode_icon.attr("title","Set display mode (now: Auto/"+ac+")")}},incremental_slots:function(ag,ac,af){var ad=this.view.canvas_manager.dummy_context,ae=this.slotters[ag];if(!ae||(ae.mode!==af)){ae=new (u.FeatureSlotter)(ag,af,B,function(ah){return ad.measureText(ah)});this.slotters[ag]=ae}return ae.slot_features(ac)},get_mode:function(ac){if(ac.extra_info==="no_detail"||this.is_overview){mode="no_detail"}else{if(this.view.high-this.view.low>I){mode="Squish"}else{mode="Pack"}}return mode},get_canvas_height:function(ac,ag,ah,ad){if(ag==="Coverage"||ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var af=this.incremental_slots(ah,ac.data,ag);var ae=new (this.painter)(null,null,null,this.prefs,ag);return Math.max(this.min_height_px,ae.get_required_height(af,ad))}},draw_tile:function(am,aq,ao,af,aj,ae){var ap=this,ad=aq.canvas,ax=af.get("start"),ac=af.get("end"),ag=this.left_offset;if(am.dataset_type==="bigwig"){return this._draw_line_track_tile(am,aq,ao,af,aj)}var ai=[],an=this.slotters[aj].slots;all_slotted=true;if(am.data){var ak=this.filters_manager.filters;for(var ar=0,au=am.data.length;ar<au;ar++){var ah=am.data[ar];var at=false;var al;for(var aw=0,aB=ak.length;aw<aB;aw++){al=ak[aw];al.update_attrs(ah);if(!al.keep(ah)){at=true;break}}if(!at){ai.push(ah);if(!(ah[0] in an)){all_slotted=false}}}}var aA=(this.filters_manager.alpha_filter?new E(this.filters_manager.alpha_filter):null),ay=(this.filters_manager.height_filter?new E(this.filters_manager.height_filter):null),az=new (this.painter)(ai,ax,ac,this.prefs,ao,aA,ay,ae,function(aC){return ap.view.get_base_color(aC)});var av=null;aq.fillStyle=this.prefs.block_color;aq.font=aq.canvas.manager.default_font;aq.textAlign="right";if(am.data){av=az.draw(aq,ad.width,ad.height,aj,an);av.translation=-ag}return new O(ap,af,aj,ad,am.data,ao,am.message,all_slotted,av)}});var Z=function(ad,ac,ae){N.call(this,ad,ac,ae);this.painter=L.VariantPainter;this.summary_draw_height=30;this.left_offset=30};q(Z.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Histogram color",type:"color"},{key:"show_sample_data",label:"Show sample data",type:"bool",default_value:true},{key:"show_labels",label:"Show summary and sample labels",type:"bool",default_value:true},{key:"summary_height",label:"Locus summary height",type:"float",default_value:20},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,af,ah,ag,ai){if(ac.dataset_type==="bigwig"){return this._draw_line_track_tile(ac,af,"Histogram",ag,ai)}else{var ae=this.view,ad=new (this.painter)(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah,function(aj){return ae.get_base_color(aj)});ad.draw(af,af.canvas.width,af.canvas.height,ai);return new c(this,ag,ai,af.canvas,ac.data)}},get_canvas_height:function(ac,ag,ah,ae){if(ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var ad=(this.dataset.get_metadata("sample_names")?this.dataset.get_metadata("sample_names").length:0);if(ad===0&&ac.data.length!==0){ad=ac.data[0][7].match(/,/g);if(ad===null){ad=1}else{ad=ad.length+1}}var af=new (this.painter)(null,null,null,this.prefs,ag);return af.get_required_height(ad)}},predraw_init:function(){var ac=[g.prototype.predraw_init.call(this)];if(!this.dataset.get_metadata("sample_names")){ac.push(this.dataset.fetch())}return ac},postdraw_actions:function(ag,ah,aj,ad){N.prototype.postdraw_actions.call(this,ag,ah,aj,ad);var af=ab.filter(ag,function(ak){return(ak instanceof M)});var ae=this.dataset.get_metadata("sample_names");if(af.length===0&&this.prefs.show_labels&&ae&&ae.length>1){var ac;if(this.container_div.find(".yaxislabel.variant").length===0){ac=this.prefs.summary_height/2;this.tiles_div.prepend($("<div/>").text("Summary").addClass("yaxislabel variant top").css({"font-size":ac+"px",top:(this.prefs.summary_height-ac)/2+"px"}));if(this.prefs.show_sample_data){var ai=ae.join("<br/>");this.tiles_div.prepend($("<div/>").html(ai).addClass("yaxislabel variant top sample").css({top:this.prefs.summary_height,}))}}ac=(this.mode==="Squish"?5:10)+"px";$(this.tiles_div).find(".sample").css({"font-size":ac,"line-height":ac});$(this.tiles_div).find(".yaxislabel").css("color",this.prefs.label_color)}else{this.container_div.find(".yaxislabel.variant").remove()}}});var T=function(ad,ac,ae){d.call(this,ad,ac,ae);this.painter=(ad.reference_track?L.RefBasedReadPainter:L.ReadPainter);this.update_icons()};q(T.prototype,r.prototype,N.prototype,d.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block and sense strand color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_insertions",label:"Show insertions",type:"bool",default_value:false},{key:"show_differences",label:"Show differences only",type:"bool",default_value:true},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})}});var e={CompositeTrack:f,DrawableGroup:P,DiagonalHeatmapTrack:t,FeatureTrack:d,LineTrack:h,ReadTrack:T,VariantTrack:Z,VcfTrack:Z};var p=function(ae,ad,ac){if("copy" in ae){return ae.copy(ac)}else{var af=ae.obj_type;if(!af){af=ae.track_type}return new e[af](ad,ac,ae)}};return{TracksterView:Y,DrawableGroup:P,LineTrack:h,FeatureTrack:d,DiagonalHeatmapTrack:t,ReadTrack:T,VariantTrack:Z,CompositeTrack:f,object_from_template:p}}); \ No newline at end of file +define(["libs/underscore","viz/visualization","viz/trackster/util","viz/trackster/slotting","viz/trackster/painters","viz/trackster/filters","mvc/data","mvc/tools"],function(ab,y,l,u,L,i,X,R){var q=ab.extend;var n={};var k=function(ac,ad){n[ac.attr("id")]=ad};var m=function(ac,ad,af,ae){af=".group";n[ac.attr("id")]=ae;ac.bind("drag",{handle:"."+ad,relative:true},function(an,ao){var am=$(this),ar=$(this).parent(),aj=ar.children(".track,.group"),al=n[$(this).attr("id")],ai,ah,ap,ag,ak;ah=$(this).parents(af);if(ah.length!==0){ap=ah.position().top;ag=ap+ah.outerHeight();var aq=n[ah.attr("id")];if(ao.offsetY<ap){$(this).insertBefore(ah);aq.remove_drawable(al);aq.container.add_drawable_before(al,aq);return}else{if(ao.offsetY>ag){$(this).insertAfter(ah);aq.remove_drawable(al);aq.container.add_drawable(al);return}}}ah=null;for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));ap=ai.position().top;ag=ap+ai.outerHeight();if(ai.is(af)&&this!==ai.get(0)&&ao.offsetY>=ap&&ao.offsetY<=ag){if(ao.offsetY-ap<ag-ao.offsetY){ai.find(".content-div").prepend(this)}else{ai.find(".content-div").append(this)}if(al.container){al.container.remove_drawable(al)}n[ai.attr("id")].add_drawable(al);return}}for(ak=0;ak<aj.length;ak++){ai=$(aj.get(ak));if(ao.offsetY<ai.position().top&&!(ai.hasClass("reference-track")||ai.hasClass("intro"))){break}}if(ak===aj.length){if(this!==aj.get(ak-1)){ar.append(this);n[ar.attr("id")].move_drawable(al,ak)}}else{if(this!==aj.get(ak)){$(this).insertBefore(aj.get(ak));n[ar.attr("id")].move_drawable(al,(ao.deltaY>0?ak-1:ak))}}}).bind("dragstart",function(){$(this).addClass("dragging")}).bind("dragend",function(){$(this).removeClass("dragging")})};var F=20,B=100,I=12000,S=400,K=5000,x=100,o="Cannot display dataset due to an error. ",J="A converter for this dataset is not installed. Please check your datatypes_conf.xml file.",G="No data for this chrom/contig.",w="Preparing data. This can take a while for a large dataset. If the visualization is saved and closed, preparation will continue in the background.",z="Tool cannot be rerun: ",b="Loading data...",U="Ready for display",Q=10,H=20,C=["Histogram","Line","Filled","Intensity"];function V(ad,ac){if(!ac){ac=0}var ae=Math.pow(10,ac);return Math.round(ad*ae)/ae}var r=function(ad,ac,af){if(!r.id_counter){r.id_counter=0}this.id=r.id_counter++;this.view=ad;this.container=ac;this.drag_handle_class=af.drag_handle_class;this.is_overview=false;this.action_icons={};this.config=new j({params:this.config_params,onchange:this.config_onchange,saved_values:af.prefs});this.prefs=this.config.get("values");if(!this.prefs.name){this.prefs.name=af.name}if(this.config_onchange){this.config.on("change:values",this.config_onchange,this)}this.container_div=this.build_container_div();this.header_div=this.build_header_div();if(this.header_div){this.container_div.append(this.header_div);this.icons_div=$("<div/>").addClass("track-icons").hide().appendTo(this.header_div);this.build_action_icons(this.action_icons_def);this.header_div.append($("<div style='clear: both'/>"));this.header_div.dblclick(function(ag){ag.stopPropagation()});var ae=this;this.container_div.hover(function(){ae.icons_div.show()},function(){ae.icons_div.hide()});$("<div style='clear: both'/>").appendTo(this.container_div)}};r.prototype.action_icons_def=[{name:"toggle_icon",title:"Hide/show content",css_class:"toggle",on_click_fn:function(ac){if(ac.prefs.content_visible){ac.action_icons.toggle_icon.addClass("toggle-expand").removeClass("toggle");ac.hide_contents();ac.prefs.content_visible=false}else{ac.action_icons.toggle_icon.addClass("toggle").removeClass("toggle-expand");ac.prefs.content_visible=true;ac.show_contents()}}},{name:"settings_icon",title:"Edit settings",css_class:"gear",on_click_fn:function(ad){var ac=new a({model:ad.config});ac.render()}},{name:"remove_icon",title:"Remove",css_class:"remove-icon",on_click_fn:function(ac){$(".tooltip").remove();ac.remove()}}];q(r.prototype,{config_params:[{key:"name",label:"Name",type:"text",default_value:""},{key:"content_visible",type:"bool",default_value:true,hidden:true}],config_onchange:function(){this.track.set_name(this.track.config.get("values").name)},init:function(){},changed:function(){this.view.changed()},can_draw:function(){if(this.enabled&&this.prefs.content_visible){return true}return false},request_draw:function(){},_draw:function(ac){},to_dict:function(){},set_name:function(ac){this.old_name=this.prefs.name;this.prefs.name=ac;this.name_div.text(this.prefs.name)},revert_name:function(){if(this.old_name){this.prefs.name=this.old_name;this.name_div.text(this.prefs.name)}},remove:function(){this.changed();this.container.remove_drawable(this);var ac=this.view;this.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})},build_container_div:function(){},build_header_div:function(){},add_action_icon:function(ad,ai,ah,ag,ac,af){var ae=this;this.action_icons[ad]=$("<a/>").attr("title",ai).addClass("icon-button").addClass(ah).tooltip().click(function(){ag(ae)}).appendTo(this.icons_div);if(af){this.action_icons[ad].hide()}},build_action_icons:function(ac){var ae;for(var ad=0;ad<ac.length;ad++){ae=ac[ad];this.add_action_icon(ae.name,ae.title,ae.css_class,ae.on_click_fn,ae.prepend,ae.hide)}},update_icons:function(){},hide_contents:function(){},show_contents:function(){},get_drawables:function(){}});var A=function(ad,ac,ae){r.call(this,ad,ac,ae);this.obj_type=ae.obj_type;this.drawables=[]};q(A.prototype,r.prototype,{unpack_drawables:function(ae){this.drawables=[];var ad;for(var ac=0;ac<ae.length;ac++){ad=p(ae[ac],this.view,this);this.add_drawable(ad)}},init:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].init()}},_draw:function(ac){for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad]._draw(ac)}},to_dict:function(){var ad=[];for(var ac=0;ac<this.drawables.length;ac++){ad.push(this.drawables[ac].to_dict())}return{prefs:this.prefs,obj_type:this.obj_type,drawables:ad}},add_drawable:function(ac){this.drawables.push(ac);ac.container=this;this.changed()},add_drawable_before:function(ae,ac){this.changed();var ad=this.drawables.indexOf(ac);if(ad!==-1){this.drawables.splice(ad,0,ae);return true}return false},replace_drawable:function(ae,ac,ad){var af=this.drawables.indexOf(ae);if(af!==-1){this.drawables[af]=ac;if(ad){ae.container_div.replaceWith(ac.container_div)}this.changed()}return af},remove_drawable:function(ad){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);ad.container=null;this.changed();return true}return false},move_drawable:function(ad,ae){var ac=this.drawables.indexOf(ad);if(ac!==-1){this.drawables.splice(ac,1);this.drawables.splice(ae,0,ad);this.changed();return true}return false},get_drawables:function(){return this.drawables},get_tracks:function(af){var ac=this.drawables.slice(0),ad=[],ae;while(ac.length!==0){ae=ac.shift();if(ae instanceof af){ad.push(ae)}else{if(ae.drawables){ac=ac.concat(ae.drawables)}}}return ad}});var P=function(ad,ac,af){q(af,{obj_type:"DrawableGroup",drag_handle_class:"group-handle"});A.call(this,ad,ac,af);this.content_div=$("<div/>").addClass("content-div").attr("id","group_"+this.id+"_content_div").appendTo(this.container_div);k(this.container_div,this);k(this.content_div,this);m(this.container_div,this.drag_handle_class,".group",this);this.filters_manager=new i.FiltersManager(this);this.header_div.after(this.filters_manager.parent_div);this.saved_filters_managers=[];if("drawables" in af){this.unpack_drawables(af.drawables)}if("filters" in af){var ae=this.filters_manager;this.filters_manager=new i.FiltersManager(this,af.filters);ae.parent_div.replaceWith(this.filters_manager.parent_div);if(af.filters.visible){this.setup_multitrack_filtering()}}};q(P.prototype,r.prototype,A.prototype,{action_icons_def:[r.prototype.action_icons_def[0],r.prototype.action_icons_def[1],{name:"composite_icon",title:"Show composite track",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_composite_track()}},{name:"filters_icon",title:"Filters",css_class:"filters-icon",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters();ac._restore_filter_managers()}else{ac.setup_multitrack_filtering();ac.request_draw({clear_tile_cache:true})}ac.filters_manager.toggle()}},r.prototype.action_icons_def[2]],build_container_div:function(){var ac=$("<div/>").addClass("group").attr("id","group_"+this.id);if(this.container){this.container.content_div.append(ac)}return ac},build_header_div:function(){var ac=$("<div/>").addClass("track-header");ac.append($("<div/>").addClass(this.drag_handle_class));this.name_div=$("<div/>").addClass("track-name").text(this.prefs.name).appendTo(ac);return ac},hide_contents:function(){this.tiles_div.hide()},show_contents:function(){this.tiles_div.show();this.request_draw()},update_icons:function(){var ae=this.drawables.length;if(ae===0){this.action_icons.composite_icon.hide();this.action_icons.filters_icon.hide()}else{if(ae===1){if(this.drawables[0] instanceof f){this.action_icons.composite_icon.show()}this.action_icons.filters_icon.hide()}else{var al,ak,ai,ao=true,ag=this.drawables[0].get_type(),ac=0;for(al=0;al<ae;al++){ai=this.drawables[al];if(ai.get_type()!==ag){can_composite=false;break}if(ai instanceof d){ac++}}if(ao||ac===1){this.action_icons.composite_icon.show()}else{this.action_icons.composite_icon.hide();$(".tooltip").remove()}if(ac>1&&ac===this.drawables.length){var ap={},ad;ai=this.drawables[0];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];ap[ad.name]=[ad]}for(al=1;al<this.drawables.length;al++){ai=this.drawables[al];for(ak=0;ak<ai.filters_manager.filters.length;ak++){ad=ai.filters_manager.filters[ak];if(ad.name in ap){ap[ad.name].push(ad)}}}this.filters_manager.remove_all();var af,ah,aj,am;for(var an in ap){af=ap[an];if(af.length===ac){ah=new i.NumberFilter({name:af[0].name,index:af[0].index});this.filters_manager.add_filter(ah)}}if(this.filters_manager.filters.length>0){this.action_icons.filters_icon.show()}else{this.action_icons.filters_icon.hide()}}else{this.action_icons.filters_icon.hide()}}}},_restore_filter_managers:function(){for(var ac=0;ac<this.drawables.length;ac++){this.drawables[ac].filters_manager=this.saved_filters_managers[ac]}this.saved_filters_managers=[]},setup_multitrack_filtering:function(){if(this.filters_manager.filters.length>0){this.saved_filters_managers=[];for(var ac=0;ac<this.drawables.length;ac++){drawable=this.drawables[ac];this.saved_filters_managers.push(drawable.filters_manager);drawable.filters_manager=this.filters_manager}}this.filters_manager.init_filters()},show_composite_track:function(){var ad=new f(this.view,this.view,{name:this.prefs.name,drawables:this.drawables});var ac=this.container.replace_drawable(this,ad,true);ad.request_draw()},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);this.update_icons()},remove_drawable:function(ac){A.prototype.remove_drawable.call(this,ac);this.update_icons()},to_dict:function(){if(this.filters_manager.visible()){this._restore_filter_managers()}var ac=q(A.prototype.to_dict.call(this),{filters:this.filters_manager.to_dict()});if(this.filters_manager.visible()){this.setup_multitrack_filtering()}return ac},request_draw:function(ac){ab.each(this.drawables,function(ad){ad.request_draw(ac)})}});var Y=Backbone.View.extend({initialize:function(ac){q(ac,{obj_type:"View"});A.call(this,"View",ac.container,ac);this.chrom=null;this.vis_id=ac.vis_id;this.dbkey=ac.dbkey;this.label_tracks=[];this.tracks_to_be_redrawn=[];this.max_low=0;this.max_high=0;this.zoom_factor=3;this.min_separation=30;this.has_changes=false;this.load_chroms_deferred=null;this.render();this.canvas_manager=new y.CanvasManager(this.container.get(0).ownerDocument);this.reset();this.config=new j({track:this,params:[{key:"a_color",label:"A Color",type:"color",default_value:"#FF0000"},{key:"c_color",label:"C Color",type:"color",default_value:"#00FF00"},{key:"g_color",label:"G Color",type:"color",default_value:"#0000FF"},{key:"t_color",label:"T Color",type:"color",default_value:"#FF00FF"},{key:"n_color",label:"N Color",type:"color",default_value:"#AAAAAA"}],saved_values:ac.prefs,onchange:function(){track.request_redraw({clear_tile_cache:true})}})},render:function(){this.requested_redraw=false;var ae=this.container,ac=this;this.top_container=$("<div/>").addClass("top-container").appendTo(ae);this.browser_content_div=$("<div/>").addClass("content").appendTo(ae);this.bottom_container=$("<div/>").addClass("bottom-container").appendTo(ae);this.top_labeltrack=$("<div/>").addClass("top-labeltrack").appendTo(this.top_container);this.viewport_container=$("<div/>").addClass("viewport-container").attr("id","viewport-container").appendTo(this.browser_content_div);this.content_div=this.viewport_container;k(this.viewport_container,ac);this.intro_div=$("<div/>").addClass("intro").appendTo(this.viewport_container).hide();var af=$("<div/>").text("Add Datasets to Visualization").addClass("action-button").appendTo(this.intro_div).click(function(){y.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":ac.dbkey},function(ag){ab.each(ag,function(ah){ac.add_drawable(p(ah,ac,ac))})})});this.nav_labeltrack=$("<div/>").addClass("nav-labeltrack").appendTo(this.bottom_container);this.nav_container=$("<div/>").addClass("trackster-nav-container").prependTo(this.top_container);this.nav=$("<div/>").addClass("trackster-nav").appendTo(this.nav_container);this.overview=$("<div/>").addClass("overview").appendTo(this.bottom_container);this.overview_viewport=$("<div/>").addClass("overview-viewport").appendTo(this.overview);this.overview_close=$("<a/>").attr("title","Close overview").addClass("icon-button overview-close tooltip").hide().appendTo(this.overview_viewport);this.overview_highlight=$("<div/>").addClass("overview-highlight").hide().appendTo(this.overview_viewport);this.overview_box_background=$("<div/>").addClass("overview-boxback").appendTo(this.overview_viewport);this.overview_box=$("<div/>").addClass("overview-box").appendTo(this.overview_viewport);this.default_overview_height=this.overview_box.height();this.nav_controls=$("<div/>").addClass("nav-controls").appendTo(this.nav);this.chrom_select=$("<select/>").attr({name:"chrom"}).addClass("chrom-nav").append("<option value=''>Loading</option>").appendTo(this.nav_controls);var ad=function(ag){if(ag.type==="focusout"||(ag.keyCode||ag.which)===13||(ag.keyCode||ag.which)===27){if((ag.keyCode||ag.which)!==27){ac.go_to($(this).val())}$(this).hide();$(this).val("");ac.location_span.show();ac.chrom_select.show()}ag.stopPropagation()};this.nav_input=$("<input/>").addClass("nav-input").hide().bind("keyup focusout",ad).appendTo(this.nav_controls);this.location_span=$("<span/>").addClass("location").attr("title","Click to change location").tooltip({placement:"bottom"}).appendTo(this.nav_controls);this.location_span.click(function(){ac.location_span.hide();ac.chrom_select.hide();ac.nav_input.val(ac.chrom+":"+ac.low+"-"+ac.high);ac.nav_input.css("display","inline-block");ac.nav_input.select();ac.nav_input.focus();ac.nav_input.autocomplete({source:function(ai,ag){var aj=[],ah=$.map(ac.get_tracks(d),function(ak){return ak.data_manager.search_features(ai.term).success(function(al){aj=aj.concat(al)})});$.when.apply($,ah).done(function(){ag($.map(aj,function(ak){return{label:ak[0],value:ak[1]}}))})}})});if(this.vis_id!==undefined){this.hidden_input=$("<input/>").attr("type","hidden").val(this.vis_id).appendTo(this.nav_controls)}this.zo_link=$("<a/>").attr("id","zoom-out").attr("title","Zoom out").tooltip({placement:"bottom"}).click(function(){ac.zoom_out()}).appendTo(this.nav_controls);this.zi_link=$("<a/>").attr("id","zoom-in").attr("title","Zoom in").tooltip({placement:"bottom"}).click(function(){ac.zoom_in()}).appendTo(this.nav_controls);this.load_chroms_deferred=this.load_chroms({low:0});this.chrom_select.bind("change",function(){ac.change_chrom(ac.chrom_select.val())});this.browser_content_div.click(function(ag){$(this).find("input").trigger("blur")});this.browser_content_div.bind("dblclick",function(ag){ac.zoom_in(ag.pageX,this.viewport_container)});this.overview_box.bind("dragstart",function(ag,ah){this.current_x=ah.offsetX}).bind("drag",function(ag,ai){var aj=ai.offsetX-this.current_x;this.current_x=ai.offsetX;var ah=Math.round(aj/ac.viewport_container.width()*(ac.max_high-ac.max_low));ac.move_delta(-ah)});this.overview_close.click(function(){ac.reset_overview()});this.viewport_container.bind("draginit",function(ag,ah){if(ag.clientX>ac.viewport_container.width()-16){return false}}).bind("dragstart",function(ag,ah){ah.original_low=ac.low;ah.current_height=ag.clientY;ah.current_x=ah.offsetX}).bind("drag",function(ai,ak){var ag=$(this);var al=ak.offsetX-ak.current_x;var ah=ag.scrollTop()-(ai.clientY-ak.current_height);ag.scrollTop(ah);ak.current_height=ai.clientY;ak.current_x=ak.offsetX;var aj=Math.round(al/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}).bind("mousewheel",function(ai,ak,ah,ag){if(ah){ah*=50;var aj=Math.round(-ah/ac.viewport_container.width()*(ac.high-ac.low));ac.move_delta(aj)}});this.top_labeltrack.bind("dragstart",function(ag,ah){return $("<div/>").addClass("zoom-area").css("height",ac.browser_content_div.height()+ac.top_labeltrack.height()+ac.nav_labeltrack.height()+1).appendTo($(this))}).bind("drag",function(ak,al){$(al.proxy).css({left:Math.min(ak.pageX,al.startX)-ac.container.offset().left,width:Math.abs(ak.pageX-al.startX)});var ah=Math.min(ak.pageX,al.startX)-ac.container.offset().left,ag=Math.max(ak.pageX,al.startX)-ac.container.offset().left,aj=(ac.high-ac.low),ai=ac.viewport_container.width();ac.update_location(Math.round(ah/ai*aj)+ac.low,Math.round(ag/ai*aj)+ac.low)}).bind("dragend",function(al,am){var ah=Math.min(al.pageX,am.startX),ag=Math.max(al.pageX,am.startX),aj=(ac.high-ac.low),ai=ac.viewport_container.width(),ak=ac.low;ac.low=Math.round(ah/ai*aj)+ak;ac.high=Math.round(ag/ai*aj)+ak;$(am.proxy).remove();ac.request_redraw()});this.add_label_track(new W(this,{content_div:this.top_labeltrack}));this.add_label_track(new W(this,{content_div:this.nav_labeltrack}));$(window).bind("resize",function(){if(this.resize_timer){clearTimeout(this.resize_timer)}this.resize_timer=setTimeout(function(){ac.resize_window()},500)});$(document).bind("redraw",function(){ac.redraw()});this.reset();$(window).trigger("resize")},get_base_color:function(ac){return this.config.get("values")[ac.toLowerCase()+"_color"]||this.config.get("values").n_color}});q(Y.prototype,A.prototype,{changed:function(){this.has_changes=true},update_intro_div:function(){if(this.drawables.length===0){this.intro_div.show()}else{this.intro_div.hide()}},trigger_navigate:function(ad,af,ac,ag){if(this.timer){clearTimeout(this.timer)}if(ag){var ae=this;this.timer=setTimeout(function(){ae.trigger("navigate",ad+":"+af+"-"+ac)},500)}else{view.trigger("navigate",ad+":"+af+"-"+ac)}},update_location:function(ac,ae){this.location_span.text(commatize(ac)+" - "+commatize(ae));this.nav_input.val(this.chrom+":"+commatize(ac)+"-"+commatize(ae));var ad=view.chrom_select.val();if(ad!==""){this.trigger_navigate(ad,view.low,view.high,true)}},load_chroms:function(ae){ae.num=x;var ac=this,ad=$.Deferred();$.ajax({url:galaxy_config.root+"api/genomes/"+this.dbkey,data:ae,dataType:"json",success:function(ag){if(ag.chrom_info.length===0){return}if(ag.reference){var ah=new D(ac);ac.add_label_track(ah);ac.reference_track=ah}ac.chrom_data=ag.chrom_info;var ak='<option value="">Select Chrom/Contig</option>';for(var aj=0,af=ac.chrom_data.length;aj<af;aj++){var ai=ac.chrom_data[aj].chrom;ak+='<option value="'+ai+'">'+ai+"</option>"}if(ag.prev_chroms){ak+='<option value="previous">Previous '+x+"</option>"}if(ag.next_chroms){ak+='<option value="next">Next '+x+"</option>"}ac.chrom_select.html(ak);ac.chrom_start_index=ag.start_index;ad.resolve(ag.chrom_info)},error:function(){alert("Could not load chroms for this dbkey: "+ac.dbkey)}});return ad},change_chrom:function(ah,ad,aj){var ae=this;if(!ae.chrom_data){ae.load_chroms_deferred.then(function(){ae.change_chrom(ah,ad,aj)});return}if(!ah||ah==="None"){return}if(ah==="previous"){ae.load_chroms({low:this.chrom_start_index-x});return}if(ah==="next"){ae.load_chroms({low:this.chrom_start_index+x});return}var ai=$.grep(ae.chrom_data,function(ak,al){return ak.chrom===ah})[0];if(ai===undefined){ae.load_chroms({chrom:ah},function(){ae.change_chrom(ah,ad,aj)});return}else{if(ah!==ae.chrom){ae.chrom=ah;ae.chrom_select.val(ae.chrom);ae.max_high=ai.len-1;ae.reset();for(var ag=0,ac=ae.drawables.length;ag<ac;ag++){var af=ae.drawables[ag];if(af.init){af.init()}}if(ae.reference_track){ae.reference_track.init()}}if(ad!==undefined&&aj!==undefined){ae.low=Math.max(ad,0);ae.high=Math.min(aj,ae.max_high)}else{ae.low=0;ae.high=ae.max_high}ae.reset_overview();ae.request_redraw()}},go_to:function(ag){ag=ag.replace(/,/g,"");ag=ag.replace(/:|\-/g," ");var ad=ag.split(/\s+/),af=ad[0],ae=(ad[1]?parseInt(ad[1],10):null),ac=(ad[2]?parseInt(ad[2],10):null);if(!ac){ae=ae-15;ac=ae+15}this.change_chrom(af,ae,ac)},move_fraction:function(ae){var ac=this;var ad=ac.high-ac.low;this.move_delta(ae*ad)},move_delta:function(af){var ac=this;var ae=ac.high-ac.low;if(ac.low-af<ac.max_low){ac.low=ac.max_low;ac.high=ac.max_low+ae}else{if(ac.high-af>ac.max_high){ac.high=ac.max_high;ac.low=ac.max_high-ae}else{ac.high-=af;ac.low-=af}}ac.request_redraw({data_fetch:false});if(this.redraw_on_move_fn){clearTimeout(this.redraw_on_move_fn)}this.redraw_on_move_fn=setTimeout(function(){ac.request_redraw()},200);var ad=ac.chrom_select.val();this.trigger_navigate(ad,ac.low,ac.high,true)},add_drawable:function(ac){A.prototype.add_drawable.call(this,ac);ac.init();this.changed();this.update_intro_div()},add_label_track:function(ac){ac.view=this;ac.init();this.label_tracks.push(ac)},remove_drawable:function(ae,ad){A.prototype.remove_drawable.call(this,ae);if(ad){var ac=this;ae.container_div.hide(0,function(){$(this).remove();ac.update_intro_div()})}},reset:function(){this.low=this.max_low;this.high=this.max_high;this.viewport_container.find(".yaxislabel").remove()},request_redraw:function(ad,ae){var ac=this,af=(ae?[ae]:ac.drawables);ab.each(af,function(ag){var ah=ab.find(ac.tracks_to_be_redrawn,function(ai){return ai[0]===ag});if(ah){ah[1]=ad}else{ac.tracks_to_be_redrawn.push([ag,ad])}});if(!this.requested_redraw){requestAnimationFrame(function(){ac._redraw()});this.requested_redraw=true}},_redraw:function(){this.requested_redraw=false;var ac=this.low,ag=this.high;if(ac<this.max_low){ac=this.max_low}if(ag>this.max_high){ag=this.max_high}var ad=this.high-this.low;if(this.high!==0&&ad<this.min_separation){ag=ac+this.min_separation}this.low=Math.floor(ac);this.high=Math.ceil(ag);this.update_location(this.low,this.high);this.resolution_px_b=this.viewport_container.width()/(this.high-this.low);var af=(this.low/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ah=((this.high-this.low)/(this.max_high-this.max_low)*this.overview_viewport.width())||0;var ae=13;this.overview_box.css({left:af,width:Math.max(ae,ah)}).show();if(ah<ae){this.overview_box.css("left",af-(ae-ah)/2)}if(this.overview_highlight){this.overview_highlight.css({left:af,width:ah})}ab.each(this.tracks_to_be_redrawn,function(ak){var ai=ak[0],aj=ak[1];if(ai){ai._draw(aj)}});this.tracks_to_be_redrawn=[];ab.each(this.label_tracks,function(ai){ai._draw()})},zoom_in:function(ad,ae){if(this.max_high===0||this.high-this.low<=this.min_separation){return}var af=this.high-this.low,ag=af/2+this.low,ac=(af/this.zoom_factor)/2;if(ad){ag=ad/this.viewport_container.width()*(this.high-this.low)+this.low}this.low=Math.round(ag-ac);this.high=Math.round(ag+ac);this.changed();this.request_redraw()},zoom_out:function(){if(this.max_high===0){return}var ad=this.high-this.low,ae=ad/2+this.low,ac=(ad*this.zoom_factor)/2;this.low=Math.round(ae-ac);this.high=Math.round(ae+ac);this.changed();this.request_redraw()},resize_window:function(){this.viewport_container.height(this.container.height()-this.top_container.height()-this.bottom_container.height());this.request_redraw()},set_overview:function(ae){if(this.overview_drawable){if(this.overview_drawable.dataset.id===ae.dataset.id){return}this.overview_viewport.find(".track").remove()}var ad=ae.copy({content_div:this.overview_viewport}),ac=this;ad.header_div.hide();ad.is_overview=true;ac.overview_drawable=ad;this.overview_drawable.postdraw_actions=function(){ac.overview_highlight.show().height(ac.overview_drawable.content_div.height());ac.overview_viewport.height(ac.overview_drawable.content_div.height()+ac.overview_box.outerHeight());ac.overview_close.show();ac.resize_window()};ac.overview_drawable.request_draw();this.changed()},reset_overview:function(){$(".tooltip").remove();this.overview_viewport.find(".track-tile").remove();this.overview_viewport.height(this.default_overview_height);this.overview_box.height(this.default_overview_height);this.overview_close.hide();this.overview_highlight.hide();view.resize_window();view.overview_drawable=null}});var s=R.Tool.extend({defaults:{track:null},initialize:function(ac){R.Tool.prototype.initialize.call(this,ac);var ad=true;if(ac.tool_state!==undefined&&ac.tool_state.hidden!==undefined){ad=ac.tool_state.hidden}this.set("hidden",ad);this.remove_inputs(["data","hidden_data","conditional"])},state_dict:function(ac){return ab.extend(this.get_inputs_dict(),{hidden:!this.is_visible()})}});var v=Backbone.View.extend({events:{"change input":"update_value"},render:function(){var ae=this.$el.addClass("param-row"),af=this.model;var ac=$("<div>").addClass("param-label").text(af.get("label")).appendTo(ae);var ad=$("<div/>").addClass("param-input").html(af.get("html")).appendTo(ae);ad.find(":input").val(af.get("value"));$("<div style='clear: both;'/>").appendTo(ae)},update_value:function(ac){this.model.set_value($(ac.target).val())}});var aa=Backbone.View.extend({initialize:function(ac){this.model.on("change:hidden",this.set_visible,this)},render:function(){var ad=this;tool=this.model,parent_div=this.$el.addClass("dynamic-tool").hide();parent_div.bind("drag",function(ah){ah.stopPropagation()}).click(function(ah){ah.stopPropagation()}).bind("dblclick",function(ah){ah.stopPropagation()}).keydown(function(ah){ah.stopPropagation()});var ae=$("<div class='tool-name'>").appendTo(parent_div).text(tool.get("name"));tool.get("inputs").each(function(ai){var ah=new v({model:ai});ah.render();parent_div.append(ah.$el)});parent_div.find("input").click(function(){$(this).select()});var af=$("<div>").addClass("param-row").appendTo(parent_div);var ag=$("<input type='submit'>").attr("value","Run on complete dataset").appendTo(af);var ac=$("<input type='submit'>").attr("value","Run on visible region").appendTo(af);ac.click(function(){ad.run_on_region()});ag.click(function(){ad.run_on_dataset()});if(tool.is_visible()){this.$el.show()}},set_visible:function(){if(this.model.is_visible()){this.$el.show()}else{this.$el.hide()}},update_params:function(){for(var ac=0;ac<this.params.length;ac++){this.params[ac].update_value()}},run_on_dataset:function(){var ac=this.model;this.run({target_dataset_id:this.model.get("track").dataset.id,action:"rerun",tool_id:ac.id},null,function(ad){Galaxy.modal.show({title:ac.get("name")+" is Running",body:ac.get("name")+" is running on the complete dataset. Tool outputs are in dataset's history.",buttons:{Close:function(){Galaxy.modal.hide()}}})})},run_on_region:function(){var ad=this.model.get("track"),ag=this.model,ai=new y.GenomeRegion({chrom:ad.view.chrom,start:ad.view.low,end:ad.view.high}),aj={target_dataset_id:ad.dataset.id,action:"rerun",tool_id:ag.id,regions:[ai.toJSON()]},ah=ad,al=ag.get("name")+ah.tool_region_and_parameters_str(ai),ac;if(ah.container===view){var ak=new P(view,view,{name:ad.prefs.name});var af=ah.container.replace_drawable(ah,ak,false);ak.container_div.insertBefore(ah.view.content_div.children()[af]);ak.add_drawable(ah);ah.container_div.appendTo(ak.content_div);ac=ak}else{ac=ah.container}var ae=new ah.constructor(view,ac,{name:al,hda_ldda:"hda"});ae.init_for_tool_data();ae.change_mode(ah.mode);ae.set_filters_manager(ah.filters_manager.copy(ae));ae.update_icons();ac.add_drawable(ae);ae.tiles_div.text("Starting job.");this.run(aj,ae,function(am){ae.set_dataset(new X.Dataset(am));ae.tiles_div.text("Running job.");ae.init()})},run:function(ac,ae,af){ac.inputs=this.model.get_inputs_dict();var ad=new l.ServerStateDeferred({ajax_settings:{url:galaxy_config.root+"api/tools",data:JSON.stringify(ac),dataType:"json",contentType:"application/json",type:"POST"},interval:2000,success_fn:function(ag){return ag!=="pending"}});$.when(ad.go()).then(function(ag){if(ag==="no converter"){ae.container_div.addClass("error");ae.content_div.text(J)}else{if(ag.error){ae.container_div.addClass("error");ae.content_div.text(z+ag.message)}else{af(ag)}}})}});var E=function(ac,ad){L.Scaler.call(this,ad);this.filter=ac};E.prototype.gen_val=function(ac){if(this.filter.high===Number.MAX_VALUE||this.filter.low===-Number.MAX_VALUE||this.filter.low===this.filter.high){return this.default_val}return((parseFloat(ac[this.filter.index])-this.filter.low)/(this.filter.high-this.filter.low))};var j=Backbone.Model.extend({initialize:function(ad){var ac={};ab.each(ad.params,function(ae){ac[ae.key]=(ae.type==="color"&&!ae.default_value?l.get_random_color():ae.default_value)});if(ad.saved_values){ab.each(this.get("params"),function(ae){if(ae.key in ad.saved_values){ac[ae.key]=ad.saved_values[ae.key]}})}this.set("values",ac)},set_param_default_value:function(ad,ac){var ae=ab.find(this.get("params"),function(af){return af.key===ad});if(ae){ae.default_value=ac}},set_param_value:function(ac,ad){var ae=ab.find(this.get("params"),function(af){return af.key===ac});if(ae){if(typeof ad==="string"||ad instanceof String){if(ad.trim()===""){ad=ae.default_value}else{if(ae.type==="float"){ad=parseFloat(ad)}else{if(ae.type==="int"){ad=parseInt(ad,10)}}}}}if(this.get("values")[ac]!==ad){this.get("values")[ac]=ad;this.trigger("change:values");return true}else{return false}}});var a=Backbone.View.extend({render:function(){var aj=this.model;var ac=$("<div/>").keydown(function(ak){ak.stopPropagation()});var ai;function ah(ao,ak){for(var at=0;at<ao.length;at++){ai=ao[at];if(ai.hidden){continue}var am="param_"+at;var ax=aj.get("values")[ai.key];var az=$("<div class='form-row' />").appendTo(ak);az.append($("<label />").attr("for",am).text(ai.label+":"));if(ai.type==="bool"){az.append($('<input type="checkbox" />').attr("id",am).attr("name",am).attr("checked",ax))}else{if(ai.type==="text"){az.append($('<input type="text"/>').attr("id",am).val(ax).click(function(){$(this).select()}))}else{if(ai.type==="select"){var av=$("<select />").attr("id",am);for(var aq=0;aq<ai.options.length;aq++){$("<option/>").text(ai.options[aq].label).attr("value",ai.options[aq].value).appendTo(av)}av.val(ax);az.append(av)}else{if(ai.type==="color"){var ay=$("<div/>").appendTo(az),au=$("<input/>").attr({id:am,name:am}).val(ax).addClass("color-input").appendTo(ay).click(function(aB){$(".tooltip").removeClass("in");var aA=$(this).siblings(".tooltip").addClass("in");aA.css({left:$(this).position().left+$(this).width()+5,top:$(this).position().top+Galaxy.modal.scrollTop()-($(aA).height()/2)+($(this).height()/2)}).show();aA.click(function(aC){aC.stopPropagation()});$(document).bind("click.color-picker",function(){aA.hide();$(document).unbind("click.color-picker")});aB.stopPropagation()}),ar=$("<a href='javascript:void(0)'/>").addClass("icon-button arrow-circle").appendTo(ay).attr("title","Set new random color").tooltip(),aw=$("<div class='tooltip right' style='position: absolute;' />").appendTo(ay).hide(),an=$("<div class='tooltip-inner' style='text-align: inherit'></div>").appendTo(aw),al=$("<div class='tooltip-arrow'></div>").appendTo(aw),ap=$.farbtastic(an,{width:100,height:100,callback:au,color:ax});ay.append($("<div/>").css("clear","both"));(function(aA){ar.click(function(){aA.setColor(l.get_random_color())})})(ap)}else{az.append($("<input />").attr("id",am).attr("name",am).val(ax))}}}}if(ai.help){az.append($("<div class='help'/>").text(ai.help))}}}ah(aj.get("params"),ac);var ad=this,ag=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ae=function(){ad.update_from_form($(Galaxy.modal.el));Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},af=function(ak){if((ak.keyCode||ak.which)===27){ag()}else{if((ak.keyCode||ak.which)===13){ae()}}};$(window).bind("keypress.check_enter_esc",af);Galaxy.modal.show({title:"Configure",body:ac,buttons:{Cancel:ag,Ok:ae}})},update_from_form:function(ac){var ad=this.model;var ae=false;ab.each(ad.get("params"),function(ah,af){if(!ah.hidden){var ai="param_"+af;var ag=ac.find("#"+ai).val();if(ah.type==="bool"){ag=ac.find("#"+ai).is(":checked")}ae=ad.set_param_value(ah.key,ag)||ae}})}});var c=function(ac,af,ag,ad,ae){this.track=ac;this.region=af;this.low=af.get("start");this.high=af.get("end");this.w_scale=ag;this.canvas=ad;this.html_elt=$("<div class='track-tile'/>").append(ad);this.data=ae;this.stale=false};c.prototype.predisplay_actions=function(){};var M=function(ac,af,ag,ad,ae){c.call(this,ac,af,ag,ad,ae)};M.prototype.predisplay_actions=function(){};var O=function(af,am,ao,ae,ah,ai,ap,ad,al){c.call(this,af,am,ao,ae,ah);this.mode=ai;this.all_slotted=ad;this.feature_mapper=al;this.has_icons=false;if(ap){this.has_icons=true;var aj=this;ae=this.html_elt.children()[0],message_div=$("<div/>").addClass("tile-message").css({height:F,width:ae.width}).prependTo(this.html_elt);var ak=new y.GenomeRegion({chrom:af.view.chrom,start:this.low,end:this.high}),an=ah.length,ag=$("<a/>").addClass("icon more-down").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data including depth").tooltip().appendTo(message_div),ac=$("<a/>").addClass("icon more-across").attr("title","For speed, only the first "+an+" features in this region were obtained from server. Click to get more data excluding depth").tooltip().appendTo(message_div);ag.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.DEEP_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()});ac.click(function(){aj.stale=true;af.data_manager.get_more_data(ak,af.mode,1/aj.w_scale,{},af.data_manager.BROAD_DATA_REQ);$(".tooltip").hide();af.request_draw()}).dblclick(function(aq){aq.stopPropagation()})}};q(O.prototype,c.prototype);O.prototype.predisplay_actions=function(){var ad=this,ac={};if(ad.mode!=="Pack"){return}$(this.html_elt).hover(function(){this.hovered=true;$(this).mousemove()},function(){this.hovered=false;$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()}).mousemove(function(ao){if(!this.hovered){return}var aj=$(this).offset(),an=ao.pageX-aj.left,am=ao.pageY-aj.top,at=ad.feature_mapper.get_feature_data(an,am),ak=(at?at[0]:null);$(this).parents(".track-content").children(".overlay").children(".feature-popup").each(function(){if(!ak||$(this).attr("id")!==ak.toString()){$(this).remove()}});if(at){var af=ac[ak];if(!af){var ap={name:at[3],start:at[1],end:at[2],strand:at[4]},ai=ad.track.filters_manager.filters,ah;for(var al=0;al<ai.length;al++){ah=ai[al];ap[ah.name]=at[ah.index]}af=$("<div/>").attr("id",ak).addClass("feature-popup");var au=$("<table/>"),ar,aq,av;for(ar in ap){aq=ap[ar];av=$("<tr/>").appendTo(au);$("<th/>").appendTo(av).text(ar);$("<td/>").attr("align","left").appendTo(av).text(typeof(aq)==="number"?V(aq,2):aq)}af.append($("<div class='feature-popup-inner'>").append(au));ac[ak]=af}af.appendTo($(this).parents(".track-content").children(".overlay"));var ag=an+parseInt(ad.html_elt.css("left"),10)-af.width()/2,ae=am+parseInt(ad.html_elt.css("top"),10)+7;af.css("left",ag+"px").css("top",ae+"px")}else{if(!ao.isPropagationStopped()){ao.stopPropagation();$(this).siblings().each(function(){$(this).trigger(ao)})}}}).mouseleave(function(){$(this).parents(".track-content").children(".overlay").children(".feature-popup").remove()})};var g=function(ad,ac,ae){q(ae,{drag_handle_class:"draghandle"});r.call(this,ad,ac,ae);this.dataset=null;if(ae.dataset){this.dataset=(ae.dataset instanceof Backbone.Model?ae.dataset:new X.Dataset(ae.dataset))}this.dataset_check_type="converted_datasets_state";this.data_url_extra_params={};this.data_query_wait=("data_query_wait" in ae?ae.data_query_wait:K);this.data_manager=("data_manager" in ae?ae.data_manager:new y.GenomeDataManager({dataset:this.dataset,genome:new y.Genome({key:ad.dbkey,chroms_info:{chrom_info:ad.chrom_data}}),data_mode_compatible:this.data_and_mode_compatible,can_subset:this.can_subset}));this.min_height_px=16;this.max_height_px=800;this.visible_height_px=this.prefs.height;this.content_div=$("<div class='track-content'>").appendTo(this.container_div);if(this.container){this.container.content_div.append(this.container_div);if(!("resize" in ae)||ae.resize){this.add_resize_handle()}}};q(g.prototype,r.prototype,{action_icons_def:[{name:"mode_icon",title:"Set display mode",css_class:"chevron-expand",on_click_fn:function(){}},r.prototype.action_icons_def[0],{name:"overview_icon",title:"Set as overview",css_class:"application-dock-270",on_click_fn:function(ac){ac.view.set_overview(ac)}},r.prototype.action_icons_def[1],{name:"filters_icon",title:"Filters",css_class:"ui-slider-050",on_click_fn:function(ac){if(ac.filters_manager.visible()){ac.filters_manager.clear_filters()}else{ac.filters_manager.init_filters()}ac.filters_manager.toggle()}},{name:"tools_icon",title:"Tool",css_class:"hammer",on_click_fn:function(ac){ac.tool.toggle();if(ac.tool.is_visible()){ac.set_name(ac.prefs.name+ac.tool_region_and_parameters_str())}else{ac.revert_name()}$(".tooltip").remove()}},{name:"param_space_viz_icon",title:"Tool parameter space visualization",css_class:"arrow-split",on_click_fn:function(ac){var af='<strong>Tool</strong>: <%= track.tool.get("name") %><br/><strong>Dataset</strong>: <%= track.prefs.name %><br/><strong>Region(s)</strong>: <select name="regions"><option value="cur">current viewing area</option><option value="bookmarks">bookmarks</option><option value="both">current viewing area and bookmarks</option></select>',ae=ab.template(af,{track:ac});var ah=function(){Galaxy.modal.hide();$(window).unbind("keypress.check_enter_esc")},ad=function(){var aj=$('select[name="regions"] option:selected').val(),al,ai=new y.GenomeRegion({chrom:view.chrom,start:view.low,end:view.high}),ak=ab.map($(".bookmark"),function(am){return new y.GenomeRegion({from_str:$(am).children(".position").text()})});if(aj==="cur"){al=[ai]}else{if(aj==="bookmarks"){al=ak}else{al=[ai].concat(ak)}}Galaxy.modal.hide();window.location.href=galaxy_config.root+"visualization/sweepster?"+$.param({dataset_id:ac.dataset.id,hda_ldda:ac.dataset.get("hda_ldda"),regions:JSON.stringify(new Backbone.Collection(al).toJSON())})},ag=function(ai){if((ai.keyCode||ai.which)===27){ah()}else{if((ai.keyCode||ai.which)===13){ad()}}};Galaxy.modal.show({title:"Visualize tool parameter space and output from different parameter settings?",body:ae,buttons:{No:ah,Yes:ad}})}},r.prototype.action_icons_def[2]],can_draw:function(){return this.dataset&&r.prototype.can_draw.call(this)},build_container_div:function(){return $("<div/>").addClass("track").attr("id","track_"+this.id)},build_header_div:function(){var ac=$("<div class='track-header'/>");if(this.view.editor){this.drag_div=$("<div/>").addClass(this.drag_handle_class).appendTo(ac)}this.name_div=$("<div/>").addClass("track-name").appendTo(ac).text(this.prefs.name).attr("id",this.prefs.name.replace(/\s+/g,"-").replace(/[^a-zA-Z0-9\-]/g,"").toLowerCase());return ac},set_dataset:function(ac){this.dataset=ac;this.data_manager.set("dataset",ac)},on_resize:function(){this.request_draw({clear_tile_cache:true})},add_resize_handle:function(){var ac=this;var af=false;var ae=false;var ad=$("<div class='track-resize'>");$(ac.container_div).hover(function(){if(ac.prefs.content_visible){af=true;ad.show()}},function(){af=false;if(!ae){ad.hide()}});ad.hide().bind("dragstart",function(ag,ah){ae=true;ah.original_height=$(ac.content_div).height()}).bind("drag",function(ah,ai){var ag=Math.min(Math.max(ai.original_height+ai.deltaY,ac.min_height_px),ac.max_height_px);$(ac.tiles_div).css("height",ag);ac.visible_height_px=(ac.max_height_px===ag?0:ag);ac.on_resize()}).bind("dragend",function(ag,ah){ac.tile_cache.clear();ae=false;if(!af){ad.hide()}ac.config.get("values").height=ac.visible_height_px;ac.changed()}).appendTo(ac.container_div)},set_display_modes:function(af,ai){this.display_modes=af;this.mode=(ai?ai:(this.config&&this.config.get("values").mode?this.config.get("values").mode:this.display_modes[0]));this.action_icons.mode_icon.attr("title","Set display mode (now: "+this.mode+")");var ad=this,ag={};for(var ae=0,ac=ad.display_modes.length;ae<ac;ae++){var ah=ad.display_modes[ae];ag[ah]=function(aj){return function(){ad.change_mode(aj);ad.icons_div.show();ad.container_div.mouseleave(function(){ad.icons_div.hide()})}}(ah)}make_popupmenu(this.action_icons.mode_icon,ag)},build_action_icons:function(){r.prototype.build_action_icons.call(this,this.action_icons_def);if(this.display_modes!==undefined){this.set_display_modes(this.display_modes)}},hide_contents:function(){this.tiles_div.hide();this.container_div.find(".yaxislabel, .track-resize").hide()},show_contents:function(){this.tiles_div.show();this.container_div.find(".yaxislabel, .track-resize").show();this.request_draw()},get_type:function(){if(this instanceof W){return"LabelTrack"}else{if(this instanceof D){return"ReferenceTrack"}else{if(this instanceof h){return"LineTrack"}else{if(this instanceof T){return"ReadTrack"}else{if(this instanceof Z){return"VariantTrack"}else{if(this instanceof f){return"CompositeTrack"}else{if(this instanceof d){return"FeatureTrack"}}}}}}}return""},show_message:function(ac){this.tiles_div.remove();return $("<span/>").addClass("message").html(ac).appendTo(this.content_div)},init:function(ae){var ad=this;ad.enabled=false;ad.tile_cache.clear();ad.data_manager.clear();ad.content_div.children().remove();ad.container_div.removeClass("nodata error pending");ad.tiles_div=$("<div/>").addClass("tiles").appendTo(ad.content_div);if(!ad.dataset.id){return}var ac=$.Deferred(),af={hda_ldda:ad.dataset.get("hda_ldda"),data_type:this.dataset_check_type,chrom:ad.view.chrom,retry:ae};$.getJSON(this.dataset.url(),af,function(ag){if(!ag||ag==="error"||ag.kind==="error"){ad.container_div.addClass("error");var ah=ad.show_message(o);if(ag.message){ah.append($("<a href='javascript:void(0);'></a>").text("View error").click(function(){Galaxy.modal.show({title:"Trackster Error",body:"<pre>"+ag.message+"</pre>",buttons:{Close:function(){Galaxy.modal.hide()}}})}));ah.append($("<span/>").text(" "));ah.append($("<a href='javascript:void(0);'></a>").text("Try again").click(function(){ad.init(true)}))}}else{if(ag==="no converter"){ad.container_div.addClass("error");ad.show_message(J)}else{if(ag==="no data"||(ag.data!==undefined&&(ag.data===null||ag.data.length===0))){ad.container_div.addClass("nodata");ad.show_message(G)}else{if(ag==="pending"){ad.container_div.addClass("pending");ad.show_message(w);setTimeout(function(){ad.init()},ad.data_query_wait)}else{if(ag==="data"||ag.status==="data"){if(ag.valid_chroms){ad.valid_chroms=ag.valid_chroms;ad.update_icons()}ad.tiles_div.text(U);if(ad.view.chrom){ad.tiles_div.text("");ad.tiles_div.css("height",ad.visible_height_px+"px");ad.enabled=true;$.when.apply($,ad.predraw_init()).done(function(){ac.resolve();ad.container_div.removeClass("nodata error pending");ad.request_draw()})}else{ac.resolve()}}}}}}});this.update_icons();return ac},predraw_init:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(af&&af.min&&af.max){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.config.set_param_default_value("min_value",ae);ac.config.set_param_default_value("max_value",ag);ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},get_drawables:function(){return this}});var N=function(ae,ad,ag){g.call(this,ae,ad,ag);var ac=this;m(ac.container_div,ac.drag_handle_class,".group",ac);this.filters_manager=new i.FiltersManager(this,("filters" in ag?ag.filters:null));this.data_manager.set("filters_manager",this.filters_manager);this.filters_available=false;this.tool=(ag.tool?new s(ab.extend(ag.tool,{track:this,tool_state:ag.tool_state})):null);this.tile_cache=new y.Cache(Q);this.left_offset=0;if(this.header_div){this.set_filters_manager(this.filters_manager);if(this.tool){var af=new aa({model:this.tool});af.render();this.dynamic_tool_div=af.$el;this.header_div.after(this.dynamic_tool_div)}}this.tiles_div=$("<div/>").addClass("tiles").appendTo(this.content_div);if(!this.prefs.content_visible){this.tiles_div.hide()}this.overlay_div=$("<div/>").addClass("overlay").appendTo(this.content_div);if(ag.mode){this.change_mode(ag.mode)}};q(N.prototype,r.prototype,g.prototype,{action_icons_def:g.prototype.action_icons_def.concat([{name:"show_more_rows_icon",title:"To minimize track height, not all feature rows are displayed. Click to display more rows.",css_class:"exclamation",on_click_fn:function(ac){$(".tooltip").remove();ac.slotters[ac.view.resolution_px_b].max_rows*=2;ac.request_draw({clear_tile_cache:true})},hide:true}]),copy:function(ac){var ad=this.to_dict();q(ad,{data_manager:this.data_manager});var ae=new this.constructor(this.view,ac,ad);ae.change_mode(this.mode);ae.enabled=this.enabled;return ae},set_filters_manager:function(ac){this.filters_manager=ac;this.header_div.after(this.filters_manager.parent_div)},to_dict:function(){return{track_type:this.get_type(),dataset:{id:this.dataset.id,hda_ldda:this.dataset.get("hda_ldda")},prefs:this.prefs,mode:this.mode,filters:this.filters_manager.to_dict(),tool_state:(this.tool?this.tool.state_dict():{})}},set_min_max:function(){var ac=this;return $.getJSON(ac.dataset.url(),{data_type:"data",stats:true,chrom:ac.view.chrom,low:0,high:ac.view.max_high,hda_ldda:ac.dataset.get("hda_ldda")},function(ad){var af=ad.data;if(isNaN(parseFloat(ac.prefs.min_value))||isNaN(parseFloat(ac.prefs.max_value))){var ae=af.min,ag=af.max;ae=Math.floor(Math.min(0,Math.max(ae,af.mean-2*af.sd)));ag=Math.ceil(Math.max(0,Math.min(ag,af.mean+2*af.sd)));ac.prefs.min_value=ae;ac.prefs.max_value=ag}})},change_mode:function(ad){var ac=this;ac.mode=ad;ac.config.get("values").mode=ad;if(ad==="Auto"){this.data_manager.clear()}ac.request_draw({clear_tile_cache:true});this.action_icons.mode_icon.attr("title","Set display mode (now: "+ac.mode+")");return ac},update_icons:function(){var ac=this;if(ac.filters_available){ac.action_icons.filters_icon.show()}else{ac.action_icons.filters_icon.hide()}if(ac.tool){ac.action_icons.tools_icon.show();ac.action_icons.param_space_viz_icon.show()}else{ac.action_icons.tools_icon.hide();ac.action_icons.param_space_viz_icon.hide()}},_gen_tile_cache_key:function(ad,ac){return ad+"_"+ac},request_draw:function(ac){if(ac&&ac.clear_tile_cache){this.tile_cache.clear()}this.view.request_redraw(ac,this)},before_draw:function(){this.max_height_px=0},_draw:function(aq){if(!this.can_draw()){return}var an=aq&&aq.clear_after,al=this.view.low,ag=this.view.high,aj=ag-al,ad=this.view.container.width(),ap=this.view.resolution_px_b,af=1/ap;if(this.is_overview){al=this.view.max_low;ag=this.view.max_high;ap=ad/(view.max_high-view.max_low);af=1/ap}this.before_draw();this.tiles_div.children().addClass("remove");var ac=Math.floor(al/(af*S)),ak,am,ah,ai=[],ao=[];while((ac*S*af)<ag){ak=Math.floor(ac*S*af);am=new y.GenomeRegion({chrom:this.view.chrom,start:ak,end:Math.min(ak+Math.ceil(S*af),this.view.max_high)});ah=this.draw_helper(am,ap,aq);ai.push(ah);$.when(ah).then(function(ar){ao.push(ar)});ac+=1}if(!an){this.tiles_div.children(".remove").removeClass("remove").remove()}var ae=this;$.when.apply($,ai).then(function(){ae.tiles_div.children(".remove").remove();ao=ab.filter(ao,function(ar){return ar!==null});if(ao.length!==0){ae.postdraw_actions(ao,ad,ap,an)}})},_add_yaxis_label:function(af,ah){var ad=this,ag=(af==="max"?"top":"bottom"),ai=(af==="max"?"max":"min"),ac=(af==="max"?"max_value":"min_value"),ae=this.container_div.find(".yaxislabel."+ag);ah=ah||function(){ad.request_draw({clear_tile_cache:true})};if(ae.length!==0){ae.text(ad.prefs[ac])}else{ae=$("<div/>").text(ad.prefs[ac]).make_text_editable({num_cols:12,on_finish:function(aj){$(".tooltip").remove();ad.config.set_param_value(ac,aj);ah()},help_text:"Set "+ai+" value"}).addClass("yaxislabel "+ag).css("color",this.prefs.label_color);this.container_div.prepend(ae)}},postdraw_actions:function(af,ag,ai,ac){var ae=ab.filter(af,function(aj){return(aj instanceof M)});if(ae.length>0){this.max_height_px=0;var ad=this;ab.each(af,function(aj){if(!(aj instanceof M)){aj.html_elt.remove();ad.draw_helper(aj.region,ai,{force:true,mode:"Coverage"})}});ad._add_yaxis_label("max")}else{this.container_div.find(".yaxislabel").remove();var ah=ab.find(af,function(aj){return aj.has_icons});if(ah){ab.each(af,function(aj){if(!aj.has_icons){aj.html_elt.css("padding-top",F)}})}}},get_mode:function(ac){return this.mode},update_auto_mode:function(ac){},_get_drawables:function(){return[this]},draw_helper:function(al,an,ao){if(!ao){ao={}}var ad=ao.force,ai=ao.mode||this.mode,af=1/an,ae=this,ag=this._get_drawables(),am=this._gen_tile_cache_key(an,al),ah=function(ap){return(ap&&"track" in ap)};var aj=(ad?undefined:ae.tile_cache.get_elt(am));if(aj){if(ah(aj)){ae.show_tile(aj,an)}return aj}if(ao.data_fetch===false){return null}var ak=function(){var ap=(ab.find(C,function(ar){return ar===ai})?"Coverage":ai);var aq=ab.map(ag,function(ar){return ar.data_manager.get_data(al,ap,af,ae.data_url_extra_params)});if(view.reference_track){aq.push(view.reference_track.data_manager.get_data(al,ai,af,view.reference_track.data_url_extra_params))}return aq};var ac=$.Deferred();ae.tile_cache.set_elt(am,ac);$.when.apply($,ak()).then(function(){var ap=ak(),av=ap,aB;if(view.reference_track){aB=view.reference_track.data_manager.subset_entry(ap.pop(),al)}var aw=[],at=[];ab.each(ag,function(aG,aD){var aF=aG.mode,aE=av[aD];if(aF==="Auto"){aF=aG.get_mode(aE);aG.update_auto_mode(aF)}aw.push(aF);at.push(aG.get_canvas_height(aE,aF,an,aq))});var au=ae.view.canvas_manager.new_canvas(),ax=al.get("start"),aC=al.get("end"),ar=0,aq=Math.ceil((aC-ax)*an)+ae.left_offset,az=ab.max(at),ay;au.width=aq;au.height=(ao.height||az);var aA=au.getContext("2d");aA.translate(ae.left_offset,0);if(ag.length>1){aA.globalAlpha=0.5;aA.globalCompositeOperation="source-over"}ab.each(ag,function(aE,aD){ay=aE.draw_tile(av[aD],aA,aw[aD],al,an,aB)});if(ay!==undefined){ae.tile_cache.set_elt(am,ay);ae.show_tile(ay,an)}ac.resolve(ay)});return ac},get_canvas_height:function(ac,ae,af,ad){return this.visible_height_px},_draw_line_track_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.LinePainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new M(this,ag,ai,af,ac.data)},draw_tile:function(ac,ad,ag,af,ah,ae){},show_tile:function(ae,ah){var ad=this,ac=ae.html_elt;ae.predisplay_actions();var ag=(ae.low-(this.is_overview?this.view.max_low:this.view.low))*ah;if(this.left_offset){ag-=this.left_offset}ac.css("left",ag);if(ac.hasClass("remove")){ac.removeClass("remove")}else{this.tiles_div.append(ac)}ac.css("height","auto");this.max_height_px=Math.max(this.max_height_px,ac.height()-2);ac.parent().children().css("height",this.max_height_px+"px");var af=this.max_height_px;if(this.visible_height_px!==0){af=Math.min(this.max_height_px,this.visible_height_px)}this.tiles_div.css("height",af+"px")},tool_region_and_parameters_str:function(af){var ac=this,ae=(af!==undefined?af.toString():"all"),ad=ab.values(ac.tool.get_inputs_dict()).join(", ");return" - region=["+ae+"], parameters=["+ad+"]"},data_and_mode_compatible:function(ac,ad){if(ad==="Auto"){return true}else{if(ad==="Coverage"){return ac.dataset_type==="bigwig"}else{if(ac.dataset_type==="bigwig"||ac.extra_info==="no_detail"){return false}else{return true}}}},can_subset:function(ac){if(ac.message||ac.extra_info==="no_detail"){return false}else{if(ac.dataset_type==="bigwig"){return(ac.data[1][0]-ac.data[0][0]===1)}}return true},init_for_tool_data:function(){this.data_manager.set("data_type","raw_data");this.data_query_wait=1000;this.dataset_check_type="state"}});var W=function(ad,ac){var ae={resize:false};g.call(this,ad,ac,ae);this.container_div.addClass("label-track")};q(W.prototype,g.prototype,{build_header_div:function(){},init:function(){this.enabled=true},predraw_init:function(){},_draw:function(ag){var ae=this.view,af=ae.high-ae.low,aj=Math.floor(Math.pow(10,Math.floor(Math.log(af)/Math.log(10)))),ac=Math.floor(ae.low/aj)*aj,ah=this.view.container.width(),ad=$("<div/>").addClass("label-container");while(ac<ae.high){var ai=(ac-ae.low)/af*ah;ad.append($("<div/>").addClass("label").text(commatize(ac)).css({left:ai}));ac+=aj}this.content_div.children(":first").remove();this.content_div.append(ad)}});var f=function(ad,ac,ag){N.call(this,ad,ac,ag);this.drawables=[];if("drawables" in ag){var af;for(var ae=0;ae<ag.drawables.length;ae++){af=ag.drawables[ae];this.drawables[ae]=p(af,ad,null);if(af.left_offset>this.left_offset){this.left_offset=af.left_offset}}this.enabled=true}ab.each(this.drawables,function(ah){if(ah instanceof d||ah instanceof T){ah.change_mode("Coverage")}});this.update_icons();this.obj_type="CompositeTrack"};q(f.prototype,N.prototype,{display_modes:C,action_icons_def:[{name:"composite_icon",title:"Show individual tracks",css_class:"layers-stack",on_click_fn:function(ac){$(".tooltip").remove();ac.show_group()}}].concat(N.prototype.action_icons_def),to_dict:A.prototype.to_dict,add_drawable:A.prototype.add_drawable,unpack_drawables:A.prototype.unpack_drawables,change_mode:function(ac){N.prototype.change_mode.call(this,ac);for(var ad=0;ad<this.drawables.length;ad++){this.drawables[ad].change_mode(ac)}},init:function(){var ae=[];for(var ad=0;ad<this.drawables.length;ad++){ae.push(this.drawables[ad].init())}var ac=this;$.when.apply($,ae).then(function(){ac.enabled=true;ac.request_draw()})},update_icons:function(){this.action_icons.filters_icon.hide();this.action_icons.tools_icon.hide();this.action_icons.param_space_viz_icon.hide()},can_draw:r.prototype.can_draw,_get_drawables:function(){return this.drawables},show_group:function(){var af=new P(this.view,this.container,{name:this.prefs.name}),ac;for(var ae=0;ae<this.drawables.length;ae++){ac=this.drawables[ae];ac.update_icons();af.add_drawable(ac);ac.container=af;af.content_div.append(ac.container_div)}var ad=this.container.replace_drawable(this,af,true);af.request_draw({clear_tile_cache:true})},before_draw:function(){N.prototype.before_draw.call(this);var ad=ab.min(ab.map(this.drawables,function(ae){return ae.prefs.min_value})),ac=ab.max(ab.map(this.drawables,function(ae){return ae.prefs.max_value}));this.prefs.min_value=ad;this.prefs.max_value=ac;ab.each(this.drawables,function(ae){ae.prefs.min_value=ad;ae.prefs.max_value=ac})},update_all_min_max:function(){var ac=this;ab.each(this.drawables,function(ad){ad.prefs.min_value=ac.prefs.min_value;ad.prefs.max_value=ac.prefs.max_value});this.request_draw({clear_tile_cache:true})},postdraw_actions:function(ai,ac,al,ah){N.prototype.postdraw_actions.call(this,ai,ac,al,ah);var ag=-1,ae;for(ae=0;ae<ai.length;ae++){var aj=ai[ae].html_elt.find("canvas").height();if(aj>ag){ag=aj}}for(ae=0;ae<ai.length;ae++){var af=ai[ae];if(af.html_elt.find("canvas").height()!==ag){this.draw_helper(af.region,al,{force:true,height:ag});af.html_elt.remove()}}var ad=this,ak=function(){ad.update_all_min_max()};this._add_yaxis_label("min",ak);this._add_yaxis_label("max",ak)}});var D=function(ac){N.call(this,ac,{content_div:ac.top_labeltrack},{resize:false});this.left_offset=ac.canvas_manager.char_width_px;this.container_div.addClass("reference-track");this.data_url=galaxy_config.root+"api/genomes/"+this.view.dbkey;this.data_url_extra_params={reference:true};this.data_manager=new y.GenomeReferenceDataManager({data_url:this.data_url,can_subset:this.can_subset});this.hide_contents()};q(D.prototype,r.prototype,N.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"height",type:"int",default_value:13,hidden:true}]),build_header_div:function(){},init:function(){this.data_manager.clear();this.enabled=true},predraw_init:function(){},can_draw:r.prototype.can_draw,draw_helper:function(ad,ae,ac){if(ae>this.view.canvas_manager.char_width_px){this.tiles_div.show();return N.prototype.draw_helper.call(this,ad,ae,ac)}else{this.tiles_div.hide();return null}},can_subset:function(ac){return true},draw_tile:function(ae,ak,af,ah,al){var ad=this.data_manager.subset_entry(ae,ah),aj=ad.data;var ac=ak.canvas;ak.font=ak.canvas.manager.default_font;ak.textAlign="center";for(var ag=0,ai=aj.length;ag<ai;ag++){ak.fillStyle=this.view.get_base_color(aj[ag]);ak.fillText(aj[ag],Math.floor(ag*al),10)}return new c(this,ah,al,ac,ad)}});var h=function(ad,ac,ae){this.mode="Histogram";N.call(this,ad,ac,ae)};q(h.prototype,r.prototype,N.prototype,{display_modes:C,config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Color",type:"color"},{key:"min_value",label:"Min Value",type:"float",default_value:undefined},{key:"max_value",label:"Max Value",type:"float",default_value:undefined},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:30,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},before_draw:function(){},draw_tile:function(ac,ad,af,ae,ag){return this._draw_line_track_tile(ac,ad,af,ae,ag)},can_subset:function(ac){return(ac.data[1][0]-ac.data[0][0]===1)},postdraw_actions:function(ad,ae,af,ac){this._add_yaxis_label("max");this._add_yaxis_label("min")}});var t=function(ad,ac,ae){this.mode="Heatmap";N.call(this,ad,ac,ae)};q(t.prototype,r.prototype,N.prototype,{display_modes:["Heatmap"],config_params:ab.union(r.prototype.config_params,[{key:"pos_color",label:"Positive Color",type:"color",default_value:"#FF8C00"},{key:"neg_color",label:"Negative Color",type:"color",default_value:"#4169E1"},{key:"min_value",label:"Min Value",type:"float",default_value:-1},{key:"max_value",label:"Max Value",type:"float",default_value:1},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:500,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,ae,ah,ag,ai){var af=ae.canvas,ad=new L.DiagonalHeatmapPainter(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah);ad.draw(ae,af.width,af.height,ai);return new c(this,ag,ai,af,ac.data)}});var d=function(ad,ac,ae){N.call(this,ad,ac,ae);this.container_div.addClass("feature-track");this.summary_draw_height=30;this.slotters={};this.start_end_dct={};this.left_offset=200;this.set_painter_from_config()};q(d.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true,help:"Show the number of items in each bin when drawing summary histogram"},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"connector_style",label:"Connector style",type:"select",default_value:"fishbones",options:[{label:"Line with arrows",value:"fishbone"},{label:"Arcs",value:"arcs"}]},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.set_painter_from_config();this.request_draw({clear_tile_cache:true})},set_painter_from_config:function(){if(this.config.get("values").connector_style==="arcs"){this.painter=L.ArcLinkedFeaturePainter}else{this.painter=L.LinkedFeaturePainter}},postdraw_actions:function(am,ae,an,al){N.prototype.postdraw_actions.call(this,am,ae,an,al);var ag=this,ah;if(ag.filters_manager){var af=ag.filters_manager.filters,aj;for(aj=0;aj<af.length;aj++){af[aj].update_ui_elt()}var ai=false,ak,ad;for(ah=0;ah<am.length;ah++){if(am[ah].data.length){ak=am[ah].data[0];for(aj=0;aj<af.length;aj++){ad=af[aj];if(ad.applies_to(ak)&&ad.min!==ad.max){ai=true;break}}}}if(ag.filters_available!==ai){ag.filters_available=ai;if(!ag.filters_available){ag.filters_manager.hide()}ag.update_icons()}}if(am[0] instanceof O){var ac=true;for(ah=0;ah<am.length;ah++){if(!am[ah].all_slotted){ac=false;break}}if(!ac){this.action_icons.show_more_rows_icon.show()}else{this.action_icons.show_more_rows_icon.hide()}}else{this.action_icons.show_more_rows_icon.hide()}},update_auto_mode:function(ac){if(this.mode==="Auto"){if(ac==="no_detail"){ac="feature spans"}this.action_icons.mode_icon.attr("title","Set display mode (now: Auto/"+ac+")")}},incremental_slots:function(ag,ac,af){var ad=this.view.canvas_manager.dummy_context,ae=this.slotters[ag];if(!ae||(ae.mode!==af)){ae=new (u.FeatureSlotter)(ag,af,B,function(ah){return ad.measureText(ah)});this.slotters[ag]=ae}return ae.slot_features(ac)},get_mode:function(ac){if(ac.extra_info==="no_detail"||this.is_overview){mode="no_detail"}else{if(this.view.high-this.view.low>I){mode="Squish"}else{mode="Pack"}}return mode},get_canvas_height:function(ac,ag,ah,ad){if(ag==="Coverage"||ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var af=this.incremental_slots(ah,ac.data,ag);var ae=new (this.painter)(null,null,null,this.prefs,ag);return Math.max(this.min_height_px,ae.get_required_height(af,ad))}},draw_tile:function(am,aq,ao,af,aj,ae){var ap=this,ad=aq.canvas,ax=af.get("start"),ac=af.get("end"),ag=this.left_offset;if(am.dataset_type==="bigwig"){return this._draw_line_track_tile(am,aq,ao,af,aj)}var ai=[],an=this.slotters[aj].slots;all_slotted=true;if(am.data){var ak=this.filters_manager.filters;for(var ar=0,au=am.data.length;ar<au;ar++){var ah=am.data[ar];var at=false;var al;for(var aw=0,aB=ak.length;aw<aB;aw++){al=ak[aw];al.update_attrs(ah);if(!al.keep(ah)){at=true;break}}if(!at){ai.push(ah);if(!(ah[0] in an)){all_slotted=false}}}}var aA=(this.filters_manager.alpha_filter?new E(this.filters_manager.alpha_filter):null),ay=(this.filters_manager.height_filter?new E(this.filters_manager.height_filter):null),az=new (this.painter)(ai,ax,ac,this.prefs,ao,aA,ay,ae,function(aC){return ap.view.get_base_color(aC)});var av=null;aq.fillStyle=this.prefs.block_color;aq.font=aq.canvas.manager.default_font;aq.textAlign="right";if(am.data){av=az.draw(aq,ad.width,ad.height,aj,an);av.translation=-ag}return new O(ap,af,aj,ad,am.data,ao,am.message,all_slotted,av)}});var Z=function(ad,ac,ae){N.call(this,ad,ac,ae);this.painter=L.VariantPainter;this.summary_draw_height=30;this.left_offset=30};q(Z.prototype,r.prototype,N.prototype,{display_modes:["Auto","Coverage","Dense","Squish","Pack"],config_params:ab.union(r.prototype.config_params,[{key:"color",label:"Histogram color",type:"color"},{key:"show_sample_data",label:"Show sample data",type:"bool",default_value:true},{key:"show_labels",label:"Show summary and sample labels",type:"bool",default_value:true},{key:"summary_height",label:"Locus summary height",type:"float",default_value:20},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})},draw_tile:function(ac,af,ah,ag,ai){if(ac.dataset_type==="bigwig"){return this._draw_line_track_tile(ac,af,"Histogram",ag,ai)}else{var ae=this.view,ad=new (this.painter)(ac.data,ag.get("start"),ag.get("end"),this.prefs,ah,function(aj){return ae.get_base_color(aj)});ad.draw(af,af.canvas.width,af.canvas.height,ai);return new c(this,ag,ai,af.canvas,ac.data)}},get_canvas_height:function(ac,ag,ah,ae){if(ac.dataset_type==="bigwig"){return this.summary_draw_height}else{var ad=(this.dataset.get_metadata("sample_names")?this.dataset.get_metadata("sample_names").length:0);if(ad===0&&ac.data.length!==0){ad=ac.data[0][7].match(/,/g);if(ad===null){ad=1}else{ad=ad.length+1}}var af=new (this.painter)(null,null,null,this.prefs,ag);return af.get_required_height(ad)}},predraw_init:function(){var ac=[g.prototype.predraw_init.call(this)];if(!this.dataset.get_metadata("sample_names")){ac.push(this.dataset.fetch())}return ac},postdraw_actions:function(ag,ah,aj,ad){N.prototype.postdraw_actions.call(this,ag,ah,aj,ad);var af=ab.filter(ag,function(ak){return(ak instanceof M)});var ae=this.dataset.get_metadata("sample_names");if(af.length===0&&this.prefs.show_labels&&ae&&ae.length>1){var ac;if(this.container_div.find(".yaxislabel.variant").length===0){ac=this.prefs.summary_height/2;this.tiles_div.prepend($("<div/>").text("Summary").addClass("yaxislabel variant top").css({"font-size":ac+"px",top:(this.prefs.summary_height-ac)/2+"px"}));if(this.prefs.show_sample_data){var ai=ae.join("<br/>");this.tiles_div.prepend($("<div/>").html(ai).addClass("yaxislabel variant top sample").css({top:this.prefs.summary_height,}))}}ac=(this.mode==="Squish"?5:10)+"px";$(this.tiles_div).find(".sample").css({"font-size":ac,"line-height":ac});$(this.tiles_div).find(".yaxislabel").css("color",this.prefs.label_color)}else{this.container_div.find(".yaxislabel.variant").remove()}}});var T=function(ad,ac,ae){d.call(this,ad,ac,ae);this.painter=(ad.reference_track?L.RefBasedReadPainter:L.ReadPainter);this.update_icons()};q(T.prototype,r.prototype,N.prototype,d.prototype,{config_params:ab.union(r.prototype.config_params,[{key:"block_color",label:"Block and sense strand color",type:"color"},{key:"reverse_strand_color",label:"Antisense strand color",type:"color"},{key:"label_color",label:"Label color",type:"color",default_value:"black"},{key:"show_insertions",label:"Show insertions",type:"bool",default_value:false},{key:"show_differences",label:"Show differences only",type:"bool",default_value:true},{key:"show_counts",label:"Show summary counts",type:"bool",default_value:true},{key:"mode",type:"string",default_value:this.mode,hidden:true},{key:"min_value",label:"Histogram minimum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"max_value",label:"Histogram maximum",type:"float",default_value:null,help:"clear value to set automatically"},{key:"height",type:"int",default_value:0,hidden:true}]),config_onchange:function(){this.set_name(this.prefs.name);this.request_draw({clear_tile_cache:true})}});var e={CompositeTrack:f,DrawableGroup:P,DiagonalHeatmapTrack:t,FeatureTrack:d,LineTrack:h,ReadTrack:T,VariantTrack:Z,VcfTrack:Z};var p=function(ae,ad,ac){if("copy" in ae){return ae.copy(ac)}else{var af=ae.obj_type;if(!af){af=ae.track_type}return new e[af](ad,ac,ae)}};return{TracksterView:Y,DrawableGroup:P,LineTrack:h,FeatureTrack:d,DiagonalHeatmapTrack:t,ReadTrack:T,VariantTrack:Z,CompositeTrack:f,object_from_template:p}}); \ No newline at end of file diff -r 43dfc8ccc72ea49314c25dce9248d66d279dfe01 -r db5c4a4c9699f304ee1e18854a7f402b790353e6 static/scripts/packed/viz/trackster_ui.js --- a/static/scripts/packed/viz/trackster_ui.js +++ b/static/scripts/packed/viz/trackster_ui.js @@ -1,1 +1,1 @@ -define(["base","libs/underscore","viz/trackster/slotting","viz/trackster/painters","viz/trackster/tracks","viz/visualization"],function(a,f,e,c,d,h){var j=d.object_from_template;var b=function(l,k){if(!k){k={}}var m=new IconButtonCollection(f.map(l,function(n){return new IconButton(f.extend(n,k))}));return new IconButtonMenuView({collection:m})};var g=a.Base.extend({initialize:function(k){this.baseURL=k},createButtonMenu:function(){var k=this,l=b([{icon_class:"plus-button",title:"Add tracks",on_click:function(){h.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":view.dbkey},function(m){f.each(m,function(n){view.add_drawable(j(n,view,view))})})}},{icon_class:"block--plus",title:"Add group",on_click:function(){view.add_drawable(new d.DrawableGroup(view,view,{name:"New Group"}))}},{icon_class:"bookmarks",title:"Bookmarks",on_click:function(){force_right_panel(($("div#right").css("right")=="0px"?"hide":"show"))}},{icon_class:"globe",title:"Circster",on_click:function(){window.location=k.baseURL+"visualization/circster?id="+view.vis_id}},{icon_class:"disk--arrow",title:"Save",on_click:function(){Galaxy.modal.show({title:"Saving...",body:"progress"});var m=[];$(".bookmark").each(function(){m.push({position:$(this).children(".position").text(),annotation:$(this).children(".annotation").text()})});var n=(view.overview_drawable?view.overview_drawable.prefs.name:null),o={view:view.to_dict(),viewport:{chrom:view.chrom,start:view.low,end:view.high,overview:n},bookmarks:m};$.ajax({url:galaxy_config.root+"visualization/save",type:"POST",dataType:"json",data:{id:view.vis_id,title:view.prefs.name,dbkey:view.dbkey,type:"trackster",vis_json:JSON.stringify(o)}}).success(function(p){Galaxy.modal.hide();view.vis_id=p.vis_id;view.has_changes=false;window.history.pushState({},"",p.url+window.location.hash)}).error(function(){Galaxy.modal.show({title:"Could Not Save",body:"Could not save visualization. Please try again later.",buttons:{Cancel:function(){Galaxy.modal.hide()}}})})}},{icon_class:"cross-circle",title:"Close",on_click:function(){window.location=galaxy_config.root+"visualization"}}],{tooltip_config:{placement:"bottom"}});this.buttonMenu=l;return l},add_bookmarks:function(){var k=this,l=this.baseURL;Galaxy.modal.show({title:"Select dataset for new bookmarks",body:"progress"});$.ajax({url:this.baseURL+"/visualization/list_histories",data:{"f-dbkey":view.dbkey},error:function(){alert("Grid failed")},success:function(m){Galaxy.modal.show({title:"Select dataset for new bookmarks",body:m,buttons:{Cancel:function(){Galaxy.modal.hide()},Insert:function(){$("input[name=id]:checked,input[name=ldda_ids]:checked").first().each(function(){var n,o=$(this).val();if($(this).attr("name")==="id"){n={hda_id:o}}else{n={ldda_id:o}}$.ajax({url:this.baseURL+"/visualization/bookmarks_from_dataset",data:n,dataType:"json"}).then(function(p){for(i=0;i<p.data.length;i++){var q=p.data[i];k.add_bookmark(q[0],q[1])}})});Galaxy.modal.hide()}}})}})},add_bookmark:function(o,m,k){var q=$("#right .unified-panel-body"),s=$("<div/>").addClass("bookmark").appendTo(q);var t=$("<div/>").addClass("position").appendTo(s),p=$("<a href=''/>").text(o).appendTo(t).click(function(){view.go_to(o);return false}),n=$("<div/>").text(m).appendTo(s);if(k){var r=$("<div/>").addClass("delete-icon-container").prependTo(s).click(function(){s.slideUp("fast");s.remove();view.has_changes=true;return false}),l=$("<a href=''/>").addClass("icon-button delete").appendTo(r);n.make_text_editable({num_rows:3,use_textarea:true,help_text:"Edit bookmark note"}).addClass("annotation")}view.has_changes=true;return s},create_visualization:function(p,k,o,q,n){var m=this,l=new d.TracksterView(p);l.editor=true;$.when(l.load_chroms_deferred).then(function(B){if(k){var z=k.chrom,r=k.start,w=k.end,t=k.overview;if(z&&(r!==undefined)&&w){l.change_chrom(z,r,w)}else{l.change_chrom(B[0].chrom)}}else{l.change_chrom(B[0].chrom)}if(o){var u,s,v;for(var x=0;x<o.length;x++){l.add_drawable(j(o[x],l,l))}}l.update_intro_div();var A;for(var x=0;x<l.drawables.length;x++){if(l.drawables[x].prefs.name===t){l.set_overview(l.drawables[x]);break}}if(q){var y;for(var x=0;x<q.length;x++){y=q[x];m.add_bookmark(y.position,y.annotation,n)}}l.has_changes=false});return l},init_keyboard_nav:function(k){$(document).keydown(function(l){if($(l.srcElement).is(":input")){return}switch(l.which){case 37:k.move_fraction(0.25);break;case 38:var m=Math.round(k.viewport_container.height()/15);k.viewport_container.scrollTop(k.viewport_container.scrollTop()-20);break;case 39:k.move_fraction(-0.25);break;case 40:var m=Math.round(k.viewport_container.height()/15);k.viewport_container.scrollTop(k.viewport_container.scrollTop()+20);break}})}});return{object_from_template:j,TracksterUI:g}}); \ No newline at end of file +define(["base","libs/underscore","viz/trackster/slotting","viz/trackster/painters","viz/trackster/tracks","viz/visualization"],function(a,f,e,c,d,h){var j=d.object_from_template;var b=function(l,k){if(!k){k={}}var m=new IconButtonCollection(f.map(l,function(n){return new IconButton(f.extend(n,k))}));return new IconButtonMenuView({collection:m})};var g=a.Base.extend({initialize:function(k){this.baseURL=k},createButtonMenu:function(){var k=this,l=b([{icon_class:"plus-button",title:"Add tracks",on_click:function(){h.select_datasets(galaxy_config.root+"visualization/list_current_history_datasets",galaxy_config.root+"api/datasets",{"f-dbkey":view.dbkey},function(m){f.each(m,function(n){view.add_drawable(j(n,view,view))})})}},{icon_class:"block--plus",title:"Add group",on_click:function(){view.add_drawable(new d.DrawableGroup(view,view,{name:"New Group"}))}},{icon_class:"bookmarks",title:"Bookmarks",on_click:function(){force_right_panel(($("div#right").css("right")=="0px"?"hide":"show"))}},{icon_class:"globe",title:"Circster",on_click:function(){window.location=k.baseURL+"visualization/circster?id="+view.vis_id}},{icon_class:"disk--arrow",title:"Save",on_click:function(){Galaxy.modal.show({title:"Saving...",body:"progress"});var m=[];$(".bookmark").each(function(){m.push({position:$(this).children(".position").text(),annotation:$(this).children(".annotation").text()})});var n=(view.overview_drawable?view.overview_drawable.prefs.name:null),o={view:view.to_dict(),viewport:{chrom:view.chrom,start:view.low,end:view.high,overview:n},bookmarks:m};$.ajax({url:galaxy_config.root+"visualization/save",type:"POST",dataType:"json",data:{id:view.vis_id,title:view.prefs.name,dbkey:view.dbkey,type:"trackster",vis_json:JSON.stringify(o)}}).success(function(p){Galaxy.modal.hide();view.vis_id=p.vis_id;view.has_changes=false;window.history.pushState({},"",p.url+window.location.hash)}).error(function(){Galaxy.modal.show({title:"Could Not Save",body:"Could not save visualization. Please try again later.",buttons:{Cancel:function(){Galaxy.modal.hide()}}})})}},{icon_class:"cross-circle",title:"Close",on_click:function(){window.location=galaxy_config.root+"visualization"}}],{tooltip_config:{placement:"bottom"}});this.buttonMenu=l;return l},add_bookmarks:function(){var k=this,l=this.baseURL;Galaxy.modal.show({title:"Select dataset for new bookmarks",body:"progress"});$.ajax({url:this.baseURL+"/visualization/list_histories",data:{"f-dbkey":view.dbkey},error:function(){alert("Grid failed")},success:function(m){Galaxy.modal.show({title:"Select dataset for new bookmarks",body:m,buttons:{Cancel:function(){Galaxy.modal.hide()},Insert:function(){$("input[name=id]:checked,input[name=ldda_ids]:checked").first().each(function(){var n,o=$(this).val();if($(this).attr("name")==="id"){n={hda_id:o}}else{n={ldda_id:o}}$.ajax({url:this.baseURL+"/visualization/bookmarks_from_dataset",data:n,dataType:"json"}).then(function(p){for(i=0;i<p.data.length;i++){var q=p.data[i];k.add_bookmark(q[0],q[1])}})});Galaxy.modal.hide()}}})}})},add_bookmark:function(o,m,k){var q=$("#right .unified-panel-body"),s=$("<div/>").addClass("bookmark").appendTo(q);var t=$("<div/>").addClass("position").appendTo(s),p=$("<a href=''/>").text(o).appendTo(t).click(function(){view.go_to(o);return false}),n=$("<div/>").text(m).appendTo(s);if(k){var r=$("<div/>").addClass("delete-icon-container").prependTo(s).click(function(){s.slideUp("fast");s.remove();view.has_changes=true;return false}),l=$("<a href=''/>").addClass("icon-button delete").appendTo(r);n.make_text_editable({num_rows:3,use_textarea:true,help_text:"Edit bookmark note"}).addClass("annotation")}view.has_changes=true;return s},create_visualization:function(p,k,o,q,n){var m=this,l=new d.TracksterView(p);l.editor=true;$.when(l.load_chroms_deferred).then(function(B){if(k){var z=k.chrom,r=k.start,w=k.end,t=k.overview;if(z&&(r!==undefined)&&w){l.change_chrom(z,r,w)}else{l.change_chrom(B[0].chrom)}}else{l.change_chrom(B[0].chrom)}if(o){var u,s,v;for(var x=0;x<o.length;x++){l.add_drawable(j(o[x],l,l))}}l.update_intro_div();var A;for(var x=0;x<l.drawables.length;x++){if(l.drawables[x].prefs.name===t){l.set_overview(l.drawables[x]);break}}if(q){var y;for(var x=0;x<q.length;x++){y=q[x];m.add_bookmark(y.position,y.annotation,n)}}l.has_changes=false});return l},init_keyboard_nav:function(k){$(document).keyup(function(l){if($(l.srcElement).is(":input")){return}switch(l.which){case 37:k.move_fraction(0.25);break;case 38:var m=Math.round(k.viewport_container.height()/15);k.viewport_container.scrollTop(k.viewport_container.scrollTop()-20);break;case 39:k.move_fraction(-0.25);break;case 40:var m=Math.round(k.viewport_container.height()/15);k.viewport_container.scrollTop(k.viewport_container.scrollTop()+20);break}})}});return{object_from_template:j,TracksterUI:g}}); \ No newline at end of file diff -r 43dfc8ccc72ea49314c25dce9248d66d279dfe01 -r db5c4a4c9699f304ee1e18854a7f402b790353e6 static/scripts/viz/trackster/tracks.js --- a/static/scripts/viz/trackster/tracks.js +++ b/static/scripts/viz/trackster/tracks.js @@ -972,9 +972,12 @@ view.location_span.show(); view.chrom_select.show(); } + + // Suppress key presses so that they do impact viz. + e.stopPropagation(); }; this.nav_input = $("<input/>").addClass("nav-input").hide().bind("keyup focusout", submit_nav).appendTo(this.nav_controls); - this.location_span = $("<span/>").addClass("location").attr('original-title', 'Click to change location').tooltip( { placement: 'bottom' } ).appendTo(this.nav_controls); + this.location_span = $("<span/>").addClass("location").attr('title', 'Click to change location').tooltip( { placement: 'bottom' } ).appendTo(this.nav_controls); this.location_span.click(function() { view.location_span.hide(); view.chrom_select.hide(); @@ -1299,7 +1302,7 @@ view.reference_track.init(); } } - if (low && high) { + if (low !== undefined && high !== undefined) { view.low = Math.max(low, 0); view.high = Math.min(high, view.max_high); } diff -r 43dfc8ccc72ea49314c25dce9248d66d279dfe01 -r db5c4a4c9699f304ee1e18854a7f402b790353e6 static/scripts/viz/trackster_ui.js --- a/static/scripts/viz/trackster_ui.js +++ b/static/scripts/viz/trackster_ui.js @@ -292,7 +292,7 @@ */ init_keyboard_nav: function(view) { // Keyboard navigation. Scroll ~7% of height when scrolling up/down. - $(document).keydown(function(e) { + $(document).keyup(function(e) { // Do not navigate if arrow keys used in input element. if ($(e.srcElement).is(':input')) { return; Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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