From 796f803df0bc139b7ae3d1f7cf6d718da186cef7 Mon Sep 17 00:00:00 2001 From: Martin Cech Date: Mon, 28 Sep 2015 11:38:35 -0400 Subject: [PATCH] provide UI to delete and udelete lib folders; slight refactor --- .../mvc/library/library-folderlist-view.js | 5 ++ .../mvc/library/library-folderrow-view.js | 66 +++++++++++++++++-- .../mvc/library/library-foldertoolbar-view.js | 52 +++++++++------ .../scripts/mvc/library/library-model.js | 47 ++++++++----- lib/galaxy/managers/folders.py | 2 +- lib/galaxy/webapps/galaxy/api/folders.py | 15 +++-- lib/galaxy/webapps/galaxy/buildapp.py | 6 ++ .../library/library-folderlist-view.js.map | 2 +- .../mvc/library/library-folderrow-view.js.map | 2 +- .../library/library-foldertoolbar-view.js.map | 2 +- static/maps/mvc/library/library-model.js.map | 2 +- .../mvc/library/library-folderlist-view.js | 2 +- .../mvc/library/library-folderrow-view.js | 2 +- .../mvc/library/library-foldertoolbar-view.js | 4 +- static/scripts/mvc/library/library-model.js | 2 +- 15 files changed, 152 insertions(+), 59 deletions(-) diff --git a/client/galaxy/scripts/mvc/library/library-folderlist-view.js b/client/galaxy/scripts/mvc/library/library-folderlist-view.js index d19993ab3272..36b67967a4df 100644 --- a/client/galaxy/scripts/mvc/library/library-folderlist-view.js +++ b/client/galaxy/scripts/mvc/library/library-folderlist-view.js @@ -263,6 +263,11 @@ var FolderListView = Backbone.View.extend({ * Currently supports only sorting by name. */ sortFolder: function(sort_by, order){ + console.log('sorting'); + // default to asc sort by name + if (sort_by === 'undefined' && order === 'undefined'){ + return this.collection.sortByNameAsc(); + } if (sort_by === 'name'){ if (order === 'asc'){ return this.collection.sortByNameAsc(); diff --git a/client/galaxy/scripts/mvc/library/library-folderrow-view.js b/client/galaxy/scripts/mvc/library/library-folderrow-view.js index a87b93d633ba..51b1686a8489 100644 --- a/client/galaxy/scripts/mvc/library/library-folderrow-view.js +++ b/client/galaxy/scripts/mvc/library/library-folderrow-view.js @@ -15,7 +15,8 @@ var FolderRowView = Backbone.View.extend({ lastSelectedHistory: '', events: { - 'click .undelete_dataset_btn' : 'undelete_dataset' + 'click .undelete_dataset_btn' : 'undeleteDataset', + 'click .undelete_folder_btn' : 'undeleteFolder' }, options: { @@ -29,16 +30,23 @@ var FolderRowView = Backbone.View.extend({ render: function(folder_item){ var template = null; - if (folder_item.get('type') === 'folder'){ + if (folder_item.get('type') === 'folder' || folder_item.get('model_class') === 'LibraryFolder'){ this.options.type = 'folder'; - template = this.templateRowFolder(); - } else { + if (folder_item.get('deleted')){ + template = this.templateRowDeletedFolder(); + } else{ + template = this.templateRowFolder(); + } + } else if (folder_item.get('type') === 'file' || folder_item.get('model_class') === 'LibraryDataset'){ this.options.type = 'file'; if (folder_item.get('deleted')){ template = this.templateRowDeletedFile(); } else { template = this.templateRowFile(); } + } else { + console.error('Unknown library item type found.'); + console.error(folder_item.get('type') || folder_item.get('model_class')); } this.setElement(template({content_item:folder_item})); this.$el.show(); @@ -52,7 +60,7 @@ var FolderRowView = Backbone.View.extend({ /** * Undeletes the dataset on server and renders the row again. */ - undelete_dataset : function(event){ + undeleteDataset : function(event){ $(".tooltip").hide(); var that = this; var dataset_id = $(event.target).closest('tr')[0].id; @@ -63,6 +71,7 @@ var FolderRowView = Backbone.View.extend({ Galaxy.libraries.folderListView.collection.remove(dataset_id); var updated_dataset = new mod_library_model.Item(response); Galaxy.libraries.folderListView.collection.add(updated_dataset); + Galaxy.libraries.folderListView.collection.sortByNameAsc(); mod_toastr.success('Dataset undeleted. Click this to see it.', '', {onclick: function() { var folder_id = that.model.get('folder_id'); window.location='#folders/' + folder_id + '/datasets/' + that.id; @@ -78,6 +87,33 @@ var FolderRowView = Backbone.View.extend({ }); }, + /** + * Undeletes the folder on server and renders the row again. + */ + undeleteFolder : function(event){ + $(".tooltip").hide(); + var that = this; + var folder_id = $(event.target).closest('tr')[0].id; + var folder = Galaxy.libraries.folderListView.collection.get(folder_id); + folder.url = folder.urlRoot + folder.id + '?undelete=true'; + folder.destroy({ + success : function(model, response){ + Galaxy.libraries.folderListView.collection.remove(folder_id); + var updated_folder = new mod_library_model.FolderAsModel(response); + Galaxy.libraries.folderListView.collection.add(updated_folder); + Galaxy.libraries.folderListView.collection.sortByNameAsc(); + mod_toastr.success('Folder undeleted.'); + }, + error : function(model, response){ + if (typeof response.responseJSON !== "undefined"){ + mod_toastr.error('Folder was not undeleted. ' + response.responseJSON.err_msg); + } else { + mod_toastr.error('An error occured! Folder was not undeleted. Please try again.'); + } + } + }); + }, + templateRowFolder: function() { tmpl_array = []; @@ -138,6 +174,26 @@ var FolderRowView = Backbone.View.extend({ tmpl_array.push(' '); tmpl_array.push(''); + return _.template(tmpl_array.join('')); + }, + + templateRowDeletedFolder: function(){ + tmpl_array = []; + + tmpl_array.push(''); + tmpl_array.push(' '); + tmpl_array.push(' '); + tmpl_array.push(' '); + tmpl_array.push(' '); + tmpl_array.push(' '); + tmpl_array.push(' <%- content_item.get("name") %>'); + tmpl_array.push(' '); + tmpl_array.push(' folder'); + tmpl_array.push(' '); + tmpl_array.push(' <%= _.escape(content_item.get("update_time")) %>'); // time updated + tmpl_array.push(' '); + tmpl_array.push(''); + return _.template(tmpl_array.join('')); } diff --git a/client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js b/client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js index 36134c078bb6..5498ae94b934 100644 --- a/client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js +++ b/client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js @@ -863,37 +863,45 @@ var FolderToolbarView = Backbone.View.extend({ * call them in chain. Update progress bar in between each. * @param {array} lddas_set array of lddas to delete */ - chainCallDeletingHdas: function( lddas_set ){ + chainCallDeletingItems: function( items_to_delete ){ var self = this; - this.deleted_lddas = new mod_library_model.Folder(); - var popped_item = lddas_set.pop(); + this.deleted_items = new mod_library_model.Folder(); + var popped_item = items_to_delete.pop(); if ( typeof popped_item === "undefined" ) { if ( this.options.chain_call_control.failed_number === 0 ){ - mod_toastr.success( 'Selected datasets were deleted.' ); + mod_toastr.success( 'Selected items were deleted.' ); } else if ( this.options.chain_call_control.failed_number === this.options.chain_call_control.total_number ){ - mod_toastr.error( 'There was an error and no datasets were deleted. Please make sure you have sufficient permissions.' ); + mod_toastr.error( 'There was an error and no items were deleted. Please make sure you have sufficient permissions.' ); } else if ( this.options.chain_call_control.failed_number < this.options.chain_call_control.total_number ){ - mod_toastr.warning( 'Some of the datasets could not be deleted. Please make sure you have sufficient permissions.' ); + mod_toastr.warning( 'Some of the items could not be deleted. Please make sure you have sufficient permissions.' ); } Galaxy.modal.hide(); - return this.deleted_lddas; + return this.deleted_items; } var promise = $.when( popped_item.destroy() ); - promise.done( function( dataset ){ + promise.done( function( item ){ Galaxy.libraries.folderListView.collection.remove( popped_item.id ); self.updateProgress(); - // add the deleted dataset to collection, triggers rendering + // add the deleted item to collection, triggers rendering if ( Galaxy.libraries.folderListView.options.include_deleted ){ - var updated_dataset = new mod_library_model.Item( dataset ); - Galaxy.libraries.folderListView.collection.add( updated_dataset ); + var updated_item = null; + if (item.type === 'folder' || item.model_class === 'LibraryFolder'){ + updated_item = new mod_library_model.FolderAsModel( item ); + } else if (item.type === 'file' || item.model_class === 'LibraryDataset'){ + updated_item = new mod_library_model.Item( item ); + } else { + console.error('Unknown library item type found.'); + console.error(item.type || item.model_class); + } + Galaxy.libraries.folderListView.collection.add( updated_item ); } - self.chainCallDeletingHdas( lddas_set ); + self.chainCallDeletingItems( items_to_delete ); }) .fail( function(){ self.options.chain_call_control.failed_number += 1; self.updateProgress(); - self.chainCallDeletingHdas( lddas_set ); + self.chainCallDeletingItems( items_to_delete ); }); }, @@ -931,29 +939,35 @@ var FolderToolbarView = Backbone.View.extend({ this.options.chain_call_control.failed_number = 0; var dataset_ids = []; + var folder_ids = []; checkedValues.each(function(){ if (this.parentElement.parentElement.id !== '') { if (this.parentElement.parentElement.id.substring(0,1) == 'F'){ - mod_toastr.error('Deleting folders is not implemented yet'); + folder_ids.push(this.parentElement.parentElement.id); } else { dataset_ids.push(this.parentElement.parentElement.id); } } }); // init the progress bar - this.progressStep = 100 / dataset_ids.length; + var items_total = dataset_ids.length + folder_ids.length + this.progressStep = 100 / items_total; this.progress = 0; // prepare the dataset items to be added - var lddas_to_delete = []; + var items_to_delete = []; for (var i = dataset_ids.length - 1; i >= 0; i--) { var dataset = new mod_library_model.Item({id:dataset_ids[i]}); - lddas_to_delete.push(dataset); + items_to_delete.push(dataset); + } + for (var i = folder_ids.length - 1; i >= 0; i--) { + var folder = new mod_library_model.FolderAsModel({id:folder_ids[i]}); + items_to_delete.push(folder); } - this.options.chain_call_control.total_number = dataset_ids.length; + this.options.chain_call_control.total_number = items_total.length; // call the recursive function to call ajax one after each other (request FIFO queue) - this.chainCallDeletingHdas(lddas_to_delete); + this.chainCallDeletingItems(items_to_delete); } }, diff --git a/client/galaxy/scripts/mvc/library/library-model.js b/client/galaxy/scripts/mvc/library/library-model.js index e8c1b214feba..1c456e2024ff 100644 --- a/client/galaxy/scripts/mvc/library/library-model.js +++ b/client/galaxy/scripts/mvc/library/library-model.js @@ -83,20 +83,19 @@ define([], function() { // ============================================================================ // FOLDER RELATED MODELS - var Item = Backbone.Model.extend({ - urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets/' + var LibraryItem = Backbone.Model.extend({ }); - var Ldda = Backbone.Model.extend({ + var Ldda = LibraryItem.extend({ urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets/' }); - var FolderAsModel = Backbone.Model.extend({ - urlRoot: ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/folders' + var FolderAsModel = LibraryItem.extend({ + urlRoot: ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/folders/' }); var Folder = Backbone.Collection.extend({ - model: Item, + model: LibraryItem, /** Sort collection by item name (ascending) and return the sorted * collection. Folders go before datasets. @@ -150,16 +149,28 @@ define([], function() { }); var FolderContainer = Backbone.Model.extend({ - defaults : { - folder : new Folder(), - urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/folders/', - id : "unknown" - }, - parse : function(obj) { - // response is not a simple array, it contains metadata - // this will update the inner collection - this.get("folder").reset(obj.folder_contents); - return obj; + defaults : { + folder : new Folder(), + urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/folders/', + id : "unknown" + }, + parse : function(obj) { + // empty the collection + this.get("folder").reset(); + // response is not a simple array, it contains metadata + // this will update the inner collection + for (var i = 0; i < obj.folder_contents.length; i++) { + if (obj.folder_contents[i].type === 'folder'){ + var folder_item = new FolderAsModel(obj.folder_contents[i]) + this.get("folder").add(folder_item); + } else if(obj.folder_contents[i].type === 'file'){ + var file_item = new Ldda(obj.folder_contents[i]) + this.get("folder").add(file_item); + } else{ + console.error('Unknown folder item type encountered while parsing response.'); + } + }; + return obj; } }); @@ -204,10 +215,10 @@ define([], function() { return { Library: Library, - FolderAsModel : FolderAsModel, Libraries : Libraries, - Item : Item, + Item : Ldda, Ldda : Ldda, + FolderAsModel : FolderAsModel, Folder : Folder, FolderContainer : FolderContainer, HistoryItem : HistoryItem, diff --git a/lib/galaxy/managers/folders.py b/lib/galaxy/managers/folders.py index 572a4eb90a9e..366d6bb30a39 100644 --- a/lib/galaxy/managers/folders.py +++ b/lib/galaxy/managers/folders.py @@ -152,7 +152,7 @@ def update( self, trans, folder, name=None, description=None): changed = False if not trans.user_is_admin(): if not self.check_manageable( trans, folder ): - raise InsufficientPermissionsException( "You do not have proper permission to update library folders." ) + raise InsufficientPermissionsException( "You do not have proper permission to update the library folder." ) if folder.deleted == True: raise ItemAccessibilityException( "You cannot update deleted library folder. Undelete it first." ) if name is not None and name != folder.name: diff --git a/lib/galaxy/webapps/galaxy/api/folders.py b/lib/galaxy/webapps/galaxy/api/folders.py index 74b9ed084f52..d9c40c4f623c 100644 --- a/lib/galaxy/webapps/galaxy/api/folders.py +++ b/lib/galaxy/webapps/galaxy/api/folders.py @@ -229,16 +229,16 @@ def set_permissions( self, trans, encoded_folder_id, **kwd ): return self.folder_manager.get_current_roles( trans, folder ) @expose_api - def delete( self, trans, id, **kwd ): + def delete( self, trans, encoded_folder_id, **kwd ): """ - delete( self, trans, id, **kwd ) - * DELETE /api/folders/{id} - marks the folder with the given ``id`` as `deleted` (or removes the `deleted` mark if the `undelete` param is true) + delete( self, trans, encoded_folder_id, **kwd ) + * DELETE /api/folders/{encoded_folder_id} + marks the folder with the given ``encoded_folder_id`` as `deleted` (or removes the `deleted` mark if the `undelete` param is true) .. note:: Currently, only admin users can un/delete folders. - :param id: the encoded id of the folder to un/delete - :type id: an encoded id string + :param encoded_folder_id: the encoded id of the folder to un/delete + :type encoded_folder_id: an encoded id string :param undelete: (optional) flag specifying whether the item should be deleted or undeleted, defaults to false: :type undelete: bool @@ -247,10 +247,11 @@ def delete( self, trans, id, **kwd ): :rtype: dictionary """ - folder = self.folder_manager.get( trans, self.folder_manager.cut_and_decode( trans, id ), True ) + folder = self.folder_manager.get( trans, self.folder_manager.cut_and_decode( trans, encoded_folder_id ), True ) undelete = util.string_as_bool( kwd.get( 'undelete', False ) ) folder = self.folder_manager.delete( trans, folder, undelete ) folder_dict = self.folder_manager.get_folder_dict( trans, folder ) + folder_dict['update_time'] = folder.update_time.strftime( "%Y-%m-%d %I:%M %p" ) return folder_dict @expose_api diff --git a/lib/galaxy/webapps/galaxy/buildapp.py b/lib/galaxy/webapps/galaxy/buildapp.py index ab9490e066c3..bc21df92c4da 100644 --- a/lib/galaxy/webapps/galaxy/buildapp.py +++ b/lib/galaxy/webapps/galaxy/buildapp.py @@ -487,6 +487,12 @@ def populate_api_routes( webapp, app ): action='create', conditions=dict( method=[ "POST" ] ) ) + webapp.mapper.connect( 'delete_folder', + '/api/folders/{encoded_folder_id}', + controller='folders', + action='delete', + conditions=dict( method=[ "DELETE" ] ) ) + webapp.mapper.connect( 'update_folder', '/api/folders/{encoded_folder_id}', controller='folders', diff --git a/static/maps/mvc/library/library-folderlist-view.js.map b/static/maps/mvc/library/library-folderlist-view.js.map index ce1c69afb682..e719d92f9d22 100644 --- a/static/maps/mvc/library/library-folderlist-view.js.map +++ b/static/maps/mvc/library/library-folderlist-view.js.map @@ -1 +1 @@ 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b.responseJSON?c.error(b.responseJSON.err_msg+" Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}}):c.error("An error ocurred. 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Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}})},render:function(a){this.options=_.extend(this.options,a);var b=this.templateFolder();$(".tooltip").hide();var d,e=this.folderContainer.attributes.metadata.full_path;d=1===e.length?0:e[e.length-2][0],this.$el.html(b({path:this.folderContainer.attributes.metadata.full_path,parent_library_id:this.folderContainer.attributes.metadata.parent_library_id,id:this.options.id,upper_folder_id:d,order:this.sort})),this.options.dataset_id?(row=_.findWhere(that.rowViews,{id:this.options.dataset_id}),row?row.showDatasetDetails():c.error("Requested dataset not found. Showing folder instead.")):((null===this.options.show_page||this.options.show_page<1)&&(this.options.show_page=1),this.paginate()),$("#center [data-toggle]").tooltip(),$("#center").css("overflow","auto")},paginate:function(a){this.options=_.extend(this.options,a),(null===this.options.show_page||this.options.show_page<1)&&(this.options.show_page=1),this.options.total_items_count=this.folder_container.get("folder").models.length,this.options.page_count=Math.ceil(this.options.total_items_count/Galaxy.libraries.preferences.get("folder_page_size"));var b=Galaxy.libraries.preferences.get("folder_page_size")*(this.options.show_page-1),c=null;c=this.folder_container.get("folder").models.slice(b,b+Galaxy.libraries.preferences.get("folder_page_size")),this.options.items_shown=c.length,Galaxy.libraries.preferences.get("folder_page_size")*this.options.show_page>this.options.total_items_count+Galaxy.libraries.preferences.get("folder_page_size")&&(c=[]),Galaxy.libraries.folderToolbarView.renderPaginator(this.options),this.collection.reset(c)},rePaint:function(a){this.options=_.extend(this.options,a),this.removeAllRows(),this.renderAll(),this.checkEmptiness()},addAll:function(a){_.each(a,function(a){Galaxy.libraries.folderListView.collection.add(a,{sort:!1})}),$("#center [data-toggle]").tooltip(),this.checkEmptiness(),this.postRender()},postRender:function(){var a=this.folderContainer.attributes.metadata;a.contains_file_or_folder="undefined"!=typeof this.collection.findWhere({type:"file"})||"undefined"!=typeof this.collection.findWhere({type:"folder"}),Galaxy.libraries.folderToolbarView.configureElements(a),$(".library-row").hover(function(){$(this).find(".show_on_hover").show()},function(){$(this).find(".show_on_hover").hide()})},renderAll:function(){var a=this;_.each(this.collection.models.reverse(),function(b){a.renderOne(b)}),this.postRender()},renderOne:function(a){this.options.contains_file_or_folder=!0,a.set("folder_id",this.id);var b=new e.FolderRowView(a);this.rowViews[a.get("id")]=b,this.$el.find("#first_folder_item").after(b.el),$(".library-row").hover(function(){$(this).find(".show_on_hover").show()},function(){$(this).find(".show_on_hover").hide()})},removeOne:function(a){this.$el.find("#"+a.id).remove()},removeAllRows:function(){$(".library-row").remove()},checkEmptiness:function(){0===this.$el.find(".dataset_row").length&&0===this.$el.find(".folder_row").length?this.$el.find(".empty-folder-message").show():this.$el.find(".empty-folder-message").hide()},sortColumnClicked:function(a){a.preventDefault(),"asc"===this.sort?(this.sortFolder("name","desc"),this.sort="desc"):(this.sortFolder("name","asc"),this.sort="asc"),this.renderSortIcon()},sortFolder:function(a,b){if("undefined"===a&&"undefined"===b)return this.collection.sortByNameAsc();if("name"===a){if("asc"===b)return this.collection.sortByNameAsc();if("desc"===b)return this.collection.sortByNameDesc()}},selectAll:function(a){var b=a.target.checked;that=this,$(":checkbox","#folder_list_body").each(function(){this.checked=b,$row=$(this.parentElement.parentElement),b?that.makeDarkRow($row):that.makeWhiteRow($row)})},selectClickedRow:function(a){var b,c,d="";"input"===a.target.localName?(d=a.target,b=$(a.target.parentElement.parentElement),c="input"):"td"===a.target.localName&&(d=$("#"+a.target.parentElement.id).find(":checkbox")[0],b=$(a.target.parentElement),c="td"),d.checked?"td"===c?(d.checked="",this.makeWhiteRow(b)):"input"===c&&this.makeDarkRow(b):"td"===c?(d.checked="selected",this.makeDarkRow(b)):"input"===c&&this.makeWhiteRow(b)},makeDarkRow:function(a){a.removeClass("light").addClass("dark"),a.find("a").removeClass("light").addClass("dark"),a.find(".fa-file-o").removeClass("fa-file-o").addClass("fa-file"),a.find(".fa-folder-o").removeClass("fa-folder-o").addClass("fa-folder")},makeWhiteRow:function(a){a.removeClass("dark").addClass("light"),a.find("a").removeClass("dark").addClass("light"),a.find(".fa-file").removeClass("fa-file").addClass("fa-file-o"),a.find(".fa-folder").removeClass("fa-folder").addClass("fa-folder-o")},renderSortIcon:function(){"asc"===this.sort?$(".sort-icon").removeClass("fa-sort-alpha-desc").addClass("fa-sort-alpha-asc"):$(".sort-icon").removeClass("fa-sort-alpha-asc").addClass("fa-sort-alpha-desc")},templateFolder:function(){var a=[];return a.push('
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name data typesizetime updated (UTC)
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"),a.push(''),_.template(a.join(""))}});return{FolderListView:f}}); //# sourceMappingURL=../../../maps/mvc/library/library-folderlist-view.js.map \ No newline at end of file diff --git a/static/scripts/mvc/library/library-folderrow-view.js b/static/scripts/mvc/library/library-folderrow-view.js index b8f23b2d5cb8..121b7ce54078 100644 --- a/static/scripts/mvc/library/library-folderrow-view.js +++ b/static/scripts/mvc/library/library-folderrow-view.js @@ -1,2 +1,2 @@ -define(["galaxy.masthead","utils/utils","libs/toastr","mvc/library/library-model","mvc/library/library-dataset-view"],function(a,b,c,d,e){var f=Backbone.View.extend({lastSelectedHistory:"",events:{"click .undelete_dataset_btn":"undelete_dataset"},options:{type:null},initialize:function(a){this.model=a,this.render(a)},render:function(a){var b=null;return"folder"===a.get("type")?(this.options.type="folder",b=this.templateRowFolder()):(this.options.type="file",b=a.get("deleted")?this.templateRowDeletedFile():this.templateRowFile()),this.setElement(b({content_item:a})),this.$el.show(),this},showDatasetDetails:function(){Galaxy.libraries.datasetView=new e.LibraryDatasetView({id:this.id})},undelete_dataset:function(a){$(".tooltip").hide();var b=this,e=$(a.target).closest("tr")[0].id,f=Galaxy.libraries.folderListView.collection.get(e);f.url=f.urlRoot+f.id+"?undelete=true",f.destroy({success:function(a,f){Galaxy.libraries.folderListView.collection.remove(e);var g=new d.Item(f);Galaxy.libraries.folderListView.collection.add(g),c.success("Dataset undeleted. Click this to see it.","",{onclick:function(){var a=b.model.get("folder_id");window.location="#folders/"+a+"/datasets/"+b.id}})},error:function(a,b){c.error("undefined"!=typeof b.responseJSON?"Dataset was not undeleted. "+b.responseJSON.err_msg:"An error occured! Dataset was not undeleted. Please try again.")}})},templateRowFolder:function(){return tmpl_array=[],tmpl_array.push(''),tmpl_array.push(" "),tmpl_array.push(' '),tmpl_array.push(" "),tmpl_array.push(' '),tmpl_array.push(" "),tmpl_array.push(' <%- content_item.get("name") %>'),tmpl_array.push(" "),tmpl_array.push(" folder"),tmpl_array.push(" "),tmpl_array.push(' <%= _.escape(content_item.get("update_time")) %>'),tmpl_array.push(" "),tmpl_array.push(' <% if (content_item.get("can_manage")) { %><% } %>'),tmpl_array.push(" "),tmpl_array.push(""),_.template(tmpl_array.join(""))},templateRowFile:function(){return tmpl_array=[],tmpl_array.push(''),tmpl_array.push(" "),tmpl_array.push(' '),tmpl_array.push(" "),tmpl_array.push(' '),tmpl_array.push(' /datasets/<%- content_item.id %>" class="library-dataset"><%- content_item.get("name") %>'),tmpl_array.push(' <%= _.escape(content_item.get("file_ext")) %>'),tmpl_array.push(' <%= _.escape(content_item.get("file_size")) %>'),tmpl_array.push(' <%= _.escape(content_item.get("update_time")) %>'),tmpl_array.push(" "),tmpl_array.push(' <% if (content_item.get("is_unrestricted")) { %><% } %>'),tmpl_array.push(' <% if (content_item.get("is_private")) { %><% } %>'),tmpl_array.push(' <% if ((content_item.get("is_unrestricted") === false) && (content_item.get("is_private") === false)) { %><% } %>'),tmpl_array.push(' <% if (content_item.get("can_manage")) { %>/datasets/<%- content_item.id %>/permissions"><% } %>'),tmpl_array.push(" "),tmpl_array.push(""),_.template(tmpl_array.join(""))},templateRowDeletedFile:function(){return tmpl_array=[],tmpl_array.push(''),tmpl_array.push(" "),tmpl_array.push(' '),tmpl_array.push(" "),tmpl_array.push(" "),tmpl_array.push(' <%- content_item.get("name") %>'),tmpl_array.push(' <%= _.escape(content_item.get("file_ext")) %>'),tmpl_array.push(' <%= _.escape(content_item.get("file_size")) %>'),tmpl_array.push(' <%= _.escape(content_item.get("update_time")) %>'),tmpl_array.push(' '),tmpl_array.push(""),_.template(tmpl_array.join(""))}});return{FolderRowView:f}}); +define(["galaxy.masthead","utils/utils","libs/toastr","mvc/library/library-model","mvc/library/library-dataset-view"],function(a,b,c,d,e){var f=Backbone.View.extend({lastSelectedHistory:"",events:{"click .undelete_dataset_btn":"undeleteDataset","click .undelete_folder_btn":"undeleteFolder"},options:{type:null},initialize:function(a){this.model=a,this.render(a)},render:function(a){var b=null;return"folder"===a.get("type")||"LibraryFolder"===a.get("model_class")?(this.options.type="folder",b=a.get("deleted")?this.templateRowDeletedFolder():this.templateRowFolder()):("file"===a.get("type")||"LibraryDataset"===a.get("model_class"))&&(this.options.type="file",b=a.get("deleted")?this.templateRowDeletedFile():this.templateRowFile()),this.setElement(b({content_item:a})),this.$el.show(),this},showDatasetDetails:function(){Galaxy.libraries.datasetView=new e.LibraryDatasetView({id:this.id})},undeleteDataset:function(a){$(".tooltip").hide();var b=this,e=$(a.target).closest("tr")[0].id,f=Galaxy.libraries.folderListView.collection.get(e);f.url=f.urlRoot+f.id+"?undelete=true",f.destroy({success:function(a,f){Galaxy.libraries.folderListView.collection.remove(e);var g=new d.Item(f);Galaxy.libraries.folderListView.collection.add(g),Galaxy.libraries.folderListView.collection.sortByNameAsc(),c.success("Dataset undeleted. Click this to see it.","",{onclick:function(){var a=b.model.get("folder_id");window.location="#folders/"+a+"/datasets/"+b.id}})},error:function(a,b){c.error("undefined"!=typeof b.responseJSON?"Dataset was not undeleted. "+b.responseJSON.err_msg:"An error occured! Dataset was not undeleted. Please try again.")}})},undeleteFolder:function(a){$(".tooltip").hide();var b=$(a.target).closest("tr")[0].id,e=Galaxy.libraries.folderListView.collection.get(b);e.url=e.urlRoot+e.id+"?undelete=true",e.destroy({success:function(a,e){Galaxy.libraries.folderListView.collection.remove(b);var f=new d.FolderAsModel(e);Galaxy.libraries.folderListView.collection.add(f),Galaxy.libraries.folderListView.collection.sortByNameAsc(),c.success("Folder undeleted.")},error:function(a,b){c.error("undefined"!=typeof b.responseJSON?"Folder was not undeleted. "+b.responseJSON.err_msg:"An error occured! Folder was not undeleted. Please try again.")}})},templateRowFolder:function(){return tmpl_array=[],tmpl_array.push(''),tmpl_array.push(" "),tmpl_array.push(' '),tmpl_array.push(" "),tmpl_array.push(' '),tmpl_array.push(" "),tmpl_array.push(' <%- content_item.get("name") %>'),tmpl_array.push(" "),tmpl_array.push(" folder"),tmpl_array.push(" "),tmpl_array.push(' <%= _.escape(content_item.get("update_time")) %>'),tmpl_array.push(" "),tmpl_array.push(' <% if (content_item.get("can_manage")) { %><% } %>'),tmpl_array.push(" "),tmpl_array.push(""),_.template(tmpl_array.join(""))},templateRowFile:function(){return tmpl_array=[],tmpl_array.push(''),tmpl_array.push(" "),tmpl_array.push(' '),tmpl_array.push(" "),tmpl_array.push(' '),tmpl_array.push(' /datasets/<%- content_item.id %>" class="library-dataset"><%- content_item.get("name") %>'),tmpl_array.push(' <%= _.escape(content_item.get("file_ext")) %>'),tmpl_array.push(' <%= _.escape(content_item.get("file_size")) %>'),tmpl_array.push(' <%= _.escape(content_item.get("update_time")) %>'),tmpl_array.push(" "),tmpl_array.push(' <% if (content_item.get("is_unrestricted")) { %><% } %>'),tmpl_array.push(' <% if (content_item.get("is_private")) { %><% } %>'),tmpl_array.push(' <% if ((content_item.get("is_unrestricted") === false) && (content_item.get("is_private") === false)) { %><% } %>'),tmpl_array.push(' <% if (content_item.get("can_manage")) { %>/datasets/<%- content_item.id %>/permissions"><% } %>'),tmpl_array.push(" "),tmpl_array.push(""),_.template(tmpl_array.join(""))},templateRowDeletedFile:function(){return tmpl_array=[],tmpl_array.push(''),tmpl_array.push(" "),tmpl_array.push(' '),tmpl_array.push(" "),tmpl_array.push(" "),tmpl_array.push(' <%- content_item.get("name") %>'),tmpl_array.push(' <%= _.escape(content_item.get("file_ext")) %>'),tmpl_array.push(' <%= _.escape(content_item.get("file_size")) %>'),tmpl_array.push(' <%= _.escape(content_item.get("update_time")) %>'),tmpl_array.push(' '),tmpl_array.push(""),_.template(tmpl_array.join(""))},templateRowDeletedFolder:function(){return tmpl_array=[],tmpl_array.push(''),tmpl_array.push(" "),tmpl_array.push(' '),tmpl_array.push(" "),tmpl_array.push(" "),tmpl_array.push(' '),tmpl_array.push(' <%- content_item.get("name") %>'),tmpl_array.push(" "),tmpl_array.push(" folder"),tmpl_array.push(" "),tmpl_array.push(' <%= _.escape(content_item.get("update_time")) %>'),tmpl_array.push(' '),tmpl_array.push(""),_.template(tmpl_array.join(""))}});return{FolderRowView:f}}); //# sourceMappingURL=../../../maps/mvc/library/library-folderrow-view.js.map \ No newline at end of file diff --git a/static/scripts/mvc/library/library-foldertoolbar-view.js b/static/scripts/mvc/library/library-foldertoolbar-view.js index d7b50850b377..81dc3e6f7c57 100644 --- a/static/scripts/mvc/library/library-foldertoolbar-view.js +++ b/static/scripts/mvc/library/library-foldertoolbar-view.js @@ -1,3 +1,3 @@ -define(["galaxy.masthead","utils/utils","libs/toastr","mvc/library/library-model","mvc/ui/ui-select"],function(a,b,c,d,e){var f=Backbone.View.extend({el:"#center",events:{"click #toolbtn_create_folder":"createFolderFromModal","click #toolbtn_bulk_import":"modalBulkImport","click #include_deleted_datasets_chk":"checkIncludeDeleted","click #toolbtn_show_libinfo":"showLibInfo","click #toolbtn_bulk_delete":"deleteSelectedDatasets","click #page_size_prompt":"showPageSizePrompt"},defaults:{can_add_library_item:!1,contains_file_or_folder:!1,chain_call_control:{total_number:0,failed_number:0},disabled_jstree_element:"folders"},modal:null,jstree:null,histories:null,select_genome:null,select_extension:null,list_extensions:[],auto:{id:"auto",text:"Auto-detect",description:"This system will try to detect the file type automatically. If your file is not detected properly as one of the known formats, it most likely means that it has some format problems (e.g., different number of columns on different rows). You can still coerce the system to set your data to the format you think it should be. You can also upload compressed files, which will automatically be decompressed."},list_genomes:[],initialize:function(a){this.options=_.defaults(a||{},this.defaults),this.fetchExtAndGenomes(),this.render()},render:function(a){this.options=_.extend(this.options,a);var b=this.templateToolBar(),c={id:this.options.id,is_admin:!1,is_anonym:!0,mutiple_add_dataset_options:!1};Galaxy.currUser&&(c.is_admin=Galaxy.currUser.isAdmin(),c.is_anonym=Galaxy.currUser.isAnonymous(),(null!==Galaxy.config.user_library_import_dir||Galaxy.config.allow_library_path_paste!==!1||null!==Galaxy.config.library_import_dir)&&(c.mutiple_add_dataset_options=!0)),this.$el.html(b(c))},renderPaginator:function(a){this.options=_.extend(this.options,a);var b=this.templatePaginator();this.$el.find("#folder_paginator").html(b({id:this.options.id,show_page:parseInt(this.options.show_page),page_count:parseInt(this.options.page_count),total_items_count:this.options.total_items_count,items_shown:this.options.items_shown}))},configureElements:function(a){this.options=_.extend(this.options,a),this.options.can_add_library_item===!0?$(".add-library-items").show():$(".add-library-items").hide(),this.options.contains_file_or_folder===!0&&Galaxy.currUser?Galaxy.currUser.isAnonymous()?($(".dataset-manipulation").show(),$(".logged-dataset-manipulation").hide()):($(".logged-dataset-manipulation").show(),$(".dataset-manipulation").show()):($(".logged-dataset-manipulation").hide(),$(".dataset-manipulation").hide()),this.$el.find("[data-toggle]").tooltip()},createFolderFromModal:function(a){a.preventDefault(),a.stopPropagation();var b=this,c=this.templateNewFolderInModal();this.modal=Galaxy.modal,this.modal.show({closing_events:!0,title:"Create New Folder",body:c(),buttons:{Create:function(){b.create_new_folder_event()},Close:function(){Galaxy.modal.hide()}}})},create_new_folder_event:function(){var a=this.serialize_new_folder();if(this.validate_new_folder(a)){var b=new d.FolderAsModel;url_items=Backbone.history.fragment.split("/"),current_folder_id=url_items[url_items.length-1],b.url=b.urlRoot+"/"+current_folder_id,b.save(a,{success:function(a){Galaxy.modal.hide(),c.success("Folder created."),a.set({type:"folder"}),Galaxy.libraries.folderListView.collection.add(a)},error:function(a,b){Galaxy.modal.hide(),c.error("undefined"!=typeof b.responseJSON?b.responseJSON.err_msg:"An error ocurred.")}})}else c.error("Folder's name is missing.");return!1},serialize_new_folder:function(){return{name:$("input[name='Name']").val(),description:$("input[name='Description']").val()}},validate_new_folder:function(a){return""!==a.name},modalBulkImport:function(){var a=$("#folder_table").find(":checked");0===a.length?c.info("You must select some datasets first."):this.refreshUserHistoriesList(function(a){var b=a.templateBulkImportInModal();a.modal=Galaxy.modal,a.modal.show({closing_events:!0,title:"Import into History",body:b({histories:a.histories.models}),buttons:{Import:function(){a.importAllIntoHistory()},Close:function(){Galaxy.modal.hide()}}})})},refreshUserHistoriesList:function(a){var b=this;this.histories=new d.GalaxyHistories,this.histories.fetch({success:function(){a(b)},error:function(a,b){c.error("undefined"!=typeof b.responseJSON?b.responseJSON.err_msg:"An error ocurred.")}})},importAllIntoHistory:function(){this.modal.disableButton("Import");var a=$("select[name=dataset_import_bulk] option:selected").val(),b=$("select[name=dataset_import_bulk] option:selected").text();this.options.last_used_history_id=a;var c=[],e=[];$("#folder_table").find(":checked").each(function(){""!==this.parentElement.parentElement.id&&this.parentElement.parentElement.classList.contains("dataset_row")?c.push(this.parentElement.parentElement.id):""!==this.parentElement.parentElement.id&&this.parentElement.parentElement.classList.contains("folder_row")&&e.push(this.parentElement.parentElement.id)});for(var f=[],g=c.length-1;g>=0;g--){var h=c[g],i=new d.HistoryItem;i.url=i.urlRoot+a+"/contents",i.content=h,i.source="library",f.push(i)}for(var g=e.length-1;g>=0;g--){var j=e[g],i=new d.HistoryItem;i.url=i.urlRoot+a+"/contents",i.content=j,i.source="library_folder",f.push(i)}this.initChainCallControl({length:f.length,action:"to_history",history_name:b}),jQuery.getJSON(galaxy_config.root+"history/set_as_current?id="+a),this.chainCallImportingIntoHistory(f,b)},updateProgress:function(){this.progress+=this.progressStep,$(".progress-bar-import").width(Math.round(this.progress)+"%"),txt_representation=Math.round(this.progress)+"% Complete",$(".completion_span").text(txt_representation)},download:function(a,b){var c=[],d=[];$("#folder_table").find(":checked").each(function(){""!==this.parentElement.parentElement.id&&this.parentElement.parentElement.classList.contains("dataset_row")?c.push(this.parentElement.parentElement.id):""!==this.parentElement.parentElement.id&&this.parentElement.parentElement.classList.contains("folder_row")&&d.push(this.parentElement.parentElement.id)});var e=(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/download/"+b,f={ld_ids:c,folder_ids:d};this.processDownload(e,f,"get")},processDownload:function(a,b,d){if(a&&b){b="string"==typeof b?b:$.param(b);var e="";$.each(b.split("&"),function(){var a=this.split("=");e+=''}),$('
'+e+"
").appendTo("body").submit().remove(),c.info("Your download will begin soon.")}else c.error("An error occurred.")},addFilesFromHistoryModal:function(){this.refreshUserHistoriesList(function(a){a.modal=Galaxy.modal;var b=a.templateAddFilesFromHistory(),d=a.options.full_path[a.options.full_path.length-1][1];a.modal.show({closing_events:!0,title:"Adding datasets from your history to folder "+d,body:b({histories:a.histories.models}),buttons:{Add:function(){a.addAllDatasetsFromHistory()},Close:function(){Galaxy.modal.hide()}},closing_callback:function(){Galaxy.libraries.library_router.back()}}),a.histories.models.length>0?(a.fetchAndDisplayHistoryContents(a.histories.models[0].id),$("#dataset_add_bulk").change(function(b){a.fetchAndDisplayHistoryContents(b.target.value)})):c.error("An error ocurred.")})},importFilesFromPathModal:function(){var a=this;this.modal=Galaxy.modal;var b=this.templateImportPathModal();this.modal.show({closing_events:!0,title:"Please enter paths to import",body:b({}),buttons:{Import:function(){a.importFromPathsClicked(a)},Close:function(){Galaxy.modal.hide()}},closing_callback:function(){Galaxy.libraries.library_router.navigate("folders/"+a.id,{trigger:!0})}}),this.renderSelectBoxes()},fetchExtAndGenomes:function(){var a=this;b.get({url:(window.galaxy_config?galaxy_config.root:"/")+"api/datatypes?extension_only=False",success:function(b){for(key in b)a.list_extensions.push({id:b[key].extension,text:b[key].extension,description:b[key].description,description_url:b[key].description_url});a.list_extensions.sort(function(a,b){return a.id>b.id?1:a.idb.id?1:a.id=0;h--)trimmed=f[h].trim(),0!==trimmed.length&&g.push(trimmed);this.initChainCallControl({length:g.length,action:"adding_datasets"}),this.chainCallImportingFolders({paths:g,preserve_dirs:a,link_data:b,source:"admin_path",file_type:d,dbkey:e})}else c.info("Please enter a path relative to Galaxy root.")},initChainCallControl:function(a){var b;switch(a.action){case"adding_datasets":b=this.templateAddingDatasetsProgressBar(),this.modal.$el.find(".modal-body").html(b({folder_name:this.options.folder_name}));break;case"deleting_datasets":b=this.templateDeletingDatasetsProgressBar(),this.modal.$el.find(".modal-body").html(b());break;case"to_history":b=this.templateImportIntoHistoryProgressBar(),this.modal.$el.find(".modal-body").html(b({history_name:a.history_name}))}this.progress=0,this.progressStep=100/a.length,this.options.chain_call_control.total_number=a.length,this.options.chain_call_control.failed_number=0},importFromJstreePath:function(a,b){var d=$("#jstree_browser").jstree().get_selected(!0),e=this.modal.$el.find(".preserve-checkbox").is(":checked"),f=this.modal.$el.find(".link-checkbox").is(":checked"),g=this.select_extension.value(),h=this.select_genome.value(),i=d[0].type,j=[];if(d.length<1)c.info("Please select some items first.");else{this.modal.disableButton("Import");for(var k=d.length-1;k>=0;k--)void 0!==d[k].li_attr.full_path&&j.push(d[k].li_attr.full_path);if(this.initChainCallControl({length:j.length,action:"adding_datasets"}),"folder"===i){var l=b.source+"_folder";this.chainCallImportingFolders({paths:j,preserve_dirs:e,link_data:f,source:l,file_type:g,dbkey:h})}else if("file"===i){var l=b.source+"_file";this.chainCallImportingUserdirFiles({paths:j,file_type:g,dbkey:h,source:l})}}},fetchAndDisplayHistoryContents:function(a){var b=new d.HistoryContents({id:a}),e=this;b.fetch({success:function(b){var c=e.templateHistoryContents();e.histories.get(a).set({contents:b}),e.modal.$el.find("#selected_history_content").html(c({history_contents:b.models.reverse()}))},error:function(a,b){c.error("undefined"!=typeof b.responseJSON?b.responseJSON.err_msg:"An error ocurred.")}})},addAllDatasetsFromHistory:function(){var a=this.modal.$el.find("#selected_history_content").find(":checked"),b=[],e=[];if(a.length<1)c.info("You must select some datasets first.");else{this.modal.disableButton("Add"),a.each(function(){var a=$(this.parentElement).data("id");a&&b.push(a)});for(var f=b.length-1;f>=0;f--){history_dataset_id=b[f];var g=new d.Item;g.url=(window.galaxy_config?galaxy_config.root:"/")+"api/folders/"+this.options.id+"/contents",g.set({from_hda_id:history_dataset_id}),e.push(g)}this.initChainCallControl({length:e.length,action:"adding_datasets"}),this.chainCallAddingHdas(e)}},chainCallImportingIntoHistory:function(a,b){var d=this,e=a.pop();if("undefined"==typeof e)return 0===this.options.chain_call_control.failed_number?c.success("Selected datasets imported into history. Click this to start analysing it.","",{onclick:function(){window.location="/"}}):this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number?c.error("There was an error and no datasets were imported into history."):this.options.chain_call_control.failed_number=0;g--){var h=new d.Item({id:e[g]});f.push(h)}this.options.chain_call_control.total_number=e.length,this.chainCallDeletingHdas(f)}},showLibInfo:function(){var a=Galaxy.libraries.folderListView.folderContainer.attributes.metadata.parent_library_id,b=null,e=this;null!==Galaxy.libraries.libraryListView?(b=Galaxy.libraries.libraryListView.collection.get(a),this.showLibInfoModal(b)):(b=new d.Library({id:a}),b.fetch({success:function(){e.showLibInfoModal(b)},error:function(a,b){c.error("undefined"!=typeof b.responseJSON?b.responseJSON.err_msg:"An error ocurred.")}}))},showLibInfoModal:function(a){var b=this.templateLibInfoInModal();this.modal=Galaxy.modal,this.modal.show({closing_events:!0,title:"Library Information",body:b({library:a}),buttons:{Close:function(){Galaxy.modal.hide()}}})},showImportModal:function(a){switch(a.source){case"history":this.addFilesFromHistoryModal();break;case"importdir":this.importFilesFromGalaxyFolderModal({source:"importdir"});break;case"path":this.importFilesFromPathModal();break;case"userdir":this.importFilesFromGalaxyFolderModal({source:"userdir"});break;default:Galaxy.libraries.library_router.back(),c.error("Invalid import source.")}},showPageSizePrompt:function(){var a=prompt("How many items per page do you want to see?",Galaxy.libraries.preferences.get("folder_page_size"));null!=a&&a==parseInt(a)&&(Galaxy.libraries.preferences.set({folder_page_size:parseInt(a)}),Galaxy.libraries.folderListView.render({id:this.options.id,show_page:1}))},templateToolBar:function(){return tmpl_array=[],tmpl_array.push('
'),tmpl_array.push('
'),tmpl_array.push(" DATA LIBRARIES"),tmpl_array.push(' '),tmpl_array.push(' '),tmpl_array.push("<% if(mutiple_add_dataset_options) { %>"),tmpl_array.push(' "),tmpl_array.push("<% } else { %>"),tmpl_array.push(' '),tmpl_array.push("<% } %>"),tmpl_array.push(' '),tmpl_array.push(' "),tmpl_array.push(' '),tmpl_array.push(' '),tmpl_array.push(' '),tmpl_array.push(' '),tmpl_array.push(" "),tmpl_array.push("
"),tmpl_array.push('
'),tmpl_array.push("
"),tmpl_array.push("
"),_.template(tmpl_array.join(""))},templateLibInfoInModal:function(){return tmpl_array=[],tmpl_array.push('
'),tmpl_array.push("

Library name:

"),tmpl_array.push('

<%- library.get("name") %>

'),tmpl_array.push("

Library description:

"),tmpl_array.push('

<%- library.get("description") %>

'),tmpl_array.push("

Library synopsis:

"),tmpl_array.push('

<%- library.get("synopsis") %>

'),tmpl_array.push('

">created <%- library.get("create_time_pretty") %>

'),tmpl_array.push("
"),_.template(tmpl_array.join(""))},templateNewFolderInModal:function(){return tmpl_array=[],tmpl_array.push('
'),tmpl_array.push("
"),tmpl_array.push(''),tmpl_array.push(''),tmpl_array.push("
"),tmpl_array.push("
"),_.template(tmpl_array.join(""))},templateBulkImportInModal:function(){var a=[];return a.push(''),a.push("Select history: "),a.push('"),a.push(""),_.template(a.join(""))},templateImportIntoHistoryProgressBar:function(){var a=[];return a.push('
'),a.push("Importing selected datasets to history <%= _.escape(history_name) %>"),a.push("
"),a.push('
'),a.push('
'),a.push(' 0% Complete'),a.push("
"),a.push("
"),a.push(""),_.template(a.join(""))},templateAddingDatasetsProgressBar:function(){var a=[];return a.push('
'),a.push("Adding selected datasets to library folder <%= _.escape(folder_name) %>"),a.push("
"),a.push('
'),a.push('
'),a.push(' 0% Complete'),a.push("
"),a.push("
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'),a.push(' 0% Complete'),a.push("
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All files you select will be imported into the current folder.
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You can set extension type and genome for all imported datasets at once:

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"),_.template(a.join(""))},templateImportPathModal:function(){var a=[];return a.push('
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All files within the given folders and their subfolders will be imported into the current folder.
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You can set extension type and genome for all imported datasets at once:

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"),a.push('Type: '),a.push(' Genome: '),a.push("
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"),_.template(a.join(""))},templateAddFilesFromHistory:function(){var a=[];return a.push('
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"),a.push('
'),a.push("
"),a.push("
"),_.template(a.join(""))},templateHistoryContents:function(){var a=[];return a.push("Choose the datasets to import:"),a.push("
    "),a.push(" <% _.each(history_contents, function(history_item) { %>"),a.push('
  • ">'),a.push(' <%= _.escape(history_item.get("hid")) %>: <%= _.escape(history_item.get("name")) %>'), -a.push("
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"),_.template(a.join(""))},templatePaginator:function(){return tmpl_array=[],tmpl_array.push('
    '),tmpl_array.push(" <% if ( ( show_page - 1 ) > 0 ) { %>"),tmpl_array.push(" <% if ( ( show_page - 1 ) > page_count ) { %>"),tmpl_array.push('
    • '),tmpl_array.push('
  • <% print( show_page - 1 ) %>
    • '),tmpl_array.push(" <% } else { %>"),tmpl_array.push('
    • '),tmpl_array.push('
  • <% print( show_page - 1 ) %>
    • '),tmpl_array.push(" <% } %>"),tmpl_array.push(" <% } else { %>"),tmpl_array.push('
    • '),tmpl_array.push('
  • <% print( show_page - 1 ) %>
    • '),tmpl_array.push(" <% } %>"),tmpl_array.push('
  • '),tmpl_array.push(' <% print( show_page ) %>'),tmpl_array.push("
    • "),tmpl_array.push(" <% if ( ( show_page ) < page_count ) { %>"),tmpl_array.push('
  • <% print( show_page + 1 ) %>
    • '),tmpl_array.push('
    • '),tmpl_array.push(" <% } else { %>"),tmpl_array.push('
  • <% print( show_page + 1 ) %>
    • '),tmpl_array.push('
    • '),tmpl_array.push(" <% } %>"),tmpl_array.push("
"),tmpl_array.push(" "),tmpl_array.push(' showing <%- items_shown %> of <%- total_items_count %> items'),tmpl_array.push(" "),_.template(tmpl_array.join(""))}});return{FolderToolbarView:f}}); +define(["galaxy.masthead","utils/utils","libs/toastr","mvc/library/library-model","mvc/ui/ui-select"],function(a,b,c,d,e){var f=Backbone.View.extend({el:"#center",events:{"click #toolbtn_create_folder":"createFolderFromModal","click #toolbtn_bulk_import":"modalBulkImport","click #include_deleted_datasets_chk":"checkIncludeDeleted","click #toolbtn_show_libinfo":"showLibInfo","click #toolbtn_bulk_delete":"deleteSelectedDatasets","click #page_size_prompt":"showPageSizePrompt"},defaults:{can_add_library_item:!1,contains_file_or_folder:!1,chain_call_control:{total_number:0,failed_number:0},disabled_jstree_element:"folders"},modal:null,jstree:null,histories:null,select_genome:null,select_extension:null,list_extensions:[],auto:{id:"auto",text:"Auto-detect",description:"This system will try to detect the file type automatically. If your file is not detected properly as one of the known formats, it most likely means that it has some format problems (e.g., different number of columns on different rows). You can still coerce the system to set your data to the format you think it should be. You can also upload compressed files, which will automatically be decompressed."},list_genomes:[],initialize:function(a){this.options=_.defaults(a||{},this.defaults),this.fetchExtAndGenomes(),this.render()},render:function(a){this.options=_.extend(this.options,a);var b=this.templateToolBar(),c={id:this.options.id,is_admin:!1,is_anonym:!0,mutiple_add_dataset_options:!1};Galaxy.currUser&&(c.is_admin=Galaxy.currUser.isAdmin(),c.is_anonym=Galaxy.currUser.isAnonymous(),(null!==Galaxy.config.user_library_import_dir||Galaxy.config.allow_library_path_paste!==!1||null!==Galaxy.config.library_import_dir)&&(c.mutiple_add_dataset_options=!0)),this.$el.html(b(c))},renderPaginator:function(a){this.options=_.extend(this.options,a);var b=this.templatePaginator();this.$el.find("#folder_paginator").html(b({id:this.options.id,show_page:parseInt(this.options.show_page),page_count:parseInt(this.options.page_count),total_items_count:this.options.total_items_count,items_shown:this.options.items_shown}))},configureElements:function(a){this.options=_.extend(this.options,a),this.options.can_add_library_item===!0?$(".add-library-items").show():$(".add-library-items").hide(),this.options.contains_file_or_folder===!0&&Galaxy.currUser?Galaxy.currUser.isAnonymous()?($(".dataset-manipulation").show(),$(".logged-dataset-manipulation").hide()):($(".logged-dataset-manipulation").show(),$(".dataset-manipulation").show()):($(".logged-dataset-manipulation").hide(),$(".dataset-manipulation").hide()),this.$el.find("[data-toggle]").tooltip()},createFolderFromModal:function(a){a.preventDefault(),a.stopPropagation();var b=this,c=this.templateNewFolderInModal();this.modal=Galaxy.modal,this.modal.show({closing_events:!0,title:"Create New Folder",body:c(),buttons:{Create:function(){b.create_new_folder_event()},Close:function(){Galaxy.modal.hide()}}})},create_new_folder_event:function(){var a=this.serialize_new_folder();if(this.validate_new_folder(a)){var b=new d.FolderAsModel;url_items=Backbone.history.fragment.split("/"),current_folder_id=url_items[url_items.length-1],b.url=b.urlRoot+"/"+current_folder_id,b.save(a,{success:function(a){Galaxy.modal.hide(),c.success("Folder created."),a.set({type:"folder"}),Galaxy.libraries.folderListView.collection.add(a)},error:function(a,b){Galaxy.modal.hide(),c.error("undefined"!=typeof b.responseJSON?b.responseJSON.err_msg:"An error ocurred.")}})}else c.error("Folder's name is missing.");return!1},serialize_new_folder:function(){return{name:$("input[name='Name']").val(),description:$("input[name='Description']").val()}},validate_new_folder:function(a){return""!==a.name},modalBulkImport:function(){var a=$("#folder_table").find(":checked");0===a.length?c.info("You must select some datasets first."):this.refreshUserHistoriesList(function(a){var b=a.templateBulkImportInModal();a.modal=Galaxy.modal,a.modal.show({closing_events:!0,title:"Import into History",body:b({histories:a.histories.models}),buttons:{Import:function(){a.importAllIntoHistory()},Close:function(){Galaxy.modal.hide()}}})})},refreshUserHistoriesList:function(a){var b=this;this.histories=new d.GalaxyHistories,this.histories.fetch({success:function(){a(b)},error:function(a,b){c.error("undefined"!=typeof b.responseJSON?b.responseJSON.err_msg:"An error ocurred.")}})},importAllIntoHistory:function(){this.modal.disableButton("Import");var a=$("select[name=dataset_import_bulk] option:selected").val(),b=$("select[name=dataset_import_bulk] option:selected").text();this.options.last_used_history_id=a;var c=[],e=[];$("#folder_table").find(":checked").each(function(){""!==this.parentElement.parentElement.id&&this.parentElement.parentElement.classList.contains("dataset_row")?c.push(this.parentElement.parentElement.id):""!==this.parentElement.parentElement.id&&this.parentElement.parentElement.classList.contains("folder_row")&&e.push(this.parentElement.parentElement.id)});for(var f=[],g=c.length-1;g>=0;g--){var h=c[g],i=new d.HistoryItem;i.url=i.urlRoot+a+"/contents",i.content=h,i.source="library",f.push(i)}for(var g=e.length-1;g>=0;g--){var j=e[g],i=new d.HistoryItem;i.url=i.urlRoot+a+"/contents",i.content=j,i.source="library_folder",f.push(i)}this.initChainCallControl({length:f.length,action:"to_history",history_name:b}),jQuery.getJSON(galaxy_config.root+"history/set_as_current?id="+a),this.chainCallImportingIntoHistory(f,b)},updateProgress:function(){this.progress+=this.progressStep,$(".progress-bar-import").width(Math.round(this.progress)+"%"),txt_representation=Math.round(this.progress)+"% Complete",$(".completion_span").text(txt_representation)},download:function(a,b){var c=[],d=[];$("#folder_table").find(":checked").each(function(){""!==this.parentElement.parentElement.id&&this.parentElement.parentElement.classList.contains("dataset_row")?c.push(this.parentElement.parentElement.id):""!==this.parentElement.parentElement.id&&this.parentElement.parentElement.classList.contains("folder_row")&&d.push(this.parentElement.parentElement.id)});var e=(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/download/"+b,f={ld_ids:c,folder_ids:d};this.processDownload(e,f,"get")},processDownload:function(a,b,d){if(a&&b){b="string"==typeof b?b:$.param(b);var e="";$.each(b.split("&"),function(){var a=this.split("=");e+=''}),$('
'+e+"
").appendTo("body").submit().remove(),c.info("Your download will begin soon.")}else c.error("An error occurred.")},addFilesFromHistoryModal:function(){this.refreshUserHistoriesList(function(a){a.modal=Galaxy.modal;var b=a.templateAddFilesFromHistory(),d=a.options.full_path[a.options.full_path.length-1][1];a.modal.show({closing_events:!0,title:"Adding datasets from your history to folder "+d,body:b({histories:a.histories.models}),buttons:{Add:function(){a.addAllDatasetsFromHistory()},Close:function(){Galaxy.modal.hide()}},closing_callback:function(){Galaxy.libraries.library_router.back()}}),a.histories.models.length>0?(a.fetchAndDisplayHistoryContents(a.histories.models[0].id),$("#dataset_add_bulk").change(function(b){a.fetchAndDisplayHistoryContents(b.target.value)})):c.error("An error ocurred.")})},importFilesFromPathModal:function(){var a=this;this.modal=Galaxy.modal;var b=this.templateImportPathModal();this.modal.show({closing_events:!0,title:"Please enter paths to import",body:b({}),buttons:{Import:function(){a.importFromPathsClicked(a)},Close:function(){Galaxy.modal.hide()}},closing_callback:function(){Galaxy.libraries.library_router.navigate("folders/"+a.id,{trigger:!0})}}),this.renderSelectBoxes()},fetchExtAndGenomes:function(){var a=this;b.get({url:(window.galaxy_config?galaxy_config.root:"/")+"api/datatypes?extension_only=False",success:function(b){for(key in b)a.list_extensions.push({id:b[key].extension,text:b[key].extension,description:b[key].description,description_url:b[key].description_url});a.list_extensions.sort(function(a,b){return a.id>b.id?1:a.idb.id?1:a.id=0;h--)trimmed=f[h].trim(),0!==trimmed.length&&g.push(trimmed);this.initChainCallControl({length:g.length,action:"adding_datasets"}),this.chainCallImportingFolders({paths:g,preserve_dirs:a,link_data:b,source:"admin_path",file_type:d,dbkey:e})}else c.info("Please enter a path relative to Galaxy root.")},initChainCallControl:function(a){var b;switch(a.action){case"adding_datasets":b=this.templateAddingDatasetsProgressBar(),this.modal.$el.find(".modal-body").html(b({folder_name:this.options.folder_name}));break;case"deleting_datasets":b=this.templateDeletingDatasetsProgressBar(),this.modal.$el.find(".modal-body").html(b());break;case"to_history":b=this.templateImportIntoHistoryProgressBar(),this.modal.$el.find(".modal-body").html(b({history_name:a.history_name}))}this.progress=0,this.progressStep=100/a.length,this.options.chain_call_control.total_number=a.length,this.options.chain_call_control.failed_number=0},importFromJstreePath:function(a,b){var d=$("#jstree_browser").jstree().get_selected(!0),e=this.modal.$el.find(".preserve-checkbox").is(":checked"),f=this.modal.$el.find(".link-checkbox").is(":checked"),g=this.select_extension.value(),h=this.select_genome.value(),i=d[0].type,j=[];if(d.length<1)c.info("Please select some items first.");else{this.modal.disableButton("Import");for(var k=d.length-1;k>=0;k--)void 0!==d[k].li_attr.full_path&&j.push(d[k].li_attr.full_path);if(this.initChainCallControl({length:j.length,action:"adding_datasets"}),"folder"===i){var l=b.source+"_folder";this.chainCallImportingFolders({paths:j,preserve_dirs:e,link_data:f,source:l,file_type:g,dbkey:h})}else if("file"===i){var l=b.source+"_file";this.chainCallImportingUserdirFiles({paths:j,file_type:g,dbkey:h,source:l})}}},fetchAndDisplayHistoryContents:function(a){var b=new d.HistoryContents({id:a}),e=this;b.fetch({success:function(b){var c=e.templateHistoryContents();e.histories.get(a).set({contents:b}),e.modal.$el.find("#selected_history_content").html(c({history_contents:b.models.reverse()}))},error:function(a,b){c.error("undefined"!=typeof b.responseJSON?b.responseJSON.err_msg:"An error ocurred.")}})},addAllDatasetsFromHistory:function(){var a=this.modal.$el.find("#selected_history_content").find(":checked"),b=[],e=[];if(a.length<1)c.info("You must select some datasets first.");else{this.modal.disableButton("Add"),a.each(function(){var a=$(this.parentElement).data("id");a&&b.push(a)});for(var f=b.length-1;f>=0;f--){history_dataset_id=b[f];var g=new d.Item;g.url=(window.galaxy_config?galaxy_config.root:"/")+"api/folders/"+this.options.id+"/contents",g.set({from_hda_id:history_dataset_id}),e.push(g)}this.initChainCallControl({length:e.length,action:"adding_datasets"}),this.chainCallAddingHdas(e)}},chainCallImportingIntoHistory:function(a,b){var d=this,e=a.pop();if("undefined"==typeof e)return 0===this.options.chain_call_control.failed_number?c.success("Selected datasets imported into history. Click this to start analysing it.","",{onclick:function(){window.location="/"}}):this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number?c.error("There was an error and no datasets were imported into history."):this.options.chain_call_control.failed_number=0;i--){var j=new d.Item({id:e[i]});h.push(j)}for(var i=f.length-1;i>=0;i--){var k=new d.FolderAsModel({id:f[i]});h.push(k)}this.options.chain_call_control.total_number=g.length,this.chainCallDeletingItems(h)}},showLibInfo:function(){var a=Galaxy.libraries.folderListView.folderContainer.attributes.metadata.parent_library_id,b=null,e=this;null!==Galaxy.libraries.libraryListView?(b=Galaxy.libraries.libraryListView.collection.get(a),this.showLibInfoModal(b)):(b=new d.Library({id:a}),b.fetch({success:function(){e.showLibInfoModal(b)},error:function(a,b){c.error("undefined"!=typeof b.responseJSON?b.responseJSON.err_msg:"An error ocurred.")}}))},showLibInfoModal:function(a){var b=this.templateLibInfoInModal();this.modal=Galaxy.modal,this.modal.show({closing_events:!0,title:"Library Information",body:b({library:a}),buttons:{Close:function(){Galaxy.modal.hide()}}})},showImportModal:function(a){switch(a.source){case"history":this.addFilesFromHistoryModal();break;case"importdir":this.importFilesFromGalaxyFolderModal({source:"importdir"});break;case"path":this.importFilesFromPathModal();break;case"userdir":this.importFilesFromGalaxyFolderModal({source:"userdir"});break;default:Galaxy.libraries.library_router.back(),c.error("Invalid import source.")}},showPageSizePrompt:function(){var a=prompt("How many items per page do you want to see?",Galaxy.libraries.preferences.get("folder_page_size"));null!=a&&a==parseInt(a)&&(Galaxy.libraries.preferences.set({folder_page_size:parseInt(a)}),Galaxy.libraries.folderListView.render({id:this.options.id,show_page:1}))},templateToolBar:function(){return tmpl_array=[],tmpl_array.push('
'),tmpl_array.push('
'),tmpl_array.push(" DATA LIBRARIES"),tmpl_array.push(' '),tmpl_array.push(' '),tmpl_array.push("<% if(mutiple_add_dataset_options) { %>"),tmpl_array.push(' "),tmpl_array.push("<% } else { %>"),tmpl_array.push(' '),tmpl_array.push("<% } %>"),tmpl_array.push(' '),tmpl_array.push(' "),tmpl_array.push(' '),tmpl_array.push(' '),tmpl_array.push(' '),tmpl_array.push(' '),tmpl_array.push(" "),tmpl_array.push("
"),tmpl_array.push('
'),tmpl_array.push("
"),tmpl_array.push("
"),_.template(tmpl_array.join(""))},templateLibInfoInModal:function(){return tmpl_array=[],tmpl_array.push('
'),tmpl_array.push("

Library name:

"),tmpl_array.push('

<%- library.get("name") %>

'),tmpl_array.push("

Library description:

"),tmpl_array.push('

<%- library.get("description") %>

'),tmpl_array.push("

Library synopsis:

"),tmpl_array.push('

<%- library.get("synopsis") %>

'),tmpl_array.push('

">created <%- library.get("create_time_pretty") %>

'),tmpl_array.push("
"),_.template(tmpl_array.join(""))},templateNewFolderInModal:function(){return tmpl_array=[],tmpl_array.push('
'),tmpl_array.push("
"),tmpl_array.push(''),tmpl_array.push(''),tmpl_array.push("
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'),a.push(' 0% Complete'),a.push("
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All files you select will be imported into the current folder.
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You can set extension type and genome for all imported datasets at once:

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All files within the given folders and their subfolders will be imported into the current folder.
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You can set extension type and genome for all imported datasets at once:

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'),a.push("
"),a.push("
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  • <% print( show_page - 1 ) %>
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    • '),tmpl_array.push('
  • <% print( show_page - 1 ) %>
    • '),tmpl_array.push(" <% } %>"),tmpl_array.push(" <% } else { %>"),tmpl_array.push('
    • '),tmpl_array.push('
  • <% print( show_page - 1 ) %>
    • '),tmpl_array.push(" <% } %>"),tmpl_array.push('
  • '),tmpl_array.push(' <% print( show_page ) %>'),tmpl_array.push("
    • "),tmpl_array.push(" <% if ( ( show_page ) < page_count ) { %>"),tmpl_array.push('
  • <% print( show_page + 1 ) %>
    • '),tmpl_array.push('
    • '),tmpl_array.push(" <% } else { %>"),tmpl_array.push('
  • <% print( show_page + 1 ) %>
    • '),tmpl_array.push('
    • '),tmpl_array.push(" <% } %>"),tmpl_array.push("
"),tmpl_array.push(" "),tmpl_array.push(' showing <%- items_shown %> of <%- total_items_count %> items'),tmpl_array.push(" "),_.template(tmpl_array.join(""))}});return{FolderToolbarView:f}}); //# sourceMappingURL=../../../maps/mvc/library/library-foldertoolbar-view.js.map \ No newline at end of file diff --git a/static/scripts/mvc/library/library-model.js b/static/scripts/mvc/library/library-model.js index e53804e40592..274df2c8ff78 100644 --- a/static/scripts/mvc/library/library-model.js +++ b/static/scripts/mvc/library/library-model.js @@ -1,2 +1,2 @@ -define([],function(){var a=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/",isVisible:function(a){var b=!0;return!a&&this.get("deleted")&&(b=!1),b}}),b=Backbone.Collection.extend({url:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries",model:a,sort_key:"name",sort_order:null,initialize:function(a){a=a||{}},getVisible:function(a,c){c=c||[];var d=new b(this.filter(function(b){return b.isVisible(a)}));return d},sortByNameAsc:function(){return this.comparator=function(a,b){return a.get("name").toLowerCase()>b.get("name").toLowerCase()?1:b.get("name").toLowerCase()>a.get("name").toLowerCase()?-1:0},this.sort(),this},sortByNameDesc:function(){return this.comparator=function(a,b){return a.get("name").toLowerCase()>b.get("name").toLowerCase()?-1:b.get("name").toLowerCase()>a.get("name").toLowerCase()?1:0},this.sort(),this}}),c=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"}),d=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"}),e=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/folders"}),f=Backbone.Collection.extend({model:c,sortByNameAsc:function(){return this.comparator=function(a,b){return a.get("type")===b.get("type")?a.get("name").toLowerCase()>b.get("name").toLowerCase()?1:b.get("name").toLowerCase()>a.get("name").toLowerCase()?-1:0:"folder"===a.get("type")?-1:1},this.sort(),this},sortByNameDesc:function(){return this.comparator=function(a,b){return a.get("type")===b.get("type")?a.get("name").toLowerCase()>b.get("name").toLowerCase()?-1:b.get("name").toLowerCase()>a.get("name").toLowerCase()?1:0:"folder"===a.get("type")?-1:1},this.sort(),this}}),g=Backbone.Model.extend({defaults:{folder:new f,urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/folders/",id:"unknown"},parse:function(a){return this.get("folder").reset(a.folder_contents),a}}),h=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/histories/"}),i=Backbone.Collection.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/histories/",initialize:function(a){this.id=a.id},url:function(){return this.urlRoot+this.id+"/contents"},model:h}),j=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/histories/"}),k=Backbone.Collection.extend({url:(window.galaxy_config?galaxy_config.root:"/")+"api/histories",model:j}),l=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/remote_files"});return{Library:a,FolderAsModel:e,Libraries:b,Item:c,Ldda:d,Folder:f,FolderContainer:g,HistoryItem:h,HistoryContents:i,GalaxyHistory:j,GalaxyHistories:k,Jstree:l}}); +define([],function(){var a=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/",isVisible:function(a){var b=!0;return!a&&this.get("deleted")&&(b=!1),b}}),b=Backbone.Collection.extend({url:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries",model:a,sort_key:"name",sort_order:null,initialize:function(a){a=a||{}},getVisible:function(a,c){c=c||[];var d=new b(this.filter(function(b){return b.isVisible(a)}));return d},sortByNameAsc:function(){return this.comparator=function(a,b){return a.get("name").toLowerCase()>b.get("name").toLowerCase()?1:b.get("name").toLowerCase()>a.get("name").toLowerCase()?-1:0},this.sort(),this},sortByNameDesc:function(){return this.comparator=function(a,b){return a.get("name").toLowerCase()>b.get("name").toLowerCase()?-1:b.get("name").toLowerCase()>a.get("name").toLowerCase()?1:0},this.sort(),this}}),c=Backbone.Model.extend({}),d=c.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"}),e=c.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/folders/"}),f=Backbone.Collection.extend({model:c,sortByNameAsc:function(){return this.comparator=function(a,b){return a.get("type")===b.get("type")?a.get("name").toLowerCase()>b.get("name").toLowerCase()?1:b.get("name").toLowerCase()>a.get("name").toLowerCase()?-1:0:"folder"===a.get("type")?-1:1},this.sort(),this},sortByNameDesc:function(){return this.comparator=function(a,b){return a.get("type")===b.get("type")?a.get("name").toLowerCase()>b.get("name").toLowerCase()?-1:b.get("name").toLowerCase()>a.get("name").toLowerCase()?1:0:"folder"===a.get("type")?-1:1},this.sort(),this}}),g=Backbone.Model.extend({defaults:{folder:new f,urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/folders/",id:"unknown"},parse:function(a){this.get("folder").reset();for(var b=0;b