From 04bb1e85cd16a04d6968c8d10755bd5e142831b1 Mon Sep 17 00:00:00 2001 From: John Chilton Date: Thu, 11 May 2017 15:33:56 -0400 Subject: [PATCH] [17.05] Fix FTP upload of multiple files in collection uploader. --- .../scripts/mvc/upload/collection/collection-view.js | 9 +++++---- static/maps/mvc/upload/collection/collection-view.js.map | 2 +- static/scripts/bundled/analysis.bundled.js | 4 ++-- static/scripts/bundled/analysis.bundled.js.map | 2 +- static/scripts/bundled/libs.bundled.js | 2 +- static/scripts/bundled/libs.bundled.js.map | 2 +- static/scripts/bundled/login.bundled.js.map | 2 +- static/scripts/mvc/upload/collection/collection-view.js | 2 +- 8 files changed, 13 insertions(+), 12 deletions(-) diff --git a/client/galaxy/scripts/mvc/upload/collection/collection-view.js b/client/galaxy/scripts/mvc/upload/collection/collection-view.js index e9ecc24305c..b28a26eb2cf 100644 --- a/client/galaxy/scripts/mvc/upload/collection/collection-view.js +++ b/client/galaxy/scripts/mvc/upload/collection/collection-view.js @@ -130,10 +130,9 @@ function( Utils, UploadModel, UploadRow, UploadFtp, Popover, Select, Ui, LIST_CO /** Success */ _eventSuccess: function( index, message ) { // var hdaId = message["outputs"][0]["id"]; - var hid = message["outputs"][0]["hid"]; - console.log(message["outputs"][0]); + var hids = _.pluck(message["outputs"], "hid"); var it = this.collection.get( index ); - it.set( { 'percentage': 100, 'status': 'success', 'hid': hid } ); + it.set( { 'percentage': 100, 'status': 'success', 'hids': hids } ); this.ui_button.model.set( 'percentage', this._uploadPercentage( 100, it.get( 'file_size' ) ) ); this.upload_completed += it.get( 'file_size' ) * 100; this.counter.announce--; @@ -161,7 +160,9 @@ function( Utils, UploadModel, UploadRow, UploadFtp, Popover, Select, Ui, LIST_CO }, _eventBuild: function() { - var models = this.collection.map( function( upload ) { return Galaxy.currHistoryPanel.collection.getByHid( upload.get( 'hid' ) ) } ); + var allHids = []; + _.forEach( this.collection.models, function( upload ) { allHids.push.apply(allHids, upload.get( 'hids' )); } ); + var models = _.map( allHids, function( hid ) { return Galaxy.currHistoryPanel.collection.getByHid( hid ) } ); var selection = new Galaxy.currHistoryPanel.collection.constructor( models ); // I'm building the selection wrong because I need to set this historyId directly. selection.historyId = Galaxy.currHistoryPanel.collection.historyId; diff --git a/static/maps/mvc/upload/collection/collection-view.js.map b/static/maps/mvc/upload/collection/collection-view.js.map index e91576b0473..a47e6934c31 100644 --- a/static/maps/mvc/upload/collection/collection-view.js.map +++ b/static/maps/mvc/upload/collection/collection-view.js.map @@ -1 +1 @@ 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i.create_time&&(i.create_time=new Date(i.create_time)),i.update_time&&(i.update_time=new Date(i.update_time)),i},save:function(e,t){return t=t||{},t.wait=!!a.isUndefined(t.wait)||t.wait,o.Model.prototype.save.call(this,e,t)},delete:function(e){return this.get("deleted")?r.when():this.save({deleted:!0},e)},undelete:function(e){return!this.get("deleted")||this.get("purged")?r.when():this.save({deleted:!1},e)},purge:function(e){if(this.get("purged"))return r.when();e=e||{},e.url=this.urls.purge;var t=this,n=r.ajax(e);return n.done(function(e,i,n){t.set({deleted:!0,purged:!0})}),n.fail(function(n,s,o){var a=i("Unable to purge dataset"),r="Removal of datasets by users is not allowed in this Galaxy 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o=this.chain().reverse().map(function(a,r){return function(){var l=e.call(a,t);l.done(function(e){i.notify({curr:r,total:n,response:e,model:a})}),l.always(function(e){s.push(e),o.length?o.shift()():i.resolve(s)})}}).value();return o.shift()(),i},matches:function(e){return this.filter(function(t){return t.matches(e)})},toString:function(){return["DatasetAssociationCollection(",this.length,")"].join("")}});return{DatasetAssociation:l,DatasetAssociationCollection:c}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(3),i(2),i(1))},function(e,t,i){var n,s;(function(o){n=[i(36),i(6),i(5)],s=function(e,t,i){"use strict";var n=e.DatasetListItemView,s=n.extend({className:n.prototype.className+" history-content",initialize:function(e,t){n.prototype.initialize.call(this,e,t)},toString:function(){var e=this.model?this.model+"":"(no model)";return"HDAListItemView("+e+")"}});return s.prototype.templates=function(){var e=t.wrapTemplate(['
','','
','<%- dataset.hid %> ','<%- dataset.name %>',"
","
",'',"<% _.each(dataset.tags, function(tag){ %>",'<% if (tag.indexOf("name:") == 0){ %>','<%- tag.slice(5) %>',"<% } %>","<% }); %>","","
"],"dataset"),s=o.extend({},n.prototype.templates.warnings,{hidden:t.wrapTemplate(["<% if( !dataset.visible ){ %>",'
',i("This dataset has been hidden"),"
","<% } %>"],"dataset")});return o.extend({},n.prototype.templates,{titleBar:e,warnings:s})}(),{HDAListItemView:s}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(2))},function(e,t,i){var n,s;(function(o){n=[i(75),i(79),i(6),i(5)],s=function(e,t,i,n){"use strict";var s=e.DatasetAssociation,a=t.HistoryContentMixin,r=s.extend(i.mixin(a,{defaults:o.extend({},s.prototype.defaults,a.defaults,{history_content_type:"dataset",model_class:"HistoryDatasetAssociation"})}));return{HistoryDatasetAssociation:r}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(2))},function(e,t,i){var n,s;(function(o){n=[i(12),i(33),i(73),i(6),i(5)],s=function(e,t,i,n,s){"use strict";var a=t.DCListItemView,r=a.extend({className:a.prototype.className+" history-content",_setUpListeners:function(){a.prototype._setUpListeners.call(this),this.listenTo(this.model,{"change:tags change:populated change:visible":function(e,t){this.render()}})},_getFoldoutPanelClass:function(){switch(this.model.get("collection_type")){case"list":return i.ListCollectionView;case"paired":return i.PairCollectionView;case"list:paired":return i.ListOfPairsCollectionView;case"list:list":return i.ListOfListsCollectionView}throw new TypeError("Uknown collection_type: "+this.model.get("collection_type"))},_swapNewRender:function(t){a.prototype._swapNewRender.call(this,t);var i=this.model.get("populated")?e.OK:e.RUNNING;return this.$el.addClass("state-"+i),this.$el},toString:function(){var e=this.model?this.model+"":"(no model)";return"HDCAListItemView("+e+")"}});return r.prototype.templates=function(){var e=o.extend({},a.prototype.templates.warnings,{hidden:n.wrapTemplate(["<% if( !collection.visible ){ %>",'
',s("This collection has been hidden"),"
","<% } %>"],"collection")}),t=n.wrapTemplate(['
','','
','<%- collection.hid %> ','<%- collection.name %>',"
",'
','',"<% _.each(collection.tags, function(tag){ %>",'<% if (tag.indexOf("name:") == 0){ %>','<%- tag.slice(5) %>',"<% } %>","<% }); %>","","
"],"collection");return o.extend({},a.prototype.templates,{warnings:e,titleBar:t})}(),{HDCAListItemView:r}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(2))},function(e,t,i){var n,s;(function(o){n=[i(12),i(6),i(5)],s=function(e,t,i){"use strict";var n={defaults:{history_id:null,history_content_type:null,hid:null,visible:!0},idAttribute:"type_id",hidden:function(){return!this.get("visible")},isVisible:function(e,t){var i=!0;return e||!this.get("deleted")&&!this.get("purged")||(i=!1),t||this.get("visible")||(i=!1),i},urlRoot:Galaxy.root+"api/histories/",url:function(){var e=this.urlRoot+this.get("history_id")+"/contents/"+this.get("history_content_type")+"s/"+this.get("id");return e},hide:function(e){return this.get("visible")?this.save({visible:!1},e):o.when()},unhide:function(e){return this.get("visible")?o.when():this.save({visible:!0},e)},toString:function(){return[this.get("type_id"),this.get("hid"),this.get("name")].join(":")}};return{HistoryContentMixin:n}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(1))},function(e,t,i){var n,s;(function(o,a,r,l){n=[i(43),i(44),i(71),i(4),i(6),i(5)],s=function(e,t,i,n,s,c){"use strict";var d=o.Model.extend(s.LoggableMixin).extend(s.mixin(s.SearchableModelMixin,{_logNamespace:"history",UPDATE_DELAY:4e3,defaults:{model_class:"History",id:null,name:"Unnamed History",state:"new",deleted:!1,contents_active:{},contents_states:{}},urlRoot:Galaxy.root+"api/histories",contentsClass:e.HistoryContents,searchAttributes:["name","annotation","tags"],searchAliases:{title:"name",tag:"tags"},initialize:function(e,t){t=t||{},this.logger=t.logger||null,this.log(this+".initialize:",e,t),this.contents=new this.contentsClass([],{history:this,historyId:this.get("id"),order:t.order}),this._setUpListeners(),this._setUpCollectionListeners(),this.updateTimeoutId=null},_setUpListeners:function(){return this.on({error:function(e,t,i,n,s){this.clearUpdateTimeout()},"change:id":function(e,t){this.contents&&(this.contents.historyId=t)}})},_setUpCollectionListeners:function(){return this.contents?this.listenTo(this.contents,{error:function(){this.trigger.apply(this,a.makeArray(arguments))}}):this},contentsShown:function(){var e=this.get("contents_active"),t=e.active||0;return t+=this.contents.includeDeleted?e.deleted:0,t+=this.contents.includeHidden?e.hidden:0},nice_size:function(){var e=this.get("size");return e?n.bytesToString(e,!0,2):c("(empty)")},toJSON:function(){return r.extend(o.Model.prototype.toJSON.call(this),{nice_size:this.nice_size()})},get:function(e){return"nice_size"===e?this.nice_size():o.Model.prototype.get.apply(this,arguments)},ownedByCurrUser:function(){return!(!Galaxy||!Galaxy.user)&&(!Galaxy.user.isAnonymous()&&Galaxy.user.id===this.get("user_id"))},numOfUnfinishedJobs:function(){var e=this.get("non_ready_jobs");return e?e.length:0},numOfUnfinishedShownContents:function(){return this.contents.runningAndActive().length||0},_fetchContentRelatedAttributes:function(){var e=["size","non_ready_jobs","contents_active","hid_counter"];return this.fetch({data:l.param({keys:e.join(",")})})},refresh:function(e){e=e||{};var t=this,i=t.lastUpdateTime;this.contents.allFetched=!1;var n=0!==t.contents.currentPage?function(){return t.contents.fetchPage(t.contents.currentPage)}:function(){return t.contents.fetchUpdated(i)};return n().done(function(i,n,s){var o;try{o=new Date(s.getResponseHeader("Date"))}catch(e){}t.lastUpdateTime=o||new Date,t.checkForUpdates(e)})},checkForUpdates:function(e){function t(){n.clearUpdateTimeout(),n.updateTimeoutId=setTimeout(function(){n.refresh(e)},i)}e=e||{};var i=this.UPDATE_DELAY,n=this;if(n.id){var s=this.numOfUnfinishedShownContents();s>0?t():n._fetchContentRelatedAttributes().done(function(e){n.numOfUnfinishedJobs()>0?t():n.trigger("ready")})}},clearUpdateTimeout:function(){this.updateTimeoutId&&(clearTimeout(this.updateTimeoutId),this.updateTimeoutId=null)},parse:function(e,t){var i=o.Model.prototype.parse.call(this,e,t);return i.create_time&&(i.create_time=new Date(i.create_time)),i.update_time&&(i.update_time=new Date(i.update_time)),i},fetchWithContents:function(e,t){e=e||{};var i=this;return e.view="dev-detailed",this.fetch(e).then(function(e){return i.contents.history=i,i.contents.setHistoryId(e.id),i.fetchContents(t)})},fetchContents:function(e){e=e||{};var t=this;return t.lastUpdateTime=new Date,t.contents.fetchCurrentPage(e)},_delete:function(e){return this.get("deleted")?a.when():this.save({deleted:!0},e)},purge:function(e){return this.get("purged")?a.when():this.save({deleted:!0,purged:!0},e)},undelete:function(e){return this.get("deleted")?this.save({deleted:!1},e):a.when()},copy:function(e,t,i){if(e=void 0===e||e,!this.id)throw new Error("You must set the history ID before copying it.");var n={history_id:this.id};e&&(n.current=!0),t&&(n.name=t),i||(n.all_datasets=!1),n.view="dev-detailed";var s=this,o=a.post(this.urlRoot,n);return e?o.then(function(e){var t=new d(e);return t.setAsCurrent().done(function(){s.trigger("copied",s,e)})}):o.done(function(e){s.trigger("copied",s,e)})},setAsCurrent:function(){var e=this,t=a.getJSON(Galaxy.root+"history/set_as_current?id="+this.id);return t.done(function(){e.trigger("set-as-current",e)}),t},toString:function(){return"History("+this.get("id")+","+this.get("name")+")"}})),h=i.InfinitelyScrollingCollection,u=h.extend(s.LoggableMixin).extend({_logNamespace:"history",model:d,order:"update_time",limitOnFirstFetch:10,limitPerFetch:10,initialize:function(e,t){t=t||{},this.log("HistoryCollection.initialize",e,t),h.prototype.initialize.call(this,e,t),this.includeDeleted=t.includeDeleted||!1,this.currentHistoryId=t.currentHistoryId,this.setUpListeners()},urlRoot:Galaxy.root+"api/histories",url:function(){return this.urlRoot},setUpListeners:function(){return this.on({"change:deleted":function(e){this.debug("change:deleted",this.includeDeleted,e.get("deleted")),!this.includeDeleted&&e.get("deleted")&&this.remove(e)},copied:function(e,t){this.setCurrent(new d(t,[]))},"set-as-current":function(e){var t=this.currentHistoryId;this.trigger("no-longer-current",t),this.currentHistoryId=e.id}})},_buildFetchData:function(e){return r.extend(h.prototype._buildFetchData.call(this,e),{view:"dev-detailed"})},_buildFetchFilters:function(e){var t=h.prototype._buildFetchFilters.call(this,e)||{},i={};return this.includeDeleted?i.deleted=null:(i.deleted=!1,i.purged=!1),r.defaults(t,i)},fetchFirst:function(e){var t=this,i=l.when();return this.currentHistoryId&&(i=h.prototype.fetchFirst.call(t,{silent:!0,limit:1,filters:{purged:"",deleted:"","encoded_id-in":this.currentHistoryId}})),i.then(function(){return e=e||{},e.offset=0,t.fetchMore(e)})},comparators:r.extend(r.clone(h.prototype.comparators),{name:s.buildComparator("name",{ascending:!0}),"name-dsc":s.buildComparator("name",{ascending:!1}),size:s.buildComparator("size",{ascending:!1}),"size-asc":s.buildComparator("size",{ascending:!0})}),sort:function(e){e=e||{};var t=e.silent,i=this.remove(this.get(this.currentHistoryId));return h.prototype.sort.call(this,r.defaults({silent:!0},e)),this.unshift(i,{silent:!0}),t||this.trigger("sort",this,e),this},create:function(e,t,i,n){var s=this,o=a.getJSON(Galaxy.root+"history/create_new_current");return o.done(function(e){s.setCurrent(new d(e,[],i||{}))})},setCurrent:function(e,t){return t=t||{},this.unshift(e,t),this.currentHistoryId=e.get("id"),t.silent||this.trigger("new-current",e,this),this},toString:function(){return"HistoryCollection("+this.length+",current:"+this.currentHistoryId+")"}});return{History:d,HistoryCollection:u}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(3),i(1),i(2),i(1))},function(e,t,i){var n,s;(function(o,a,r){n=[i(45),i(134),i(6),i(5),i(88)],s=function(e,t,i,n){"use strict";var s="list",l=o.View.extend(i.LoggableMixin).extend({_logNamespace:s,viewClass:e.ListItemView,collectionClass:o.Collection,tagName:"div",className:"list-panel",fxSpeed:"fast",emptyMsg:n("This list is empty"),noneFoundMsg:n("No matching items found"),searchPlaceholder:n("search"),initialize:function(e,t){e=e||{},e.logger&&(this.logger=e.logger),this.log(this+".initialize:",e),this.fxSpeed=a.has(e,"fxSpeed")?e.fxSpeed:this.fxSpeed,this.filters=[],this.searchFor=e.searchFor||"",this.selecting=void 0===e.selecting||e.selecting,this.selected=e.selected||[],this.lastSelected=null,this.dragItems=e.dragItems||!1,this.viewClass=e.viewClass||this.viewClass,this.views=[],this.collection=e.collection||this._createDefaultCollection(),this.filters=e.filters||[],this.$scrollContainer=e.$scrollContainer||this.$scrollContainer,this.title=e.title||"",this.subtitle=e.subtitle||"",this._setUpListeners()},_setUpListeners:function(){return this.off(),this.on({error:function(e,t,i,n,s){console.error(e,t,i,n,s)},loading:function(){this._showLoadingIndicator("loading...",40)},"loading-done":function(){this._hideLoadingIndicator(40)}}),this.once("rendered",function(){this.trigger("rendered:initial",this)}),this._setUpCollectionListeners(),this._setUpViewListeners(),this},_createDefaultCollection:function(){return new this.collectionClass([])},_setUpCollectionListeners:function(){return this.log(this+"._setUpCollectionListeners",this.collection),this.stopListening(this.collection),this.listenTo(this.collection,{error:function(e,t,i,n,s){this.trigger("error",e,t,i,n,s)},update:function(e,t){var i=t.changes;return t.renderAll||i.added.length+i.removed.length>1?this.renderItems():1===i.added.length?this.addItemView(a.first(i.added),e,t):1===i.removed.length?this.removeItemView(a.first(i.removed),e,t):void 0}}),this},_setUpViewListeners:function(){this.log(this+"._setUpViewListeners"),this.on({"view:selected":function(e,t){if(t&&t.shiftKey&&this.lastSelected){var i=this.viewFromModelId(this.lastSelected);i&&this.selectRange(e,i)}else t&&t.altKey&&!this.selecting&&this.showSelectors();this.selected.push(e.model.id),this.lastSelected=e.model.id},"view:de-selected":function(e,t){this.selected=a.without(this.selected,e.model.id)}})},render:function(e){this.log(this+".render",e);var t=this._buildNewRender();return this._setUpBehaviors(t),this._queueNewRender(t,e),this},_buildNewRender:function(){this.debug(this+"(ListPanel)._buildNewRender");var e=r(this.templates.el({},this));return this._renderControls(e),this._renderTitle(e),this._renderSubtitle(e),this._renderSearch(e),this.renderItems(e),e},_renderControls:function(e){this.debug(this+"(ListPanel)._renderControls");var t=r(this.templates.controls({},this));return e.find(".controls").replaceWith(t),t},_renderTitle:function(e){},_renderSubtitle:function(e){},_queueNewRender:function(e,t){t=void 0===t?this.fxSpeed:t;var i=this;i.log("_queueNewRender:",e,t),r(i).queue("fx",[function(e){i.$el.fadeOut(t,e)},function(t){i._swapNewRender(e),t()},function(e){i.$el.fadeIn(t,e)},function(e){i.trigger("rendered",i),e()}])},_swapNewRender:function(e){return this.$el.empty().attr("class",this.className).append(e.children()),this.selecting&&this.showSelectors(0),this},_setUpBehaviors:function(e){return e=e||this.$el,this.$controls(e).find("[title]").tooltip(),this._renderMultiselectActionMenu(e),this},_renderMultiselectActionMenu:function(e){e=e||this.$el;var t=e.find(".list-action-menu"),i=this.multiselectActions();if(!i.length)return t.empty();var s=r(['
','",'","
"].join("")),o=i.map(function(e){var t=['
  • ',e.html,"
    • "].join("");return r(t).click(function(t){return t.preventDefault(),e.func(t)})});return s.find("ul").append(o),t.replaceWith(s),s},multiselectActions:function(){return[]},$scrollContainer:function(e){return(e||this.$el).parent().parent()},$controls:function(e){return(e||this.$el).find("> .controls")},$list:function(e){return(e||this.$el).find("> .list-items")},$messages:function(e){return(e||this.$el).find("> .controls .messages")},$emptyMessage:function(e){return(e||this.$el).find("> .empty-message")},renderItems:function(e){e=e||this.$el;var t=this;t.log(this+".renderItems",e);var i=t.$list(e);t.freeViews();var n=t._filterCollection();return t.views=n.map(function(e){var i=t._createItemView(e);return i}),i.empty(),t.views.length&&t._attachItems(e),t._renderEmptyMessage(e).toggle(!t.views.length),t.trigger("views:ready",t.views),t.views},_filterCollection:function(){var e=this;return e.collection.filter(a.bind(e._filterItem,e))},_filterItem:function(e){var t=this;return a.every(t.filters.map(function(t){return t.call(e)}))&&(!t.searchFor||e.matchesAll(t.searchFor))},_createItemView:function(e){var t=this._getItemViewClass(e),i=a.extend(this._getItemViewOptions(e),{model:e}),n=new t(i);return this._setUpItemViewListeners(n),n},_destroyItemView:function(e){this.stopListening(e),this.views=a.without(this.views,e)},_destroyItemViews:function(e){var t=this;return t.views.forEach(function(e){t.stopListening(e)}),t.views=[],t},freeViews:function(){return this._destroyItemViews()},_getItemViewClass:function(e){return this.viewClass},_getItemViewOptions:function(e){return{fxSpeed:this.fxSpeed,expanded:!1,selectable:this.selecting,selected:a.contains(this.selected,e.id),draggable:this.dragItems}},_setUpItemViewListeners:function(e){var t=this;return this.listenTo(e,"all",function(){var e=Array.prototype.slice.call(arguments,0);e[0]="view:"+e[0],t.trigger.apply(t,e)}),this.listenTo(e,"draggable:dragstart",function(e,t){var i={},n=this.getSelectedModels();i=n.length?n.toJSON():[t.model.toJSON()],e.dataTransfer.setData("text",JSON.stringify(i))},this),t},_attachItems:function(e){var t=this;return this.$list(e).append(this.views.map(function(e){return t._renderItemView$el(e)})),this},_renderItemView$el:function(e){return e.render(0).$el},_renderEmptyMessage:function(e){this.debug("_renderEmptyMessage",e,this.searchFor);var t=this.searchFor?this.noneFoundMsg:this.emptyMsg;return this.$emptyMessage(e).text(t)},expandAll:function(){a.each(this.views,function(e){e.expand()})},collapseAll:function(){a.each(this.views,function(e){e.collapse()})},addItemView:function(e,t,i){var n=this,s=n._filterCollection().indexOf(e);if(s!==-1){var o=n._createItemView(e);return r(o).queue("fx",[function(e){n.$emptyMessage().is(":visible")?n.$emptyMessage().fadeOut(n.fxSpeed,e):e()},function(e){n._attachView(o,s),e()}]),o}},_attachView:function(e,t,i){i=!!a.isUndefined(i)||i,t=t||0;var n=this;return n.views.splice(t,0,e),n._insertIntoListAt(t,n._renderItemView$el(e).hide()),n.trigger("view:attached",e),i?e.$el.slideDown(n.fxSpeed,function(){n.trigger("view:attached:rendered")}):(e.$el.show(),n.trigger("view:attached:rendered")),e},_insertIntoListAt:function(e,t){var i=this.$list();return 0===e?i.prepend(t):i.children().eq(e-1).after(t),t},removeItemView:function(e,t,i){var n=this,s=a.find(n.views,function(t){return t.model===e});if(s)return n.views=a.without(n.views,s),n.trigger("view:removed",s),r({}).queue("fx",[function(e){s.$el.fadeOut(n.fxSpeed,e)},function(e){s.remove(),n.trigger("view:removed:rendered"),n.views.length?e():n._renderEmptyMessage().fadeIn(n.fxSpeed,e)}]),s},viewFromModelId:function(e){return a.find(this.views,function(t){return t.model.id===e})},viewFromModel:function(e){return e?this.viewFromModelId(e.id):void 0},viewsWhereModel:function(e){return this.views.filter(function(t){return a.isMatch(t.model.attributes,e)})},viewRange:function(e,t){if(e===t)return e?[e]:[];var i=this.views.indexOf(e),n=this.views.indexOf(t);return i===-1||n===-1?i===n?[]:i===-1?[t]:[e]:i .controls .search-query");return i.val()!==e&&i.val(e),this},clearSearch:function(e){return this.searchFor="",this.trigger("search:clear",this),this.$("> .controls .search-query").val(""),this.renderItems(),this},THROTTLE_SELECTOR_FX_AT:20,showSelectors:function(e){e=void 0!==e?e:this.fxSpeed,this.selecting=!0,this.$(".list-actions").slideDown(e),e=this.views.length>=this.THROTTLE_SELECTOR_FX_AT?0:e,a.each(this.views,function(t){t.showSelector(e)})},hideSelectors:function(e){e=void 0!==e?e:this.fxSpeed,this.selecting=!1,this.$(".list-actions").slideUp(e),e=this.views.length>=this.THROTTLE_SELECTOR_FX_AT?0:e,a.each(this.views,function(t){t.hideSelector(e)}),this.selected=[],this.lastSelected=null},toggleSelectors:function(){this.selecting?this.hideSelectors():this.showSelectors()},selectAll:function(e){a.each(this.views,function(t){t.select(e)})},deselectAll:function(e){this.lastSelected=null,a.each(this.views,function(t){t.deselect(e)})},selectRange:function(e,t){var i=this.viewRange(e,t);return a.each(i,function(e){e.select()}),i},getSelectedViews:function(){return a.filter(this.views,function(e){return e.selected})},getSelectedModels:function(){return new this.collection.constructor(a.map(this.getSelectedViews(),function(e){return e.model}))},_showLoadingIndicator:function(e,i,n){this.debug("_showLoadingIndicator",this.indicator,e,i,n),i=void 0!==i?i:this.fxSpeed,this.indicator||(this.indicator=new t(this.$el),this.debug("\t created",this.indicator)),this.$el.is(":visible")?(this.$el.fadeOut(i),this.indicator.show(e,i,n)):this.indicator.show(0,n)},_hideLoadingIndicator:function(e,t){this.debug("_hideLoadingIndicator",this.indicator,e,t),e=void 0!==e?e:this.fxSpeed,this.indicator&&this.indicator.hide(e,t)},scrollPosition:function(){return this.$scrollContainer().scrollTop()},scrollTo:function(e,t){return t=t||0,this.$scrollContainer().animate({scrollTop:e},t),this},scrollToTop:function(e){return this.scrollTo(0,e)},scrollToItem:function(e,t){return e?this:this},scrollToId:function(e,t){return this.scrollToItem(this.viewFromModelId(e),t)},events:{"click .select-all":"selectAll","click .deselect-all":"deselectAll"},toString:function(){return"ListPanel("+this.collection+")"}});l.prototype.templates=function(){var e=i.wrapTemplate(["
    ",'
    ','
    ','
    ',"
    "]),t=i.wrapTemplate(['
    ','
    ','
    <%- view.title %>
    ',"
    ",'
    <%- view.subtitle %>
    ','
    ','
    ','
    ','
    ',"
    ",'
    ','
    ','",'","
    ",'
    ',"
    ","
    ","
    "]);return{el:e,controls:t}}();var c=l.extend({modelCollectionKey:"contents",initialize:function(e){l.prototype.initialize.call(this,e),this.selecting=void 0!==e.selecting&&e.selecting,this.setModel(this.model,e)},setModel:function(e,t){if(t=t||{},this.debug(this+".setModel:",e,t),this.freeModel(),this.freeViews(),e){var i=this.model?this.model.get("id"):null;this.model=e,this.logger&&(this.model.logger=this.logger),this._setUpModelListeners(),this.stopListening(this.collection),this.collection=this.model[this.modelCollectionKey]||t.collection||this._createDefaultCollection(),this._setUpCollectionListeners(),i&&e.get("id")!==i&&this.trigger("new-model",this)}return this},freeModel:function(){return this.model&&this.stopListening(this.model),this},_setUpModelListeners:function(){return this.log(this+"._setUpModelListeners",this.model),this.listenTo(this.model,"error",function(){var e=Array.prototype.slice.call(arguments,0);e.unshift("error"),this.trigger.apply(this,e)},this),this.logger&&this.listenTo(this.model,"all",function(e){this.info(this+"(model)",e,arguments)}),this},_renderControls:function(e){this.debug(this+"(ModelListPanel)._renderControls");var t=this.model?this.model.toJSON():{},i=r(this.templates.controls(t,this));return e.find(".controls").replaceWith(i),i},toString:function(){return"ModelListPanel("+this.model+")"}});return c.prototype.templates=function(){var e=i.wrapTemplate(['
    ','
    ','
    <%- model.name %>
    ',"
    ",'
    <%- view.subtitle %>
    ','
    ','
    ','
    ','
    ',"
    ",'
    ','
    ','",'","
    ",'
    ',"
    ","
    ","
    "]);return a.extend(a.clone(l.prototype.templates),{controls:e})}(),{ListPanel:l,ModelListPanel:c}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(3),i(2),i(1))},,function(e,t,i){var n,s;(function(o,a){n=[i(5)],s=function(e){"use strict";function t(t,i,n){return Galaxy.modal.show({title:i,body:t,closing_events:!0,buttons:{Ok:function(){Galaxy.modal.hide()}}}),Galaxy.modal.$el.addClass("error-modal"),n&&(Galaxy.modal.$(".error-details").add(Galaxy.modal.$('button:contains("Details")')).remove(),o("
    ").addClass("error-details").hide().appendTo(Galaxy.modal.$(".modal-content")).append([o("

    ").text(h),o("

    ").text(JSON.stringify(n,null,"  "))]),o('").appendTo(Galaxy.modal.$(".buttons")).click(function(){Galaxy.modal.$(".error-details").toggle()})),Galaxy.modal}function i(i,n,s){if(i){if(i=e(i),n=e(n)||e("Error:"),window.Galaxy&&Galaxy.modal)return t(i,n,s);alert(n+"\n\n"+i),console.log("error details:",JSON.stringify(s))}}function n(){return i(e("You appear to be offline. Please check your connection and try again."),e("Offline?"))}function s(){return i(e("Galaxy is currently unreachable. Please try again in a few minutes.")+" "+c,e("Cannot connect to Galaxy"))}function r(t,n,s,o,a){o=o||d,o+=" "+c,a=a||e("An error occurred");var r=l(t,n,s);return i(o,a,r)}function l(e,t,i){return{raven:a.result(window.Raven,"lastEventId"),userAgent:navigator.userAgent,onLine:navigator.onLine,version:a.result(Galaxy.config,"version_major"),xhr:a.omit(t,a.functions(t)),options:a.omit(i,"xhr"),url:a.result(Galaxy.lastAjax,"url"),data:a.result(Galaxy.lastAjax,"data"),model:a.result(e,"toJSON",e+""),user:a.omit(a.result(Galaxy.user,"toJSON"),"email")}}var c=e("Please contact a Galaxy administrator if the problem persists."),d=e("An error occurred while updating information with the server."),h=e("The following information can assist the developers in finding the source of the error:");return{errorModal:i,offlineErrorModal:n,badGatewayErrorModal:s,ajaxErrorModal:r}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(1),i(2))},function(e,t,i){var n,s;(function(i,o,a,r){n=[],s=function(){var e=i.View.extend({initialize:function(e,t){this.$button=e,this.$button.length||(this.$button=o("
    ")),this.options=t||[],this.$button.data("popupmenu",this);var i=this;this.$button.click(function(e){return o(".popmenu-wrapper").remove(),i._renderAndShow(e),!1})},_renderAndShow:function(e){this.render(),this.$el.appendTo("body").css(this._getShownPosition(e)).show(),this._setUpCloseBehavior()},render:function(){if(this.$el.addClass("popmenu-wrapper").hide().css({position:"absolute"}).html(this.template(this.$button.attr("id"),this.options)),this.options.length){var e=this;this.$el.find("li").each(function(t,i){var n=e.options[t];n.func&&o(this).children("a.popupmenu-option").click(function(t){n.func.call(e,t,n),t.preventDefault()})})}return this},template:function(e,t){return['"].join("")},_templateOptions:function(e){return e.length?a.map(e,function(e){if(e.divider)return'
  • ';if(e.header)return['
  • ',e.html,"
    • "].join("");var t=e.href||"javascript:void(0);",i=e.target?' target="'+e.target+'"':"",n=e.checked?'':"";return['
  • ",n,e.html,"
    • "].join("")}).join(""):"
  • (no options)
    • "},_getShownPosition:function(e){var t=this.$el.width(),i=e.pageX-t/2;return i=Math.min(i,o(document).scrollLeft()+o(window).width()-t-5),i=Math.max(i,o(document).scrollLeft()+5),
 {top:e.pageY,left:i}},_setUpCloseBehavior:function(){function e(e){if(o(document).off("click.close_popup"),window&&window.parent!==window)try{o(window.parent.document).off("click.close_popup")}catch(e){}else try{o("iframe#galaxy_main").contents().off("click.close_popup")}catch(e){}t.remove()}var t=this;if(o("html").one("click.close_popup",e),window&&window.parent!==window)try{o(window.parent.document).find("html").one("click.close_popup",e)}catch(e){}else try{o("iframe#galaxy_main").contents().one("click.close_popup",e)}catch(e){}},addItem:function(e,t){return t=t>=0?t:this.options.length,this.options.splice(t,0,e),this},removeItem:function(e){return e>=0&&this.options.splice(e,1),this},findIndexByHtml:function(e){for(var t=0;t"].join("")}function l(){return i(r()).focus(function(e){i(this).select()}).keyup(function(e){if(e.preventDefault(),e.stopPropagation(),e.which===u&&n.escWillClear)s.call(this,e);else{var t=i(this).val();(e.which===p||n.minSearchLen&&t.length>=n.minSearchLen)&&o.call(this,e,t)}}).val(n.initialVal)}function c(){return i([''].join("")).tooltip({placement:"bottom"}).click(function(e){s.call(this,e)})}function d(){return i([''].join("")).hide().tooltip({placement:"bottom"})}function h(){g.find(".search-loading").toggle(),g.find(".search-clear").toggle()}var u=27,p=13,g=i(e),f=!0,m={initialVal:"",name:"search",placeholder:"search",classes:"",onclear:function(){},onfirstsearch:null,onsearch:function(e){},minSearchLen:0,escWillClear:!0,oninit:function(){}};return"string"===a.type(n)?("toggle-loading"===n&&h(),g):("object"===a.type(n)&&(n=a.extend(!0,{},m,n)),g.addClass("search-input").prepend([l(),c(),d()]))}var t=window._l||function(e){return e};a.fn.extend({searchInput:function(t){return this.each(function(){return e(this,t)})}})})}).call(t,i(1),i(1))},,function(e,t,i){var n,s;n=[],s=function(){function e(e,t){var i=/(-?[0-9\.]+)/g,n=e.toString().toLowerCase()||"",s=t.toString().toLowerCase()||"",o=String.fromCharCode(0),a=n.replace(i,o+"$1"+o).split(o),r=s.replace(i,o+"$1"+o).split(o),l=new Date(n).getTime(),c=l?new Date(s).getTime():null;if(c){if(lc)return 1}for(var d,h,u=0,p=Math.max(a.length,r.length);uh)return 1}return 0}return e}.apply(t,n),!(void 0!==s&&(e.exports=s))},,function(e,t,i){(function(t){var n=i(10).RightPanel,s=(i(7),i(119));CurrentHistoryView=i(116).CurrentHistoryView,_l=i(5);var o=n.extend({title:_l("History"),initialize:function(e){n.prototype.initialize.call(this,e),this.options=t.pick(e,"userIsAnonymous","allow_user_dataset_purge","galaxyRoot"),this.historyView=new CurrentHistoryView({className:CurrentHistoryView.prototype.className+" middle",purgeAllowed:e.allow_user_dataset_purge,linkTarget:"galaxy_main"})},$toggleButton:function(){return this.$(".footer > .panel-collapse")},render:function(){n.prototype.render.call(this),this.optionsMenu=s(this.$("#history-options-button"),{anonymous:this.options.userIsAnonymous,purgeAllowed:this.options.allow_user_dataset_purge,root:this.options.galaxyRoot}),this.$("> .header .buttons [title]").tooltip({placement:"bottom"}),this.historyView.setElement(this.$(".history-panel")),this.$el.attr("class","history-right-panel")},_templateHeader:function(e){var i=this.options.galaxyRoot+"history",n=this.options.galaxyRoot+"history/view_multiple";return['
    ','
    ','','',this.options.userIsAnonymous?"":[''].join(""),"
    ",'
    ',t.escape(this.title),"
    ","
    "].join("")},_templateBody:function(e){return['
    '].join("")},_templateFooter:function(e){return['
    ','
    ','
    ',"
    "].join("")},events:{"click #history-refresh-button":"_clickRefresh","mousedown .footer > .drag":"_mousedownDragHandler","click .footer > .panel-collapse":"toggle"},_clickRefresh:function(e){e.preventDefault(),this.historyView.loadCurrentHistory()},toString:function(){return"HistoryPanel"}});e.exports=o}).call(t,i(2))},function(e,t,i){(function(t,n){var s=i(10).LeftPanel,o=i(48),a=i(128),r=i(5),l=s.extend({title:r("Tools"),initialize:function(e){s.prototype.initialize.call(this,e),this.log(this+".initialize:",e),this.stored_workflow_menu_entries=e.stored_workflow_menu_entries||[];var t=new o.ToolSearch({hidden:!1}),i=new o.ToolCollection(e.toolbox);this.tool_panel=new o.ToolPanel({tool_search:t,tools:i,layout:e.toolbox_in_panel}),this.tool_panel_view=new o.ToolPanelView({model:this.tool_panel}),this.uploadButton=new a({nginx_upload_path:e.nginx_upload_path,ftp_upload_site:e.ftp_upload_site,default_genome:e.default_genome,default_extension:e.default_extension})},render:function(){var e=this;s.prototype.render.call(e),e.$(".panel-header-buttons").append(e.uploadButton.$el),e.tool_panel.get("layout").size()>0&&(e.tool_panel_view.render(),e.$(".toolMenu").show()),e.$(".toolMenuContainer").prepend(e.tool_panel_view.$el),e._renderWorkflowMenu(),e.$("a[minsizehint]").click(function(){parent.handle_minwidth_hint&&parent.handle_minwidth_hint(t(e).attr("minsizehint"))})},_renderWorkflowMenu:function(){var e=this;e.$("#internal-workflows").append(e._templateTool({title:r("All workflows"),href:"workflow/list_for_run"})),n.each(e.stored_workflow_menu_entries,function(t){e.$("#internal-workflows").append(e._templateTool({title:t.stored_workflow.name,href:"workflow/run?id="+t.encoded_stored_workflow_id}))})},_templateTool:function(e){return['
    ','',e.title,"","
    "].join("")},_templateBody:function(){return['
    ','
    ','",'
    ','
    ','
    ',"",r("Workflows"),"","
    ",'
    ','
    ',"
    ","
    ","
    "].join("")},toString:function(){return"ToolPanel"}});e.exports=l}).call(t,i(1),i(2))},,,,,,,,,,,,,,,,function(e,t,i){var n,s;(function(o,a){n=[i(33),i(74),i(6),i(5)],s=function(e,t,i,n){"use strict";var s=e.DCListItemView,r=s.extend({initialize:function(e){s.prototype.initialize.call(this,e)},toString:function(){var e=this.model?this.model+"":"(no model)";return"DCListItemEdit("+e+")"}}),l=e.DCEListItemView,c=l.extend({initialize:function(e){l.prototype.initialize.call(this,e)},toString:function(){var e=this.model?this.model+"":"(no model)";return"DCEListItemEdit("+e+")"}}),d=t.DatasetListItemEdit.extend({initialize:function(e){t.DatasetListItemEdit.prototype.initialize.call(this,e)},_fetchModelDetails:function(){var e=this;return e.model.inReadyState()&&!e.model.hasDetails()?e.model.fetch({silent:!0}):o.when()},_renderDeleteButton:function(){return null},toString:function(){var e=this.model?this.model+"":"(no model)";return"DatasetDCEListItemEdit("+e+")"}});d.prototype.templates=function(){return a.extend({},t.DatasetListItemEdit.prototype.templates,{titleBar:e.DatasetDCEListItemView.prototype.templates.titleBar})}();var h=e.NestedDCDCEListItemView.extend({toString:function(){var e=this.model?this.model+"":"(no model)";return"NestedDCDCEListItemEdit("+e+")"}});return{DCListItemEdit:r,DCEListItemEdit:c,DatasetDCEListItemEdit:d,NestedDCDCEListItemEdit:h}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(1),i(2))},function(e,t,i){var n,s;n=[i(73),i(34),i(109),i(6),i(46),i(18),i(5),i(17)],s=function(e,t,i,n,s,o,a){"use strict";var r=e.CollectionView,l=r.extend({DatasetDCEViewClass:i.DatasetDCEListItemEdit,NestedDCDCEViewClass:i.NestedDCDCEListItemEdit,initialize:function(e){r.prototype.initialize.call(this,e)},_setUpBehaviors:function(e){if(e=e||this.$el,r.prototype._setUpBehaviors.call(this,e),this.model&&Galaxy.user&&!Galaxy.user.isAnonymous()){this.tagsEditorShown=!0;var t=this,i="> .controls .name";e.find(i).attr("title",a("Click to rename collection")).tooltip({placement:"bottom"}).make_text_editable({on_finish:function(e){var n=t.model.get("name");e&&e!==n?(t.$el.find(i).text(e),t.model.save({name:e}).fail(function(){t.$el.find(i).text(t.model.previous("name"))})):t.$el.find(i).text(n)}}),this.tagsEditor=new s.TagsEditor({model:this.model,el:e.find(".tags-display"),onshowFirstTime:function(){this.render()},usePrompt:!1}),this.tagsEditor.toggle(!0)}},toString:function(){return"CollectionViewEdit("+(this.model?this.model.get("name"):"")+")"}}),c=l.extend({DatasetDCEViewClass:i.DatasetDCEListItemEdit,toString:function(){return"ListCollectionViewEdit("+(this.model?this.model.get("name"):"")+")"}}),d=c.extend({toString:function(){return"PairCollectionViewEdit("+(this.model?this.model.get("name"):"")+")"}}),h=d.extend({_setUpBehaviors:function(e){r.prototype._setUpBehaviors.call(this,e)},toString:function(){return"NestedPairCollectionViewEdit("+(this.model?this.model.get("name"):"")+")"}}),u=l.extend({NestedDCDCEViewClass:i.NestedDCDCEListItemEdit.extend({foldoutPanelClass:h}),toString:function(){return"ListOfPairsCollectionViewEdit("+(this.model?this.model.get("name"):"")+")"}}),p=l.extend({NestedDCDCEViewClass:i.NestedDCDCEListItemEdit.extend({foldoutPanelClass:h}),toString:function(){return"ListOfListsCollectionViewEdit("+(this.model?this.model.get("name"):"")+")"}});return{CollectionViewEdit:l,ListCollectionViewEdit:c,PairCollectionViewEdit:d,ListOfPairsCollectionViewEdit:u,ListOfListsCollectionViewEdit:p}}.apply(t,n),!(void 0!==s&&(e.exports=s))},function(e,t,i){var n,s;(function(o,a,r,l){n=[i(138),i(90),i(72),i(6),i(5),i(87)],s=function(e,t,i,n,s){"use strict";function c(e){function t(){return i.length||(i=[new RegExp(this.filters[0]),new RegExp(this.filters[1])]),i}e=e||{},e.createPair=e.createPair||function(e){e=e||{};var t=e.listA.splice(e.indexA,1)[0],i=e.listB.splice(e.indexB,1)[0],n=e.listB.indexOf(t),s=e.listA.indexOf(i);return n!==-1&&e.listB.splice(n,1),s!==-1&&e.listA.splice(s,1),this._pair(t,i,{silent:!0})};var i=[];return e.preprocessMatch=e.preprocessMatch||function(e){var i=t.call(this);return a.extend(e,{matchTo:e.matchTo.name.replace(i[0],""),possible:e.possible.name.replace(i[1],"")})},function(t){this.debug("autopair _strategy ---------------------------"),t=t||{};var i,n=t.listA,s=t.listB,o=0,a={score:0,index:null},r=[];for(this.debug("starting list lens:",n.length,s.length),this.debug("bestMatch (starting):",JSON.stringify(a,null,"  "));o=d?r.push(e.createPair.call(this,{listA:n,indexA:o,listB:s,indexB:a.index})):o+=1,!n.length||!s.length)return r}return this.debug("paired:",JSON.stringify(r,null,"  ")),this.debug("autopair _strategy ---------------------------"),r}}function d(e,t){var i=e.toJSON();return g(i,{historyId:e.historyId,defaultHideSourceItems:t})}var h="collections",u=o.View.extend(n.LoggableMixin).extend({_logNamespace:h,tagName:"li",className:"dataset paired",initialize:function(e){this.pair=e.pair||{}},template:a.template(['<%- pair.forward.name %>','','<%- pair.name %>',"",'<%- pair.reverse.name %>'].join("")),render:function(){return this.$el.attr("draggable",!0).data("pair",this.pair).html(this.template({pair:this.pair})).addClass("flex-column-container"),this},events:{dragstart:"_dragstart",dragend:"_dragend",dragover:"_sendToParent",drop:"_sendToParent"},_dragstart:function(e){e.currentTarget.style.opacity="0.4",e.originalEvent&&(e=e.originalEvent),e.dataTransfer.effectAllowed="move",e.dataTransfer.setData("text/plain",JSON.stringify(this.pair)),this.$el.parent().trigger("pair.dragstart",[this])},_dragend:function(e){e.currentTarget.style.opacity="1.0",this.$el.parent().trigger("pair.dragend",[this])},_sendToParent:function(e){this.$el.parent().trigger(e)},toString:function(){return"PairView("+this.pair.name+")"}}),p=o.View.extend(n.LoggableMixin).extend(i.CollectionCreatorMixin).extend({_logNamespace:h,className:"list-of-pairs-collection-creator collection-creator 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e.sort(function(e,i){return t(e.name,i.name)}),e},_ensureIds:function(){return this.initialList.forEach(function(e){e.hasOwnProperty("id")||(e.id=a.uniqueId())}),this.initialList},_splitByFilters:function(){function e(e,t){return t.test(e.name)}var t=this.filters.map(function(e){return new RegExp(e)}),i=[[],[]];return this.unpaired.forEach(function(n){t.forEach(function(t,s){e(n,t)&&i[s].push(n)})}),i},_addToUnpaired:function(e){var i=function(n,s){if(n===s)return n;var o=Math.floor((s-n)/2)+n,a=t(e.name,this.unpaired[o].name);if(a<0)return i(n,o);if(a>0)return i(o+1,s);for(;this.unpaired[o]&&this.unpaired[o].name===e.name;)o++;return o}.bind(this);this.unpaired.splice(i(0,this.unpaired.length),0,e)},autoPair:function(e){var t=this._splitByFilters(),i=[];return 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            ','',n("Swap"),"","
            ",'
            ',"
            "].join("")),helpContent:a.template(["
            ",n(["Pair collections are permanent collections containing two datasets: one forward and one reverse. ","Often these are forward and reverse reads. The pair collections can be passed to tools and ","workflows in order to have analyses done on both datasets. This interface allows ","you to create a pair, name it, and swap which is forward and which reverse."].join("")),"
            ","
              ","
            • ",n(['Click the "Swap" link to make your forward dataset the reverse ',"and the reverse dataset forward."].join("")),"
              • ","
            • ",n(['Click the "Cancel" button to exit the interface.'].join("")),"
              • ","

            ","
            ",n(['Once your collection is complete, enter a name and ','click "Create list".'].join("")),"
            "].join("")),invalidInitial:a.template(['
            ','
            ','',"<% if( _.size( problems ) ){ %>",n("The following selections could not be included due to problems"),"
              <% _.each( problems, function( problem ){ %>","
            • <%- problem.element.name %>: <%- problem.text %>
              • ","<% }); %>
            ","<% } else if( _.size( elements ) === 0 ){ %>",n("No datasets were selected"),".","<% } else if( _.size( elements ) === 1 ){ %>",n("Only one dataset was selected"),": <%- elements[0].name %>","<% } else if( _.size( elements ) > 2 ){ %>",n("Too many datasets were selected"),': <%- _.pluck( elements, "name" ).join( ", ") %>',"<% } %>","
            ",n("Two (and only two) elements are needed for the pair"),". ",n("You may need to "),'',n("cancel")," ",n("and reselect new elements"),".","            ","
            ","
            ",'
            ','
            ','
            ','","
            ","
            ","
            "].join(""))}),toString:function(){return"PairCollectionCreator"}}),u=function(t,i){return i=i||{},i.title=n("Create a collection from a pair of datasets"),e.collectionCreatorModal(t,i,h)};return{PairCollectionCreator:h,pairCollectionCreatorModal:u,createPairCollection:s}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(3),i(2),i(1))},function(e,t,i){var n,s;(function(o,a,r){n=[i(8),i(83),i(5)],s=function(e,t,i){"use strict";var n={defaultName:o.template("Copy of '<%- name %>'"),title:o.template(i("Copying history")+' "<%- name %>"'),submitLabel:i("Copy"),errorMessage:i("History could not be copied."),progressive:i("Copying history"),activeLabel:i("Copy only the active, non-deleted datasets"),allLabel:i("Copy all datasets including deleted ones"),anonWarning:i("As an anonymous user, unless you login or register, you will lose your current history ")+i("after copying this history. "),_template:o.template(["<% if( isAnon ){ %>",'
            ',"<%- anonWarning %>",i("You can"),' ',i("login here")," ",i("or")," ",' ',i("register here"),".","
            ","<% } %>","
            ",'
            ",'','","<% if( allowAll ){ %>","
            ","
            ",i("Choose which datasets from the original history to include:"),"
            ",'/>','',"
            ",'/>','',"<% } %>","
            "].join("")),_showAjaxIndicator:function(){var e='
             '+this.progressive+"...
            ";this.modal.$(".modal-body").empty().append(e).css({"margin-top":"8px"})},dialog:function(e,n,s){function l(){var i=e.$("#copy-modal-title").val();if(!i)return void e.$(".invalid-title").show();var s="copy-all"===e.$('input[name="copy-what"]:checked').val();e.$("button").prop("disabled",!0),c._showAjaxIndicator(),n.copy(!0,i,s).done(function(e){d.resolve(e)}).fail(function(e,o,a){var r={name:i,copyAllDatasets:s};t.ajaxErrorModal(n,e,r,c.errorMessage),d.rejectWith(d,arguments)}).done(function(){f&&e.hide()})}s=s||{};var c=this,d=a.Deferred(),h=s.nameFn||this.defaultName,u=h({name:n.get("name")}),p=s.allDatasets?"copy-all":"copy-non-deleted",g=!!o.isUndefined(s.allowAll)||s.allowAll,f=!!o.isUndefined(s.autoClose)||s.autoClose;this.modal=e;var m=s.closing_callback;return e.show(o.extend(s,{title:this.title({name:n.get("name")}),body:r(c._template({name:u,isAnon:Galaxy.user.isAnonymous(),allowAll:g,copyWhat:p,activeLabel:this.activeLabel,allLabel:this.allLabel,anonWarning:this.anonWarning})),buttons:o.object([[i("Cancel"),function(){e.hide()}],[this.submitLabel,l]]),height:"auto",closing_events:!0,closing_callback:function(e){e&&d.reject({cancelled:!0}),m&&m(e)}})),e.$("#copy-modal-title").focus().select(),e.$("#copy-modal-title").on("keydown",function(e){13===e.keyCode&&(e.preventDefault(),l())}),d}},s=o.extend({},n,{defaultName:o.template("imported: <%- name %>"),title:o.template(i("Importing history")+' "<%- name %>"'),submitLabel:i("Import"),errorMessage:i("History could not be imported."),progressive:i("Importing history"),activeLabel:i("Import only the active, non-deleted datasets"),allLabel:i("Import all datasets including deleted ones"),anonWarning:i("As an anonymous user, unless you login or register, you will lose your current history ")+i("after importing this history. ")}),l=function(t,i){i=i||{};var o=window.parent.Galaxy.modal||new e.View({});return i.useImport?s.dialog(o,t,i):n.dialog(o,t,i)};return l}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(2),i(1),i(1))},function(e,t,i){var n,s;(function(o,a){n=[i(74),i(76),i(6),i(5)],s=function(e,t,i,n){"use strict";var s=e.DatasetListItemEdit,r=s.extend({className:s.prototype.className+" history-content",_fetchModelDetails:function(){var e=this;return e.model.inReadyState()&&!e.model.hasDetails()?e.model.fetch({silent:!0}):e.model.has("rerunnable")?o.when():e.model.fetch({silent:!0,data:{keys:["rerunnable","creating_job"].join(",")}})},events:a.extend(a.clone(s.prototype.events),{"click .unhide-link":function(e){return this.model.unhide(),!1}}),toString:function(){var e=this.model?this.model+"":"(no model)";return"HDAListItemEdit("+e+")"}});return r.prototype.templates=function(){var e=a.extend({},s.prototype.templates.warnings,{hidden:i.wrapTemplate(["<% if( !dataset.visible ){ %>",'
            ',n("This dataset has been hidden"),'
            ',n("Unhide it"),"","
            ","<% } %>"],"dataset")});return a.extend({},s.prototype.templates,{titleBar:t.HDAListItemView.prototype.templates.titleBar,warnings:e})}(),{HDAListItemEdit:r}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(1),i(2))},function(e,t,i){var n,s;n=[i(78),i(110),i(18),i(5)],s=function(e,t,i,n){"use strict";var s=e.HDCAListItemView,o=s.extend({_getFoldoutPanelClass:function(){switch(this.model.get("collection_type")){case"list":return t.ListCollectionViewEdit;case"paired":return t.PairCollectionViewEdit;case"list:paired":return t.ListOfPairsCollectionViewEdit;case"list:list":return t.ListOfListsCollectionViewEdit}throw new TypeError("Uknown collection_type: "+this.model.get("collection_type"))},_renderPrimaryActions:function(){return this.log(this+"._renderPrimaryActions"),s.prototype._renderPrimaryActions.call(this).concat([this._renderDeleteButton()])},_renderDeleteButton:function(){var e=this,t=this.model.get("deleted");return i({title:n(t?"Dataset collection is already deleted":"Delete"),classes:"delete-btn",faIcon:"fa-times",disabled:t,onclick:function(){e.$el.find(".icon-btn.delete-btn").trigger("mouseout"),e.model.delete()}})},toString:function(){var e=this.model?this.model+"":"(no model)";return"HDCAListItemEdit("+e+")"}});return{HDCAListItemEdit:o}}.apply(t,n),!(void 0!==s&&(e.exports=s))},function(e,t,i){var n,s;(function(o,a,r){n=[i(80),i(117),i(6),i(5)],s=function(e,t,i,n){"use strict";var s=i.SessionStorageModel.extend({defaults:{tagsEditorShown:!1,annotationEditorShown:!1,scrollPosition:0},toString:function(){return"HistoryViewPrefs("+JSON.stringify(this.toJSON())+")"}});s.storageKey=function(){return"history-panel"};var l=t.HistoryViewEdit,c=l.extend({className:l.prototype.className+" current-history-panel",HDCAViewClass:l.prototype.HDCAViewClass.extend({foldoutStyle:"drilldown"}),emptyMsg:[n("This history is empty"),". ",n("You can "),'',n("load your own data"),"",n(" or "),'',n("get data from an external source"),""].join(""),initialize:function(e){e=e||{},this.preferences=new s(o.extend({id:s.storageKey()},o.pick(e,o.keys(s.prototype.defaults)))),l.prototype.initialize.call(this,e),this.panelStack=[],this.currentContentId=e.currentContentId||null},_setUpListeners:function(){l.prototype._setUpListeners.call(this);var e=this;this.on("new-model",function(){e.preferences.set("scrollPosition",0)})},loadCurrentHistory:function(){return this.loadHistory(null,{url:Galaxy.root+"history/current_history_json"})},switchToHistory:function(e,t){return Galaxy.user.isAnonymous()?(this.trigger("error",n("You must be logged in to switch histories"),n("Anonymous user")),a.when()):this.loadHistory(e,{url:Galaxy.root+"history/set_as_current?id="+e})},createNewHistory:function(e){return Galaxy.user.isAnonymous()?(this.trigger("error",n("You must be logged in to create histories"),n("Anonymous 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l.prototype._setUpBehaviors.call(t,e),this._debouncedScrollCaptureHandler||(this._debouncedScrollCaptureHandler=o.debounce(function(){t.$el.is(":visible")&&t.preferences.set("scrollPosition",a(this).scrollTop())},40)),t.$scrollContainer(e).off("scroll",this._debouncedScrollCaptureHandler).on("scroll",this._debouncedScrollCaptureHandler),t},_buildNewRender:function(){if(!this.model)return a();var e=l.prototype._buildNewRender.call(this);return e.find(".search").prependTo(e.find("> .controls")),this._renderQuotaMessage(e),e},_renderQuotaMessage:function(e){return e=e||this.$el,a(this.templates.quotaMsg({},this)).prependTo(e.find(".messages"))},_renderTags:function(e){var t=this;l.prototype._renderTags.call(t,e),t.preferences.get("tagsEditorShown")&&t.tagsEditor.toggle(!0),t.listenTo(t.tagsEditor,"hiddenUntilActivated:shown hiddenUntilActivated:hidden",function(e){t.preferences.set("tagsEditorShown",e.hidden)})},_renderAnnotation:function(e){var t=this;l.prototype._renderAnnotation.call(t,e),t.preferences.get("annotationEditorShown")&&t.annotationEditor.toggle(!0),t.listenTo(t.annotationEditor,"hiddenUntilActivated:shown hiddenUntilActivated:hidden",function(e){t.preferences.set("annotationEditorShown",e.hidden)})},_swapNewRender:function(e){l.prototype._swapNewRender.call(this,e);var t=this;return o.delay(function(){var e=t.preferences.get("scrollPosition");e&&t.scrollTo(e,0)},10),this},_attachItems:function(e){l.prototype._attachItems.call(this,e);var t=this;return t.currentContentId&&t._setCurrentContentById(t.currentContentId),this},addItemView:function(e,t,i){var n=l.prototype.addItemView.call(this,e,t,i);return n&&this.panelStack.length?this._collapseDrilldownPanel():n},_setUpItemViewListeners:function(e){var t=this;return l.prototype._setUpItemViewListeners.call(t,e),t.listenTo(e,{"expanded:drilldown":function(e,t){this._expandDrilldownPanel(t)},"collapsed:drilldown":function(e,t){this._collapseDrilldownPanel(t)}})},setCurrentContent:function(e){this.$(".history-content.current-content").removeClass("current-content"),e?(e.$el.addClass("current-content"),this.currentContentId=e.model.id):this.currentContentId=null},_setCurrentContentById:function(e){var t=this.viewFromModelId(e)||null;this.setCurrentContent(t)},_expandDrilldownPanel:function(e){this.panelStack.push(e),this.$controls().add(this.$list()).hide(),e.parentName=this.model.get("name"),e.delegateEvents().render().$el.appendTo(this.$el)},_collapseDrilldownPanel:function(e){this.panelStack.pop(),this.$controls().add(this.$list()).show()},events:o.extend(o.clone(l.prototype.events),{"click .uploader-link":function(e){Galaxy.upload.show(e)},"click .get-data-link":function(e){var t=a(".toolMenuContainer");t.parent().scrollTop(0),t.find('span:contains("Get Data")').click()}}),listenToGalaxy:function(e){this.listenTo(e,{"galaxy_main:load":function(e){var t=e.fullpath,i=null,n={display:/datasets\/([a-f0-9]+)\/display/,edit:/datasets\/([a-f0-9]+)\/edit/,report_error:/dataset\/errors\?id=([a-f0-9]+)/,rerun:/tool_runner\/rerun\?id=([a-f0-9]+)/,show_params:/datasets\/([a-f0-9]+)\/show_params/};o.find(n,function(e,n){return i=o.result(t.match(e),1)}),this._setCurrentContentById(i?"dataset-"+i:null)},"center-panel:load":function(e){this._setCurrentContentById()}})},connectToQuotaMeter:function(e){return e?(this.listenTo(e,"quota:over",this.showQuotaMessage),this.listenTo(e,"quota:under",this.hideQuotaMessage),this.on("rendered rendered:initial",function(){e&&e.isOverQuota()&&this.showQuotaMessage()}),this):this},clearMessages:function(e){var t=o.isUndefined(e)?this.$messages().children('[class$="message"]'):a(e.currentTarget);return t=t.not(".quota-message"),t.fadeOut(this.fxSpeed,function(){a(this).remove()}),this},showQuotaMessage:function(){var e=this.$(".quota-message");e.is(":hidden")&&e.slideDown(this.fxSpeed)},hideQuotaMessage:function(){var e=this.$(".quota-message");e.is(":hidden")||e.slideUp(this.fxSpeed)},unhideHidden:function(){var e=this;return confirm(n("Really unhide all hidden datasets?"))?e.model.contents._filterAndUpdate({visible:!1,deleted:"",purged:""},{visible:!0}).done(function(){e.model.contents.includeHidden||e.renderItems()}):r.when()},deleteHidden:function(){var e=this;return confirm(n("Really delete all hidden datasets?"))?e.model.contents._filterAndUpdate({visible:!1,deleted:"",purged:""},{deleted:!0,visible:!0}):r.when()},toString:function(){return"CurrentHistoryView("+(this.model?this.model.get("name"):"")+")"}});return c.prototype.templates=function(){var e=i.wrapTemplate(['
            ',n("You are over your disk quota"),". ",n("Tool execution is on hold until your disk usage drops below your allocated quota"),".","
            "],"history");return o.extend(o.clone(l.prototype.templates),{quotaMsg:e})}(),{CurrentHistoryView:c}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(2),i(1),i(1))},function(e,t,i){var n,s;(function(o,a,r){n=[i(118),i(43),i(12),i(77),i(114),i(115),i(46),i(70),i(35),i(112),i(111),i(18),i(84),i(6),i(5),i(17)],s=function(e,t,i,n,s,l,c,d,h,u,p,g,f,m,v){"use strict";var _=e.HistoryView,y=_.extend({HDAViewClass:s.HDAListItemEdit,HDCAViewClass:l.HDCAListItemEdit,initialize:function(e){e=e||{},_.prototype.initialize.call(this,e),this.tagsEditor=null,this.dragItems=!0,this.annotationEditor=null,this.purgeAllowed=e.purgeAllowed||!1,this.annotationEditorShown=e.annotationEditorShown||!1,this.tagsEditorShown=e.tagsEditorShown||!1},_setUpListeners:function(){return _.prototype._setUpListeners.call(this),this.on({"droptarget:drop":function(e,t){this.dataDropped(t),this.dropTargetOff()},"view:attached view:removed":function(){this._renderCounts()},"search:loading-progress":this._renderSearchProgress,"search:searching":this._renderSearchFindings})},_setUpModelListeners:function(){return _.prototype._setUpModelListeners.call(this),this.listenTo(this.model,"change:size",this.updateHistoryDiskSize),this},_setUpCollectionListeners:function(){return _.prototype._setUpCollectionListeners.call(this),this.listenTo(this.collection,{"change:deleted":this._handleItemDeletedChange,"change:visible":this._handleItemVisibleChange,"change:purged":function(e){this.model.fetch()},"fetching-deleted":function(e){this.$("> .controls .deleted-count").html(""+v("loading...")+"")},"fetching-hidden":function(e){this.$("> .controls .hidden-count").html(""+v("loading...")+"")},"fetching-deleted-done fetching-hidden-done":this._renderCounts}),this},_buildNewRender:function(){var e=_.prototype._buildNewRender.call(this);return this.model?(Galaxy&&Galaxy.user&&Galaxy.user.id&&Galaxy.user.id===this.model.get("user_id")&&(this._renderTags(e),this._renderAnnotation(e)),e):e},updateHistoryDiskSize:function(){this.$(".history-size").text(this.model.get("nice_size"))},renderItems:function(e){var t=_.prototype.renderItems.call(this,e);return this.searchFor||this._renderCounts(e),t},_renderCounts:function(e){e=e instanceof o?e:this.$el;var t=this.templates.counts(this.model.toJSON(),this);return e.find("> .controls .subtitle").html(t)},_renderTags:function(e){var t=this;this.tagsEditor=new c.TagsEditor({model:this.model,el:e.find(".controls .tags-display"),onshowFirstTime:function(){this.render()},onshow:function(){t.toggleHDATagEditors(!0,t.fxSpeed)},onhide:function(){t.toggleHDATagEditors(!1,t.fxSpeed)},$activator:g({title:v("Edit history tags"),
-classes:"history-tag-btn",faIcon:"fa-tags"}).appendTo(e.find(".controls .actions"))})},_renderAnnotation:function(e){var t=this;this.annotationEditor=new d.AnnotationEditor({model:this.model,el:e.find(".controls .annotation-display"),onshowFirstTime:function(){this.render()},onshow:function(){t.toggleHDAAnnotationEditors(!0,t.fxSpeed)},onhide:function(){t.toggleHDAAnnotationEditors(!1,t.fxSpeed)},$activator:g({title:v("Edit history annotation"),classes:"history-annotate-btn",faIcon:"fa-comment"}).appendTo(e.find(".controls .actions"))})},_setUpBehaviors:function(e){if(e=e||this.$el,_.prototype._setUpBehaviors.call(this,e),this.model&&Galaxy.user&&!Galaxy.user.isAnonymous()&&Galaxy.user.id===this.model.get("user_id")){var t=this,i="> .controls .name";e.find(i).attr("title",v("Click to rename history")).tooltip({placement:"bottom"}).make_text_editable({on_finish:function(e){var n=t.model.get("name");e&&e!==n?(t.$el.find(i).text(e),t.model.save({name:e}).fail(function(){t.$el.find(i).text(t.model.previous("name"))})):t.$el.find(i).text(n)}})}},multiselectActions:function(){var e=this,t=[{html:v("Hide datasets"),func:function(){var t=n.HistoryDatasetAssociation.prototype.hide;e.getSelectedModels().ajaxQueue(t)}},{html:v("Unhide datasets"),func:function(){var t=n.HistoryDatasetAssociation.prototype.unhide;e.getSelectedModels().ajaxQueue(t)}},{html:v("Delete datasets"),func:function(){var t=n.HistoryDatasetAssociation.prototype.delete;e.getSelectedModels().ajaxQueue(t)}},{html:v("Undelete datasets"),func:function(){var t=n.HistoryDatasetAssociation.prototype.undelete;e.getSelectedModels().ajaxQueue(t)}}];return e.purgeAllowed&&t.push({html:v("Permanently delete datasets"),func:function(){if(confirm(v("This will permanently remove the data in your datasets. Are you sure?"))){var t=n.HistoryDatasetAssociation.prototype.purge;e.getSelectedModels().ajaxQueue(t)}}}),t=t.concat(e._collectionActions())},_collectionActions:function(){var e=this;return[{html:v("Build Dataset List"),func:function(){e.buildCollection("list")}},{html:v("Build Dataset Pair"),func:function(){e.buildCollection("paired")}},{html:v("Build List of Dataset Pairs"),func:function(){e.buildCollection("list:paired")}}]},buildCollection:function(e,t,i){var n,s=this,t=t||s.getSelectedModels(),i=i||!1;"list"==e?n=h.createListCollection:"paired"==e?n=u.createPairCollection:"list:paired"==e?n=p.createListOfPairsCollection:console.warn("Unknown collectionType encountered "+e),n(t,i).done(function(){s.model.refresh()})},_getItemViewOptions:function(e){var t=_.prototype._getItemViewOptions.call(this,e);return a.extend(t,{purgeAllowed:this.purgeAllowed,tagsEditorShown:this.tagsEditor&&!this.tagsEditor.hidden,annotationEditorShown:this.annotationEditor&&!this.annotationEditor.hidden}),t},_handleItemDeletedChange:function(e){e.get("deleted")?this._handleItemDeletion(e):this._handleItemUndeletion(e),this._renderCounts()},_handleItemDeletion:function(e){var t=this.model.get("contents_active");t.deleted+=1,t.active-=1,this.model.contents.includeDeleted||this.removeItemView(e),this.model.set("contents_active",t)},_handleItemUndeletion:function(e){var t=this.model.get("contents_active");t.deleted-=1,this.model.contents.includeDeleted||(t.active-=1),this.model.set("contents_active",t)},_handleItemVisibleChange:function(e){e.hidden()?this._handleItemHidden(e):this._handleItemUnhidden(e),this._renderCounts()},_handleItemHidden:function(e){var t=this.model.get("contents_active");t.hidden+=1,t.active-=1,this.model.contents.includeHidden||this.removeItemView(e),this.model.set("contents_active",t)},_handleItemUnhidden:function(e){var t=this.model.get("contents_active");t.hidden-=1,this.model.contents.includeHidden||(t.active-=1),this.model.set("contents_active",t)},toggleHDATagEditors:function(e,t){a.each(this.views,function(i){i.tagsEditor&&i.tagsEditor.toggle(e,t)})},toggleHDAAnnotationEditors:function(e,t){a.each(this.views,function(i){i.annotationEditor&&i.annotationEditor.toggle(e,t)})},events:a.extend(a.clone(_.prototype.events),{"click .show-selectors-btn":"toggleSelectors","click .toggle-deleted-link":function(e){this.toggleShowDeleted()},"click .toggle-hidden-link":function(e){this.toggleShowHidden()}}),_renderSearchProgress:function(e,t){var i=e+t;return this.$("> .controls .subtitle").html(["",v("Searching "),i,"/",this.model.contentsShown(),""].join(""))},_renderSearchFindings:function(){return this.$("> .controls .subtitle").html([v("Found"),this.views.length].join(" ")),this},dropTargetOn:function(){if(this.dropTarget)return this;this.dropTarget=!0;var e={dragenter:a.bind(this.dragenter,this),dragover:a.bind(this.dragover,this),dragleave:a.bind(this.dragleave,this),drop:a.bind(this.drop,this)},t=this._renderDropTarget();this.$list().before([this._renderDropTargetHelp(),t]);for(var i in e)e.hasOwnProperty(i)&&t.on(i,e[i]);return this},_renderDropTarget:function(){return this.$(".history-drop-target").remove(),r("
            ").addClass("history-drop-target")},_renderDropTargetHelp:function(){return this.$(".history-drop-target-help").remove(),r("
            ").addClass("history-drop-target-help").text(v("Drag datasets here to copy them to the current history"))},dropTargetOff:function(){if(!this.dropTarget)return this;this.dropTarget=!1;var e=this.$(".history-drop-target").get(0);for(var t in this._dropHandlers)this._dropHandlers.hasOwnProperty(t)&&e.off(t,this._dropHandlers[t]);return this.$(".history-drop-target").remove(),this.$(".history-drop-target-help").remove(),this},dropTargetToggle:function(){return this.dropTarget?this.dropTargetOff():this.dropTargetOn(),this},dragenter:function(e){e.preventDefault(),e.stopPropagation(),this.$(".history-drop-target").css("border","2px solid black")},dragover:function(e){e.preventDefault(),e.stopPropagation()},dragleave:function(e){e.preventDefault(),e.stopPropagation(),this.$(".history-drop-target").css("border","1px dashed black")},drop:function(e){e.preventDefault();var t=this,i=e.originalEvent.dataTransfer,n=i.getData("text");i.dropEffect="move";try{n=JSON.parse(n)}catch(e){t.warn("error parsing JSON from drop:",n)}return t.trigger("droptarget:drop",e,n,t),!1},dataDropped:function(e){var t=this;return a.isObject(e)&&"HistoryDatasetAssociation"===e.model_class&&e.id?0!==t.contents.currentPage?t.contents.fetchPage(0).then(function(){return t.model.contents.copy(e.id)}):t.model.contents.copy(e.id):o.when()},toString:function(){return"HistoryViewEdit("+(this.model?this.model.get("name"):"")+")"}});return y.prototype.templates=function(){var e=m.wrapTemplate(["<% var shown = Math.max( view.views.length, history.contents_active.active ) %>","<% if( shown ){ %>",'',"<%- shown %> ",v("shown"),"","<% } %>","<% if( history.contents_active.deleted ){ %>",'',"<% if( view.model.contents.includeDeleted ){ %>",'',v("hide deleted"),"","<% } else { %>","<%- history.contents_active.deleted %> ",'',v("deleted"),"","<% } %>","","<% } %>","<% if( history.contents_active.hidden ){ %>",'',"<% if( view.model.contents.includeHidden ){ %>",'',v("hide hidden"),"","<% } else { %>","<%- history.contents_active.hidden %> ",'',v("hidden"),"","<% } %>","","<% } %>"],"history");return a.extend(a.clone(_.prototype.templates),{counts:e})}(),{HistoryViewEdit:y}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(1),i(2),i(1))},function(e,t,i){var n,s;(function(o,a){n=[i(81),i(80),i(43),i(44),i(76),i(78),i(85),i(83),i(18),i(6),i(5),i(88)],s=function(e,t,i,n,s,r,l,c,d,h,u){"use strict";var p=e.ModelListPanel,g=p.extend({_logNamespace:"history",HDAViewClass:s.HDAListItemView,HDCAViewClass:r.HDCAListItemView,collectionClass:i.HistoryContents,modelCollectionKey:"contents",tagName:"div",className:p.prototype.className+" history-panel",emptyMsg:u("This history is empty"),noneFoundMsg:u("No matching datasets found"),searchPlaceholder:u("search datasets"),FETCH_COLLECTION_COUNTS_DELAY:2e3,initialize:function(e){p.prototype.initialize.call(this,e),this.linkTarget=e.linkTarget||"_blank"},_createDefaultCollection:function(){return new this.collectionClass([],{history:this.model})},freeModel:function(){return p.prototype.freeModel.call(this),this.model&&this.model.clearUpdateTimeout(),this},_setUpListeners:function(){p.prototype._setUpListeners.call(this),this.on({error:function(e,t,i,n,s){this.errorHandler(e,t,i,n,s)},"loading-done":function(){var e=this;o.delay(function(){e.model.contents.fetchCollectionCounts()},e.FETCH_COLLECTION_COUNTS_DELAY)},"views:ready view:attached view:removed":function(e){this._renderSelectButton()},"view:attached":function(e){this.scrollTo(0)}})},loadHistory:function(e,i,n){n=o.extend(n||{silent:!0}),this.info("loadHistory:",e,i,n);var s=this;return s.setModel(new t.History({id:e})),n.silent=!0,s.trigger("loading"),s.model.fetchWithContents(i,n).always(function(){s.render(),s.trigger("loading-done")})},refreshContents:function(e){return this.model?this.model.refresh(e):a.when()},_setUpCollectionListeners:function(){return p.prototype._setUpCollectionListeners.call(this),this.listenTo(this.collection,{"fetching-more":function(){this._toggleContentsLoadingIndicator(!0),this.$emptyMessage().hide()},"fetching-more-done":function(){this._toggleContentsLoadingIndicator(!1)}})},_showLoadingIndicator:function(e,t,i){var n=a('
            ');this.$el.html(n.text(e).slideDown(o.isUndefined(t)?this.fxSpeed:t))},_hideLoadingIndicator:function(e){this.$(".loading-indicator").slideUp(o.isUndefined(e)?this.fxSpeed+200:e,function(){a(this).remove()})},_buildNewRender:function(){var e=p.prototype._buildNewRender.call(this);return this._renderSelectButton(e),e},_renderSelectButton:function(e){if(e=e||this.$el,!this.multiselectActions().length)return null;if(!this.views.length)return this.hideSelectors(),e.find(".controls .actions .show-selectors-btn").remove(),null;var t=e.find(".controls .actions .show-selectors-btn");return t.length?t:d({title:u("Operations on multiple datasets"),classes:"show-selectors-btn",faIcon:"fa-check-square-o"}).prependTo(e.find(".controls .actions"))},_renderEmptyMessage:function(e){var t=this,i=t.$emptyMessage(e),n=t.model.get("contents_active").active<=0;return n?i.empty().append(t.emptyMsg).show():t.searchFor&&t.model.contents.haveSearchDetails()&&!t.views.length?i.empty().append(t.noneFoundMsg).show():(i.hide(),a())},$scrollContainer:function(e){return this.$list(e)},_toggleContentsLoadingIndicator:function(e){e?this.$list().html('
            '):this.$list().find(".contents-loading-indicator").remove()},renderItems:function(e){e=e||this.$el;var t=this,i=t.$list(e);a(".tooltip").remove(),i.empty(),t.views=[];var n=t._filterCollection();return n.length?(t._renderPagination(e),t.views=t._renderSomeItems(n,i)):e.find("> .controls .list-pagination").empty(),t._renderEmptyMessage(e).toggle(!n.length),t.trigger("views:ready",t.views),t.views},_renderPagination:function(e){var t=e.find("> .controls .list-pagination");return this.searchFor||!this.model.contents.shouldPaginate()?t.empty():(t.html(this.templates.pagination({current:this.model.contents.currentPage+1,last:this.model.contents.getLastPage()+1},this)),t.find("select.pages").tooltip(),t)},_renderSomeItems:function(e,t){var i=this,n=[];return t.append(e.map(function(e){var t=i._createItemView(e);return n.push(t),i._renderItemView$el(t)})),n},_filterItem:function(e){var t=this,i=t.model.contents;return(i.includeHidden||!e.hidden())&&(i.includeDeleted||!e.isDeletedOrPurged())&&p.prototype._filterItem.call(t,e)},_getItemViewClass:function(e){var t=e.get("history_content_type");switch(t){case"dataset":return this.HDAViewClass;case"dataset_collection":return this.HDCAViewClass}throw new TypeError("Unknown history_content_type: "+t)},_getItemViewOptions:function(e){var t=p.prototype._getItemViewOptions.call(this,e);return o.extend(t,{linkTarget:this.linkTarget,expanded:this.model.contents.storage.isExpanded(e.id),hasUser:this.model.ownedByCurrUser()})},_setUpItemViewListeners:function(e){var t=this;return p.prototype._setUpItemViewListeners.call(t,e),t.listenTo(e,{expanded:function(e){t.model.contents.storage.addExpanded(e.model)},collapsed:function(e){t.model.contents.storage.removeExpanded(e.model)}})},collapseAll:function(){this.model.contents.storage.clearExpanded(),p.prototype.collapseAll.call(this)},getSelectedModels:function(){var e=p.prototype.getSelectedModels.call(this);return e.historyId=this.collection.historyId,e},events:o.extend(o.clone(p.prototype.events),{"click .show-selectors-btn":"toggleSelectors","click > .controls .prev":"_clickPrevPage","click > .controls .next":"_clickNextPage","change > .controls .pages":"_changePageSelect","click .messages [class$=message]":"clearMessages"}),_clickPrevPage:function(e){this.model.clearUpdateTimeout(),this.model.contents.fetchPrevPage()},_clickNextPage:function(e){this.model.clearUpdateTimeout(),this.model.contents.fetchNextPage()},_changePageSelect:function(e){this.model.clearUpdateTimeout();var t=a(e.currentTarget).val();this.model.contents.fetchPage(t)},toggleShowDeleted:function(e,t){e=void 0!==e?e:!this.model.contents.includeDeleted;var i=this,n=i.model.contents;return n.setIncludeDeleted(e,t),i.trigger("show-deleted",e),n.fetchCurrentPage({renderAll:!0}),e},toggleShowHidden:function(e,t,i){e=void 0!==e?e:!this.model.contents.includeHidden;var n=this,s=n.model.contents;return s.setIncludeHidden(e,i),n.trigger("show-hidden",e),s.fetchCurrentPage({renderAll:!0}),e},_firstSearch:function(e){var t=this,i="> .controls .search-input";if(this.log("onFirstSearch",e),t.model.contents.haveSearchDetails())return void t.searchItems(e);t.$(i).searchInput("toggle-loading"),t.searchFor=e;t.model.contents.progressivelyFetchDetails({silent:!0}).progress(function(e,i,n){t.renderItems(),t.trigger("search:loading-progress",i,n)}).always(function(){t.$el.find(i).searchInput("toggle-loading")}).done(function(){t.searchItems(e,"force")})},clearSearch:function(e){var t=this;return t.searchFor?(t.searchFor="",t.trigger("search:clear",t),t.$("> .controls .search-query").val(""),t.model.contents.fetchCurrentPage({silent:!0}).done(function(){t.renderItems()}),t):t},errorHandler:function(e,t,i){if(!t||0!==t.status||0!==t.readyState){if(this.error(e,t,i),o.isString(e)&&o.isString(t)){var n=e,s=t;return c.errorModal(n,s,i)}return t&&502===t.status?c.badGatewayErrorModal():c.ajaxErrorModal(e,t,i)}},clearMessages:function(e){var t=o.isUndefined(e)?this.$messages().children('[class$="message"]'):a(e.currentTarget);return t.fadeOut(this.fxSpeed,function(){a(this).remove()}),this},scrollToHid:function(e){return this.scrollToItem(o.first(this.viewsWhereModel({hid:e})))},ordinalIndicator:function(e){var t=e+"";switch(t.charAt(t.length-1)){case"1":return t+"st";case"2":return t+"nd";case"3":return t+"rd";default:return t+"th"}},toString:function(){return"HistoryView("+(this.model?this.model.get("name"):"")+")"}});return g.prototype.templates=function(){var e=h.wrapTemplate(["
            ",'
            ','
              ','
              ',"
              "]),t=h.wrapTemplate(['
              ','
              ','
              <%- history.name %>
              ',"
              ",'
              ','
              <%- history.nice_size %>
              ','
              ','
              ',"<% if( history.deleted && history.purged ){ %>",'
              ',u("This history has been purged and deleted"),"
              ","<% } else if( history.deleted ){ %>",'
              ',u("This history has been deleted"),"
              ","<% } else if( history.purged ){ %>",'
              ',u("This history has been purged"),"
              ","<% } %>","<% if( history.message ){ %>",'
              messagesmall">',"<%= history.message.text %>","
              ","<% } %>","
              ",'
              ','
              ','
              ','
              ',"
              ",'
              ','
              ','",'","
              ",'
              ',"
              ","
              ",'
              ',"
              "],"history"),i=h.wrapTemplate(['','",''],"pages");return o.extend(o.clone(p.prototype.templates),{el:e,controls:t,pagination:i})}(),{HistoryView:g}}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(2),i(1))},function(e,t,i){var n,s;(function(o,a){n=[i(84),i(113),i(6),i(5),i(29)],s=function(e,t,i,n,s){"use strict";function r(e,t,i){return a.clone(l).filter(function(n){return!(e&&!n.anon)&&(!(!t&&n.purge)&&(n.href&&(n.href=i+n.href,n.target="galaxy_main"),n.confirm&&(n.func=function(){confirm(n.confirm)&&(galaxy_main.location=n.href)}),!0))})}var l=[{html:n("History Lists"),header:!0},{html:n("Saved Histories"),href:"history/list"},{html:n("Histories Shared with Me"),href:"history/list_shared"},{html:n("Current History"),header:!0,anon:!0},{html:n("Create New"),func:function(){Galaxy&&Galaxy.currHistoryPanel&&Galaxy.currHistoryPanel.createNewHistory()}},{html:n("Copy History"),func:function(){t(Galaxy.currHistoryPanel.model).done(function(){Galaxy.currHistoryPanel.loadCurrentHistory()})}},{html:n("Share or Publish"),href:"history/sharing"},{html:n("Show Structure"),href:"history/display_structured",anon:!0},{html:n("Extract Workflow"),href:"workflow/build_from_current_history"},{html:n("Delete"),anon:!0,func:function(){Galaxy&&Galaxy.currHistoryPanel&&confirm(n("Really delete the current history?"))&&(galaxy_main.window.location.href="history/delete?id="+Galaxy.currHistoryPanel.model.id)}},{html:n("Delete Permanently"),purge:!0,anon:!0,func:function(){Galaxy&&Galaxy.currHistoryPanel&&confirm(n("Really delete the current history permanently? This cannot be undone."))&&(galaxy_main.window.location.href="history/delete?purge=True&id="+Galaxy.currHistoryPanel.model.id)}},{html:n("Dataset Actions"),header:!0,anon:!0},{html:n("Copy Datasets"),href:"dataset/copy_datasets"},{html:n("Dataset Security"),href:"root/history_set_default_permissions"},{html:n("Resume Paused Jobs"),href:"history/resume_paused_jobs?current=True",anon:!0},{html:n("Collapse Expanded Datasets"),func:function(){Galaxy&&Galaxy.currHistoryPanel&&Galaxy.currHistoryPanel.collapseAll()}},{html:n("Unhide Hidden Datasets"),anon:!0,func:function(){Galaxy&&Galaxy.currHistoryPanel&&confirm(n("Really unhide all hidden datasets?"))&&o.post(Galaxy.root+"history/adjust_hidden",{user_action:"unhide"},function(){Galaxy.currHistoryPanel.loadCurrentHistory()})}},{html:n("Delete Hidden Datasets"),anon:!0,func:function(){Galaxy&&Galaxy.currHistoryPanel&&confirm(n("Really delete all hidden datasets?"))&&o.post(Galaxy.root+"history/adjust_hidden",{user_action:"delete"},function(){Galaxy.currHistoryPanel.loadCurrentHistory()})}},{html:n("Purge Deleted Datasets"),confirm:n("Really delete all deleted datasets permanently? This cannot be undone."),href:"history/purge_deleted_datasets",purge:!0,anon:!0},{html:n("Downloads"),header:!0},{html:n("Export Tool Citations"),href:"history/citations",anon:!0},{html:n("Export History to File"),href:"history/export_archive?preview=True",anon:!0},{html:n("Other Actions"),header:!0},{html:n("Import from File"),href:"history/import_archive"}];s.add({url:"api/webhooks/history-menu/all",async:!1,callback:function(e){var t=[];o.each(e.models,function(e,i){var s=i.toJSON();s.activate&&t.push({html:n(s.config.title),anon:!0})}),t.length>0&&(t.unshift({html:n("Webhooks"),header:!0}),o.merge(l,t))}});var c=function(t,i){i=i||{};var n=void 0===i.anonymous||i.anonymous,s=i.purgeAllowed||!1,o=r(n,s,Galaxy.root);return new e(t,o)};return c}.apply(t,n),!(void 0!==s&&(e.exports=s))}).call(t,i(1),i(2))},function(e,t,i){var n,s;(function(o,a){n=[i(4)],s=function(e){var t=o.View.extend({initialize:function(e){this.collection=new o.Collection,this.model=e&&e.model||new o.Model({onchange:null,visible:!0}).set(e),this.setElement(a(this._template())),this.$nav=this.$(".tab-navigation"),this.$content=this.$(".tab-content"),this.$el.on("click",function(){a(".tooltip").hide()}),this.render(),this.listenTo(this.model,"change",this.render,this),this.listenTo(this.collection,"add",this._add,this),this.listenTo(this.collection,"remove",this._remove,this),this.listenTo(this.collection,"change",this._change,this),this.listenTo(this.collection,"reset",this._reset,this),this.listenTo(this.collection,"add remove reset",this.render,this)},render:function(){var e=this.model.get("current");e=this.$("#"+e).length>0?e:this.first(),e&&(this.$nav.children().removeClass("active"),this.$content.children().removeClass("active"),this.$("#tab-"+e).addClass("active"),this.$("#"+e).addClass("active")),this.$el[this.model.get("visible")?"fadeIn":"fadeOut"]("fast"),this.$nav[this.size()>1?"show":"hide"]()},current:function(){return this.model.get("current")},show:function(e){e&&(this.model.set({current:e,visible:!0}),this.model.get("onchange")&&this.model.get("onchange")(e))},hide:function(){this.model.set("visible",!1)},first:function(){var e=this.collection.first();return e&&e.id},size:function(){return this.collection.length},add:function(e){this.collection.add(e)},del:function(e){this.collection.remove(e)},delAll:function(){this.collection.reset()},showTab:function(e){this.collection.get(e).set("hidden",!1)},hideTab:function(e){this.collection.get(e).set("hidden",!0)},_add:function(e){var t=this,i=e.attributes;this.$content.append(a("
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