diff --git a/client/galaxy/scripts/mvc/library/library-dataset-view.js b/client/galaxy/scripts/mvc/library/library-dataset-view.js
index 909158d1523..6e7dd35ab5c 100644
--- a/client/galaxy/scripts/mvc/library/library-dataset-view.js
+++ b/client/galaxy/scripts/mvc/library/library-dataset-view.js
@@ -116,7 +116,7 @@ var LibraryDatasetView = Backbone.View.extend({
   },
 
   downloadDataset: function(){
-    var url = '/api/libraries/datasets/download/uncompressed';
+    var url = ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets/download/uncompressed';
     var data = {'ld_ids' : this.id};
     this.processDownload(url, data);
   },
@@ -232,7 +232,7 @@ var LibraryDatasetView = Backbone.View.extend({
 
     var self = this;
     if (this.options.fetched_permissions === undefined){
-      $.get( "/api/libraries/datasets/" + self.id + "/permissions?scope=current").done(function(fetched_permissions) {
+      $.get( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?scope=current").done(function(fetched_permissions) {
         self.prepareSelectBoxes({fetched_permissions:fetched_permissions, is_admin:is_admin});
       }).fail(function(){
           mod_toastr.error('An error occurred while attempting to fetch dataset permissions.');
@@ -273,7 +273,7 @@ var LibraryDatasetView = Backbone.View.extend({
               placeholder: 'Click to select a role',
               container: self.$el.find('#access_perm'),
               ajax: {
-                  url: "/api/libraries/datasets/" + self.id + "/permissions?scope=available",
+                  url: ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?scope=available",
                   dataType: 'json',
                   quietMillis: 100,
                   data: function (term, page) { // page is the one-based page number tracked by Select2
@@ -320,7 +320,7 @@ var LibraryDatasetView = Backbone.View.extend({
               placeholder: 'Click to select a role',
               container: self.$el.find('#modify_perm'),
               ajax: {
-                  url: "/api/libraries/datasets/" + self.id + "/permissions?scope=available",
+                  url: ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?scope=available",
                   dataType: 'json',
                   quietMillis: 100,
                   data: function (term, page) { // page is the one-based page number tracked by Select2
@@ -367,7 +367,7 @@ var LibraryDatasetView = Backbone.View.extend({
               placeholder: 'Click to select a role',
               container: self.$el.find('#manage_perm'),
               ajax: {
-                  url: "/api/libraries/datasets/" + self.id + "/permissions?scope=available",
+                  url: ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?scope=available",
                   dataType: 'json',
                   quietMillis: 100,
                   data: function (term, page) { // page is the one-based page number tracked by Select2
@@ -413,7 +413,7 @@ var LibraryDatasetView = Backbone.View.extend({
             self.manageSelectObject = new mod_select.View(manage_select_options);
         } else { // Non-admins have select with pre-loaded options
             var template = self.templateAccessSelect();
-            $.get( "/api/libraries/datasets/" + self.id + "/permissions?scope=available", function( data ) {
+            $.get( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?scope=available", function( data ) {
                 $('.access_perm').html(template({options:data.roles}));
                 self.accessSelectObject = $('#access_select').select2();
             }).fail(function() {
@@ -436,7 +436,7 @@ var LibraryDatasetView = Backbone.View.extend({
 
   makeDatasetPrivate: function(){
     var self = this;
-    $.post("/api/libraries/datasets/" + self.id + "/permissions?action=make_private").done(function(fetched_permissions) {
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?action=make_private").done(function(fetched_permissions) {
       self.model.set({is_unrestricted:false});
       self.showPermissions({fetched_permissions:fetched_permissions})
       mod_toastr.success('The dataset is now private to you.');
@@ -447,7 +447,7 @@ var LibraryDatasetView = Backbone.View.extend({
 
   removeDatasetRestrictions: function(){
     var self = this;
-    $.post("/api/libraries/datasets/" + self.id + "/permissions?action=remove_restrictions")
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?action=remove_restrictions")
     .done(function(fetched_permissions) {
       self.model.set({is_unrestricted:true});
       self.showPermissions({fetched_permissions:fetched_permissions})
@@ -478,7 +478,7 @@ var LibraryDatasetView = Backbone.View.extend({
       modify_ids.push(modify_roles[i].id);
     };
 
-    $.post("/api/libraries/datasets/" + self.id + "/permissions?action=set_permissions", { 'access_ids[]': access_ids, 'manage_ids[]': manage_ids, 'modify_ids[]': modify_ids, } )
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?action=set_permissions", { 'access_ids[]': access_ids, 'manage_ids[]': manage_ids, 'modify_ids[]': modify_ids, } )
     .done(function(fetched_permissions){
       //fetch dataset again
       self.showPermissions({fetched_permissions:fetched_permissions})
diff --git a/client/galaxy/scripts/mvc/library/library-folder-view.js b/client/galaxy/scripts/mvc/library/library-folder-view.js
index 45179c3450a..567e1060e67 100644
--- a/client/galaxy/scripts/mvc/library/library-folder-view.js
+++ b/client/galaxy/scripts/mvc/library/library-folder-view.js
@@ -81,7 +81,7 @@ var FolderView = Backbone.View.extend({
 
     var self = this;
     if (this.options.fetched_permissions === undefined){
-      $.get( "/api/folders/" + self.id + "/permissions?scope=current").done(function(fetched_permissions) {
+      $.get( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/folders/" + self.id + "/permissions?scope=current").done(function(fetched_permissions) {
         self.prepareSelectBoxes({fetched_permissions:fetched_permissions});
       }).fail(function(){
           mod_toastr.error('An error occurred while attempting to fetch folder permissions.');
@@ -125,7 +125,7 @@ var FolderView = Backbone.View.extend({
       placeholder: 'Click to select a role',
       container: self.$el.find('#' + id),
       ajax: {
-          url: "/api/folders/" + self.id + "/permissions?scope=available",
+          url: ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/folders/" + self.id + "/permissions?scope=available",
           dataType: 'json',
           quietMillis: 100,
           data: function (term, page) { // page is the one-based page number tracked by Select2
@@ -195,7 +195,7 @@ var FolderView = Backbone.View.extend({
     var manage_ids = this._extractIds(this.manageSelectObject.$el.select2('data'));
     var modify_ids = this._extractIds(this.modifySelectObject.$el.select2('data'));
 
-    $.post("/api/folders/" + self.id + "/permissions?action=set_permissions", { 'add_ids[]': add_ids, 'manage_ids[]': manage_ids, 'modify_ids[]': modify_ids, } )
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/folders/" + self.id + "/permissions?action=set_permissions", { 'add_ids[]': add_ids, 'manage_ids[]': manage_ids, 'modify_ids[]': modify_ids, } )
     .done(function(fetched_permissions){
       //fetch dataset again
       self.showPermissions({fetched_permissions:fetched_permissions})
diff --git a/client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js b/client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js
index f27c78e14fe..d010a0e7571 100644
--- a/client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js
+++ b/client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js
@@ -294,7 +294,7 @@ var FolderToolbarView = Backbone.View.extend({
                 dataset_ids.push( this.parentElement.parentElement.id );
             }
         } );
-    var url = '/api/libraries/datasets/download/' + format;
+    var url = ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets/download/' + format;
     var data = { 'ld_ids' : dataset_ids };
     this.processDownload( url, data, 'get' );
   },
@@ -386,7 +386,7 @@ var FolderToolbarView = Backbone.View.extend({
   fetchExtAndGenomes: function(){
     var that = this;
     mod_utils.get({
-        url      :  galaxy_config.root + "api/datatypes?extension_only=False",
+        url      :  ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/datatypes?extension_only=False",
         success  :  function( datatypes ) {
                         for (key in datatypes) {
                             that.list_extensions.push({
@@ -403,7 +403,7 @@ var FolderToolbarView = Backbone.View.extend({
                     }
       });
     mod_utils.get({
-        url:    galaxy_config.root + "api/genomes",
+        url:    ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/genomes",
         success: function( genomes ) {
                     for ( key in genomes ) {
                         that.list_genomes.push({
@@ -689,7 +689,7 @@ var FolderToolbarView = Backbone.View.extend({
       for ( var i = history_dataset_ids.length - 1; i >= 0; i-- ) {
         history_dataset_id = history_dataset_ids[i];
         var folder_item = new mod_library_model.Item();
-        folder_item.url = '/api/folders/' + this.options.id + '/contents';
+        folder_item.url = ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/folders/' + this.options.id + '/contents';
         folder_item.set( { 'from_hda_id':history_dataset_id } );
         hdas_to_add.push( folder_item );
       }
@@ -749,7 +749,7 @@ var FolderToolbarView = Backbone.View.extend({
       }
       return true;
     }
-    var promise = $.when( $.post( '/api/libraries/datasets?encoded_folder_id=' + that.id + 
+    var promise = $.when( $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets?encoded_folder_id=' + that.id + 
                                                        '&source=' + options.source +
                                                        '&path=' + popped_item +
                                                        '&file_type=' + options.file_type +
@@ -788,7 +788,7 @@ var FolderToolbarView = Backbone.View.extend({
       }
       return true;
     }
-    var promise = $.when( $.post( '/api/libraries/datasets?encoded_folder_id=' + that.id +
+    var promise = $.when( $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets?encoded_folder_id=' + that.id +
                                                           '&source=' + options.source +
                                                           '&path=' + popped_item +
                                                           '&preserve_dirs=' + options.preserve_dirs +
diff --git a/client/galaxy/scripts/mvc/library/library-library-view.js b/client/galaxy/scripts/mvc/library/library-library-view.js
index 425b4eaa115..a93f7bcba1e 100644
--- a/client/galaxy/scripts/mvc/library/library-library-view.js
+++ b/client/galaxy/scripts/mvc/library/library-library-view.js
@@ -87,7 +87,7 @@ var LibraryView = Backbone.View.extend({
 
     var self = this;
     if (this.options.fetched_permissions === undefined){
-      $.get( "/api/libraries/" + self.id + "/permissions?scope=current").done(function(fetched_permissions) {
+      $.get( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/" + self.id + "/permissions?scope=current").done(function(fetched_permissions) {
         self.prepareSelectBoxes({fetched_permissions:fetched_permissions});
       }).fail(function(){
           mod_toastr.error('An error occurred while attempting to fetch library permissions.');
@@ -134,7 +134,7 @@ var LibraryView = Backbone.View.extend({
       placeholder: 'Click to select a role',
       container: self.$el.find('#' + id),
       ajax: {
-          url: "/api/libraries/" + self.id + "/permissions?scope=available&is_library_access=" + is_library_access,
+          url: ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/" + self.id + "/permissions?scope=available&is_library_access=" + is_library_access,
           dataType: 'json',
           quietMillis: 100,
           data: function (term, page) { // page is the one-based page number tracked by Select2
@@ -193,7 +193,7 @@ var LibraryView = Backbone.View.extend({
 
   makeDatasetPrivate: function(){
     var self = this;
-    $.post("/api/libraries/datasets/" + self.id + "/permissions?action=make_private").done(function(fetched_permissions) {
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?action=make_private").done(function(fetched_permissions) {
       self.model.set({is_unrestricted:false});
       self.showPermissions({fetched_permissions:fetched_permissions})
       mod_toastr.success('The dataset is now private to you.');
@@ -204,7 +204,7 @@ var LibraryView = Backbone.View.extend({
 
   removeDatasetRestrictions: function(){
     var self = this;
-    $.post("/api/libraries/datasets/" + self.id + "/permissions?action=remove_restrictions")
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?action=remove_restrictions")
     .done(function(fetched_permissions) {
       self.model.set({is_unrestricted:true});
       self.showPermissions({fetched_permissions:fetched_permissions})
@@ -230,7 +230,7 @@ var LibraryView = Backbone.View.extend({
     var manage_ids = this._extractIds(this.manageSelectObject.$el.select2('data'));
     var modify_ids = this._extractIds(this.modifySelectObject.$el.select2('data'));
 
-    $.post("/api/libraries/" + self.id + "/permissions?action=set_permissions", { 'access_ids[]': access_ids, 'add_ids[]': add_ids, 'manage_ids[]': manage_ids, 'modify_ids[]': modify_ids, } )
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/" + self.id + "/permissions?action=set_permissions", { 'access_ids[]': access_ids, 'add_ids[]': add_ids, 'manage_ids[]': manage_ids, 'modify_ids[]': modify_ids, } )
     .done(function(fetched_permissions){
       //fetch dataset again
       self.showPermissions({fetched_permissions:fetched_permissions})
diff --git a/client/galaxy/scripts/mvc/library/library-model.js b/client/galaxy/scripts/mvc/library/library-model.js
index aa3cfc9d378..e8c1b214feb 100644
--- a/client/galaxy/scripts/mvc/library/library-model.js
+++ b/client/galaxy/scripts/mvc/library/library-model.js
@@ -4,7 +4,7 @@ define([], function() {
 // LIBRARY RELATED MODELS
 
     var Library = Backbone.Model.extend({
-      urlRoot: '/api/libraries/',
+      urlRoot: ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/',
 
       /** based on show_deleted would this lib show in the list of lib's?
        *  @param {Boolean} show_deleted are we including deleted libraries?
@@ -19,7 +19,7 @@ define([], function() {
     });
 
     var Libraries = Backbone.Collection.extend({
-      url: '/api/libraries',
+      url: ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries',
 
       model: Library,
 
@@ -84,15 +84,15 @@ define([], function() {
 // FOLDER RELATED MODELS
 
     var Item = Backbone.Model.extend({
-      urlRoot : '/api/libraries/datasets/'
+      urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets/'
     });
 
     var Ldda = Backbone.Model.extend({
-      urlRoot : '/api/libraries/datasets/'
+      urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets/'
     });
 
     var FolderAsModel = Backbone.Model.extend({
-      urlRoot: '/api/folders'
+      urlRoot: ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/folders'
     });
 
     var Folder = Backbone.Collection.extend({
@@ -152,7 +152,7 @@ define([], function() {
     var FolderContainer = Backbone.Model.extend({
         defaults : {
             folder : new Folder(),
-            urlRoot : "/api/folders/",
+            urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/folders/',
             id : "unknown"
         },
     parse : function(obj) {
@@ -169,11 +169,11 @@ define([], function() {
 // TODO UNITE
 
     var HistoryItem = Backbone.Model.extend({
-      urlRoot : '/api/histories/'
+      urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/histories/'
     });
 
     var HistoryContents = Backbone.Collection.extend({
-      urlRoot : '/api/histories/',
+      urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/histories/',
       initialize: function(options){
         this.id = options.id;
       },
@@ -184,11 +184,11 @@ define([], function() {
     });
 
     var GalaxyHistory = Backbone.Model.extend({
-      urlRoot : '/api/histories/'
+      urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/histories/'
     });
 
     var GalaxyHistories = Backbone.Collection.extend({
-      url : '/api/histories',
+      url : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/histories',
       model : GalaxyHistory
     });
 
@@ -199,7 +199,7 @@ define([], function() {
      */
     
     var Jstree = Backbone.Model.extend({
-      urlRoot: '/api/remote_files'
+      urlRoot: ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/remote_files'
     });
 
 return {
diff --git a/static/scripts/mvc/library/library-dataset-view.js b/static/scripts/mvc/library/library-dataset-view.js
index 909158d1523..6e7dd35ab5c 100644
--- a/static/scripts/mvc/library/library-dataset-view.js
+++ b/static/scripts/mvc/library/library-dataset-view.js
@@ -116,7 +116,7 @@ var LibraryDatasetView = Backbone.View.extend({
   },
 
   downloadDataset: function(){
-    var url = '/api/libraries/datasets/download/uncompressed';
+    var url = ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets/download/uncompressed';
     var data = {'ld_ids' : this.id};
     this.processDownload(url, data);
   },
@@ -232,7 +232,7 @@ var LibraryDatasetView = Backbone.View.extend({
 
     var self = this;
     if (this.options.fetched_permissions === undefined){
-      $.get( "/api/libraries/datasets/" + self.id + "/permissions?scope=current").done(function(fetched_permissions) {
+      $.get( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?scope=current").done(function(fetched_permissions) {
         self.prepareSelectBoxes({fetched_permissions:fetched_permissions, is_admin:is_admin});
       }).fail(function(){
           mod_toastr.error('An error occurred while attempting to fetch dataset permissions.');
@@ -273,7 +273,7 @@ var LibraryDatasetView = Backbone.View.extend({
               placeholder: 'Click to select a role',
               container: self.$el.find('#access_perm'),
               ajax: {
-                  url: "/api/libraries/datasets/" + self.id + "/permissions?scope=available",
+                  url: ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?scope=available",
                   dataType: 'json',
                   quietMillis: 100,
                   data: function (term, page) { // page is the one-based page number tracked by Select2
@@ -320,7 +320,7 @@ var LibraryDatasetView = Backbone.View.extend({
               placeholder: 'Click to select a role',
               container: self.$el.find('#modify_perm'),
               ajax: {
-                  url: "/api/libraries/datasets/" + self.id + "/permissions?scope=available",
+                  url: ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?scope=available",
                   dataType: 'json',
                   quietMillis: 100,
                   data: function (term, page) { // page is the one-based page number tracked by Select2
@@ -367,7 +367,7 @@ var LibraryDatasetView = Backbone.View.extend({
               placeholder: 'Click to select a role',
               container: self.$el.find('#manage_perm'),
               ajax: {
-                  url: "/api/libraries/datasets/" + self.id + "/permissions?scope=available",
+                  url: ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?scope=available",
                   dataType: 'json',
                   quietMillis: 100,
                   data: function (term, page) { // page is the one-based page number tracked by Select2
@@ -413,7 +413,7 @@ var LibraryDatasetView = Backbone.View.extend({
             self.manageSelectObject = new mod_select.View(manage_select_options);
         } else { // Non-admins have select with pre-loaded options
             var template = self.templateAccessSelect();
-            $.get( "/api/libraries/datasets/" + self.id + "/permissions?scope=available", function( data ) {
+            $.get( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?scope=available", function( data ) {
                 $('.access_perm').html(template({options:data.roles}));
                 self.accessSelectObject = $('#access_select').select2();
             }).fail(function() {
@@ -436,7 +436,7 @@ var LibraryDatasetView = Backbone.View.extend({
 
   makeDatasetPrivate: function(){
     var self = this;
-    $.post("/api/libraries/datasets/" + self.id + "/permissions?action=make_private").done(function(fetched_permissions) {
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?action=make_private").done(function(fetched_permissions) {
       self.model.set({is_unrestricted:false});
       self.showPermissions({fetched_permissions:fetched_permissions})
       mod_toastr.success('The dataset is now private to you.');
@@ -447,7 +447,7 @@ var LibraryDatasetView = Backbone.View.extend({
 
   removeDatasetRestrictions: function(){
     var self = this;
-    $.post("/api/libraries/datasets/" + self.id + "/permissions?action=remove_restrictions")
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?action=remove_restrictions")
     .done(function(fetched_permissions) {
       self.model.set({is_unrestricted:true});
       self.showPermissions({fetched_permissions:fetched_permissions})
@@ -478,7 +478,7 @@ var LibraryDatasetView = Backbone.View.extend({
       modify_ids.push(modify_roles[i].id);
     };
 
-    $.post("/api/libraries/datasets/" + self.id + "/permissions?action=set_permissions", { 'access_ids[]': access_ids, 'manage_ids[]': manage_ids, 'modify_ids[]': modify_ids, } )
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?action=set_permissions", { 'access_ids[]': access_ids, 'manage_ids[]': manage_ids, 'modify_ids[]': modify_ids, } )
     .done(function(fetched_permissions){
       //fetch dataset again
       self.showPermissions({fetched_permissions:fetched_permissions})
diff --git a/static/scripts/mvc/library/library-folder-view.js b/static/scripts/mvc/library/library-folder-view.js
index 45179c3450a..567e1060e67 100644
--- a/static/scripts/mvc/library/library-folder-view.js
+++ b/static/scripts/mvc/library/library-folder-view.js
@@ -81,7 +81,7 @@ var FolderView = Backbone.View.extend({
 
     var self = this;
     if (this.options.fetched_permissions === undefined){
-      $.get( "/api/folders/" + self.id + "/permissions?scope=current").done(function(fetched_permissions) {
+      $.get( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/folders/" + self.id + "/permissions?scope=current").done(function(fetched_permissions) {
         self.prepareSelectBoxes({fetched_permissions:fetched_permissions});
       }).fail(function(){
           mod_toastr.error('An error occurred while attempting to fetch folder permissions.');
@@ -125,7 +125,7 @@ var FolderView = Backbone.View.extend({
       placeholder: 'Click to select a role',
       container: self.$el.find('#' + id),
       ajax: {
-          url: "/api/folders/" + self.id + "/permissions?scope=available",
+          url: ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/folders/" + self.id + "/permissions?scope=available",
           dataType: 'json',
           quietMillis: 100,
           data: function (term, page) { // page is the one-based page number tracked by Select2
@@ -195,7 +195,7 @@ var FolderView = Backbone.View.extend({
     var manage_ids = this._extractIds(this.manageSelectObject.$el.select2('data'));
     var modify_ids = this._extractIds(this.modifySelectObject.$el.select2('data'));
 
-    $.post("/api/folders/" + self.id + "/permissions?action=set_permissions", { 'add_ids[]': add_ids, 'manage_ids[]': manage_ids, 'modify_ids[]': modify_ids, } )
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/folders/" + self.id + "/permissions?action=set_permissions", { 'add_ids[]': add_ids, 'manage_ids[]': manage_ids, 'modify_ids[]': modify_ids, } )
     .done(function(fetched_permissions){
       //fetch dataset again
       self.showPermissions({fetched_permissions:fetched_permissions})
diff --git a/static/scripts/mvc/library/library-foldertoolbar-view.js b/static/scripts/mvc/library/library-foldertoolbar-view.js
index f27c78e14fe..d010a0e7571 100644
--- a/static/scripts/mvc/library/library-foldertoolbar-view.js
+++ b/static/scripts/mvc/library/library-foldertoolbar-view.js
@@ -294,7 +294,7 @@ var FolderToolbarView = Backbone.View.extend({
                 dataset_ids.push( this.parentElement.parentElement.id );
             }
         } );
-    var url = '/api/libraries/datasets/download/' + format;
+    var url = ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets/download/' + format;
     var data = { 'ld_ids' : dataset_ids };
     this.processDownload( url, data, 'get' );
   },
@@ -386,7 +386,7 @@ var FolderToolbarView = Backbone.View.extend({
   fetchExtAndGenomes: function(){
     var that = this;
     mod_utils.get({
-        url      :  galaxy_config.root + "api/datatypes?extension_only=False",
+        url      :  ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/datatypes?extension_only=False",
         success  :  function( datatypes ) {
                         for (key in datatypes) {
                             that.list_extensions.push({
@@ -403,7 +403,7 @@ var FolderToolbarView = Backbone.View.extend({
                     }
       });
     mod_utils.get({
-        url:    galaxy_config.root + "api/genomes",
+        url:    ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/genomes",
         success: function( genomes ) {
                     for ( key in genomes ) {
                         that.list_genomes.push({
@@ -689,7 +689,7 @@ var FolderToolbarView = Backbone.View.extend({
       for ( var i = history_dataset_ids.length - 1; i >= 0; i-- ) {
         history_dataset_id = history_dataset_ids[i];
         var folder_item = new mod_library_model.Item();
-        folder_item.url = '/api/folders/' + this.options.id + '/contents';
+        folder_item.url = ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/folders/' + this.options.id + '/contents';
         folder_item.set( { 'from_hda_id':history_dataset_id } );
         hdas_to_add.push( folder_item );
       }
@@ -749,7 +749,7 @@ var FolderToolbarView = Backbone.View.extend({
       }
       return true;
     }
-    var promise = $.when( $.post( '/api/libraries/datasets?encoded_folder_id=' + that.id + 
+    var promise = $.when( $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets?encoded_folder_id=' + that.id + 
                                                        '&source=' + options.source +
                                                        '&path=' + popped_item +
                                                        '&file_type=' + options.file_type +
@@ -788,7 +788,7 @@ var FolderToolbarView = Backbone.View.extend({
       }
       return true;
     }
-    var promise = $.when( $.post( '/api/libraries/datasets?encoded_folder_id=' + that.id +
+    var promise = $.when( $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets?encoded_folder_id=' + that.id +
                                                           '&source=' + options.source +
                                                           '&path=' + popped_item +
                                                           '&preserve_dirs=' + options.preserve_dirs +
diff --git a/static/scripts/mvc/library/library-library-view.js b/static/scripts/mvc/library/library-library-view.js
index 425b4eaa115..a93f7bcba1e 100644
--- a/static/scripts/mvc/library/library-library-view.js
+++ b/static/scripts/mvc/library/library-library-view.js
@@ -87,7 +87,7 @@ var LibraryView = Backbone.View.extend({
 
     var self = this;
     if (this.options.fetched_permissions === undefined){
-      $.get( "/api/libraries/" + self.id + "/permissions?scope=current").done(function(fetched_permissions) {
+      $.get( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/" + self.id + "/permissions?scope=current").done(function(fetched_permissions) {
         self.prepareSelectBoxes({fetched_permissions:fetched_permissions});
       }).fail(function(){
           mod_toastr.error('An error occurred while attempting to fetch library permissions.');
@@ -134,7 +134,7 @@ var LibraryView = Backbone.View.extend({
       placeholder: 'Click to select a role',
       container: self.$el.find('#' + id),
       ajax: {
-          url: "/api/libraries/" + self.id + "/permissions?scope=available&is_library_access=" + is_library_access,
+          url: ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/" + self.id + "/permissions?scope=available&is_library_access=" + is_library_access,
           dataType: 'json',
           quietMillis: 100,
           data: function (term, page) { // page is the one-based page number tracked by Select2
@@ -193,7 +193,7 @@ var LibraryView = Backbone.View.extend({
 
   makeDatasetPrivate: function(){
     var self = this;
-    $.post("/api/libraries/datasets/" + self.id + "/permissions?action=make_private").done(function(fetched_permissions) {
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?action=make_private").done(function(fetched_permissions) {
       self.model.set({is_unrestricted:false});
       self.showPermissions({fetched_permissions:fetched_permissions})
       mod_toastr.success('The dataset is now private to you.');
@@ -204,7 +204,7 @@ var LibraryView = Backbone.View.extend({
 
   removeDatasetRestrictions: function(){
     var self = this;
-    $.post("/api/libraries/datasets/" + self.id + "/permissions?action=remove_restrictions")
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/datasets/" + self.id + "/permissions?action=remove_restrictions")
     .done(function(fetched_permissions) {
       self.model.set({is_unrestricted:true});
       self.showPermissions({fetched_permissions:fetched_permissions})
@@ -230,7 +230,7 @@ var LibraryView = Backbone.View.extend({
     var manage_ids = this._extractIds(this.manageSelectObject.$el.select2('data'));
     var modify_ids = this._extractIds(this.modifySelectObject.$el.select2('data'));
 
-    $.post("/api/libraries/" + self.id + "/permissions?action=set_permissions", { 'access_ids[]': access_ids, 'add_ids[]': add_ids, 'manage_ids[]': manage_ids, 'modify_ids[]': modify_ids, } )
+    $.post( ( window.galaxy_config ? galaxy_config.root : '/' ) + "api/libraries/" + self.id + "/permissions?action=set_permissions", { 'access_ids[]': access_ids, 'add_ids[]': add_ids, 'manage_ids[]': manage_ids, 'modify_ids[]': modify_ids, } )
     .done(function(fetched_permissions){
       //fetch dataset again
       self.showPermissions({fetched_permissions:fetched_permissions})
diff --git a/static/scripts/mvc/library/library-model.js b/static/scripts/mvc/library/library-model.js
index aa3cfc9d378..e8c1b214feb 100644
--- a/static/scripts/mvc/library/library-model.js
+++ b/static/scripts/mvc/library/library-model.js
@@ -4,7 +4,7 @@ define([], function() {
 // LIBRARY RELATED MODELS
 
     var Library = Backbone.Model.extend({
-      urlRoot: '/api/libraries/',
+      urlRoot: ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/',
 
       /** based on show_deleted would this lib show in the list of lib's?
        *  @param {Boolean} show_deleted are we including deleted libraries?
@@ -19,7 +19,7 @@ define([], function() {
     });
 
     var Libraries = Backbone.Collection.extend({
-      url: '/api/libraries',
+      url: ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries',
 
       model: Library,
 
@@ -84,15 +84,15 @@ define([], function() {
 // FOLDER RELATED MODELS
 
     var Item = Backbone.Model.extend({
-      urlRoot : '/api/libraries/datasets/'
+      urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets/'
     });
 
     var Ldda = Backbone.Model.extend({
-      urlRoot : '/api/libraries/datasets/'
+      urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/libraries/datasets/'
     });
 
     var FolderAsModel = Backbone.Model.extend({
-      urlRoot: '/api/folders'
+      urlRoot: ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/folders'
     });
 
     var Folder = Backbone.Collection.extend({
@@ -152,7 +152,7 @@ define([], function() {
     var FolderContainer = Backbone.Model.extend({
         defaults : {
             folder : new Folder(),
-            urlRoot : "/api/folders/",
+            urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/folders/',
             id : "unknown"
         },
     parse : function(obj) {
@@ -169,11 +169,11 @@ define([], function() {
 // TODO UNITE
 
     var HistoryItem = Backbone.Model.extend({
-      urlRoot : '/api/histories/'
+      urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/histories/'
     });
 
     var HistoryContents = Backbone.Collection.extend({
-      urlRoot : '/api/histories/',
+      urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/histories/',
       initialize: function(options){
         this.id = options.id;
       },
@@ -184,11 +184,11 @@ define([], function() {
     });
 
     var GalaxyHistory = Backbone.Model.extend({
-      urlRoot : '/api/histories/'
+      urlRoot : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/histories/'
     });
 
     var GalaxyHistories = Backbone.Collection.extend({
-      url : '/api/histories',
+      url : ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/histories',
       model : GalaxyHistory
     });
 
@@ -199,7 +199,7 @@ define([], function() {
      */
     
     var Jstree = Backbone.Model.extend({
-      urlRoot: '/api/remote_files'
+      urlRoot: ( window.galaxy_config ? galaxy_config.root : '/' ) + 'api/remote_files'
     });
 
 return {
diff --git a/static/scripts/packed/mvc/library/library-dataset-view.js b/static/scripts/packed/mvc/library/library-dataset-view.js
index 8eefce8c818..aec51fe8244 100644
--- a/static/scripts/packed/mvc/library/library-dataset-view.js
+++ b/static/scripts/packed/mvc/library/library-dataset-view.js
@@ -1 +1 @@
-define(["libs/toastr","mvc/library/library-model","mvc/ui/ui-select"],function(d,c,b){var a=Backbone.View.extend({el:"#center",model:null,options:{},events:{"click .toolbtn_modify_dataset":"enableModification","click .toolbtn_cancel_modifications":"render","click .toolbtn-download-dataset":"downloadDataset","click .toolbtn-import-dataset":"importIntoHistory","click .toolbtn-share-dataset":"shareDataset","click .btn-copy-link-to-clipboard":"copyToClipboard","click .btn-make-private":"makeDatasetPrivate","click .btn-remove-restrictions":"removeDatasetRestrictions","click .toolbtn_save_permissions":"savePermissions","click .toolbtn_save_modifications":"comingSoon",},initialize:function(e){this.options=_.extend(this.options,e);if(this.options.id){this.fetchDataset()}},fetchDataset:function(e){this.options=_.extend(this.options,e);this.model=new c.Item({id:this.options.id});var f=this;this.model.fetch({success:function(){if(f.options.show_permissions){f.showPermissions()}else{if(f.options.show_version){f.fetchVersion()}else{f.render()}}},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error(g.responseJSON.err_msg+" Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}else{d.error("An error ocurred. Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}}})},render:function(e){this.options=_.extend(this.options,e);$(".tooltip").remove();var f=this.templateDataset();this.$el.html(f({item:this.model}));$(".peek").html(this.model.get("peek"));$("#center [data-toggle]").tooltip()},fetchVersion:function(e){this.options=_.extend(this.options,e);that=this;if(!this.options.ldda_id){this.render();d.error("Library dataset version requested but no id provided.")}else{this.ldda=new c.Ldda({id:this.options.ldda_id});this.ldda.url=this.ldda.urlRoot+this.model.id+"/versions/"+this.ldda.id;this.ldda.fetch({success:function(){that.renderVersion()},error:function(g,f){if(typeof f.responseJSON!=="undefined"){d.error(f.responseJSON.err_msg)}else{d.error("An error ocurred.")}}})}},renderVersion:function(){$(".tooltip").remove();var e=this.templateVersion();this.$el.html(e({item:this.model,ldda:this.ldda}));$(".peek").html(this.ldda.get("peek"))},enableModification:function(){$(".tooltip").remove();var e=this.templateModifyDataset();this.$el.html(e({item:this.model}));$(".peek").html(this.model.get("peek"));$("#center [data-toggle]").tooltip()},downloadDataset:function(){var e="/api/libraries/datasets/download/uncompressed";var f={ld_ids:this.id};this.processDownload(e,f)},processDownload:function(f,g,h){if(f&&g){g=typeof g=="string"?g:$.param(g);var e="";$.each(g.split("&"),function(){var i=this.split("=");e+='<input type="hidden" name="'+i[0]+'" value="'+i[1]+'" />'});$('<form action="'+f+'" method="'+(h||"post")+'">'+e+"</form>").appendTo("body").submit().remove();d.info("Your download will begin soon.")}},importIntoHistory:function(){this.refreshUserHistoriesList(function(e){var f=e.templateBulkImportInModal();e.modal=Galaxy.modal;e.modal.show({closing_events:true,title:"Import into History",body:f({histories:e.histories.models}),buttons:{Import:function(){e.importCurrentIntoHistory()},Close:function(){Galaxy.modal.hide()}}})})},refreshUserHistoriesList:function(f){var e=this;this.histories=new c.GalaxyHistories();this.histories.fetch({success:function(g){if(g.length===0){d.warning("You have to create history first. Click this to do so.","",{onclick:function(){window.location="/"}})}else{f(e)}},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error(g.responseJSON.err_msg)}else{d.error("An error ocurred.")}}})},importCurrentIntoHistory:function(){var e=$(this.modal.elMain).find("select[name=dataset_import_single] option:selected").val();var f=new c.HistoryItem();f.url=f.urlRoot+e+"/contents";jQuery.getJSON(galaxy_config.root+"history/set_as_current?id="+e);f.save({content:this.id,source:"library"},{success:function(){Galaxy.modal.hide();d.success("Dataset imported. Click this to start analysing it.","",{onclick:function(){window.location="/"}})},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error("Dataset not imported. "+g.responseJSON.err_msg)}else{d.error("An error occured. Dataset not imported. Please try again.")}}})},shareDataset:function(){d.info("Feature coming soon.")},goBack:function(){Galaxy.libraries.library_router.back()},showPermissions:function(f){this.options=_.extend(this.options,f);$(".tooltip").remove();if(this.options.fetched_permissions!==undefined){if(this.options.fetched_permissions.access_dataset_roles.length===0){this.model.set({is_unrestricted:true})}else{this.model.set({is_unrestricted:false})}}var h=false;if(Galaxy.currUser){h=Galaxy.currUser.isAdmin()}var g=this.templateDatasetPermissions();this.$el.html(g({item:this.model,is_admin:h}));var e=this;if(this.options.fetched_permissions===undefined){$.get("/api/libraries/datasets/"+e.id+"/permissions?scope=current").done(function(i){e.prepareSelectBoxes({fetched_permissions:i,is_admin:h})}).fail(function(){d.error("An error occurred while attempting to fetch dataset permissions.")})}else{this.prepareSelectBoxes({is_admin:h})}$("#center [data-toggle]").tooltip();$("#center").css("overflow","auto")},prepareSelectBoxes:function(r){this.options=_.extend(this.options,r);var s=this.options.fetched_permissions;var k=this.options.is_admin;var q=this;var m=[];for(var h=0;h<s.access_dataset_roles.length;h++){m.push(s.access_dataset_roles[h]+":"+s.access_dataset_roles[h])}var f=[];for(var h=0;h<s.modify_item_roles.length;h++){f.push(s.modify_item_roles[h]+":"+s.modify_item_roles[h])}var g=[];for(var h=0;h<s.manage_dataset_roles.length;h++){g.push(s.manage_dataset_roles[h]+":"+s.manage_dataset_roles[h])}if(k){var o={minimumInputLength:0,css:"access_perm",multiple:true,placeholder:"Click to select a role",container:q.$el.find("#access_perm"),ajax:{url:"/api/libraries/datasets/"+q.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(i,t){return{q:i,page_limit:10,page:t}},results:function(u,t){var i=(t*10)<u.total;return{results:u.roles,more:i}}},formatResult:function j(i){return i.name+" type: "+i.type},formatSelection:function e(i){return i.name},initSelection:function(i,u){var t=[];$(i.val().split(",")).each(function(){var v=this.split(":");t.push({id:v[1],name:v[1]})});u(t)},initialData:m.join(","),dropdownCssClass:"bigdrop"};var l={minimumInputLength:0,css:"modify_perm",multiple:true,placeholder:"Click to select a role",container:q.$el.find("#modify_perm"),ajax:{url:"/api/libraries/datasets/"+q.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(i,t){return{q:i,page_limit:10,page:t}},results:function(u,t){var i=(t*10)<u.total;return{results:u.roles,more:i}}},formatResult:function j(i){return i.name+" type: "+i.type},formatSelection:function e(i){return i.name},initSelection:function(i,u){var t=[];$(i.val().split(",")).each(function(){var v=this.split(":");t.push({id:v[1],name:v[1]})});u(t)},initialData:f.join(","),dropdownCssClass:"bigdrop"};var p={minimumInputLength:0,css:"manage_perm",multiple:true,placeholder:"Click to select a role",container:q.$el.find("#manage_perm"),ajax:{url:"/api/libraries/datasets/"+q.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(i,t){return{q:i,page_limit:10,page:t}},results:function(u,t){var i=(t*10)<u.total;return{results:u.roles,more:i}}},formatResult:function j(i){return i.name+" type: "+i.type},formatSelection:function e(i){return i.name},initSelection:function(i,u){var t=[];$(i.val().split(",")).each(function(){var v=this.split(":");t.push({id:v[1],name:v[1]})});u(t)},initialData:g.join(","),dropdownCssClass:"bigdrop"};q.accessSelectObject=new b.View(o);q.modifySelectObject=new b.View(l);q.manageSelectObject=new b.View(p)}else{var n=q.templateAccessSelect();$.get("/api/libraries/datasets/"+q.id+"/permissions?scope=available",function(i){$(".access_perm").html(n({options:i.roles}));q.accessSelectObject=$("#access_select").select2()}).fail(function(){d.error("An error occurred while attempting to fetch dataset permissions.")})}},comingSoon:function(){d.warning("Feature coming soon.")},copyToClipboard:function(){var e=Backbone.history.location.href;if(e.lastIndexOf("/permissions")!==-1){e=e.substr(0,e.lastIndexOf("/permissions"))}window.prompt("Copy to clipboard: Ctrl+C, Enter",e)},makeDatasetPrivate:function(){var e=this;$.post("/api/libraries/datasets/"+e.id+"/permissions?action=make_private").done(function(f){e.model.set({is_unrestricted:false});e.showPermissions({fetched_permissions:f});d.success("The dataset is now private to you.")}).fail(function(){d.error("An error occurred while attempting to make dataset private.")})},removeDatasetRestrictions:function(){var e=this;$.post("/api/libraries/datasets/"+e.id+"/permissions?action=remove_restrictions").done(function(f){e.model.set({is_unrestricted:true});e.showPermissions({fetched_permissions:f});d.success("Access to this dataset is now unrestricted.")}).fail(function(){d.error("An error occurred while attempting to make dataset unrestricted.")})},savePermissions:function(e){var n=this;var k=this.accessSelectObject.$el.select2("data");var f=this.manageSelectObject.$el.select2("data");var m=this.modifySelectObject.$el.select2("data");var g=[];var j=[];var l=[];for(var h=k.length-1;h>=0;h--){g.push(k[h].id)}for(var h=f.length-1;h>=0;h--){j.push(f[h].id)}for(var h=m.length-1;h>=0;h--){l.push(m[h].id)}$.post("/api/libraries/datasets/"+n.id+"/permissions?action=set_permissions",{"access_ids[]":g,"manage_ids[]":j,"modify_ids[]":l,}).done(function(i){n.showPermissions({fetched_permissions:i});d.success("Permissions saved.")}).fail(function(){d.error("An error occurred while attempting to set dataset permissions.")})},templateDataset:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <button data-toggle="tooltip" data-placement="top" title="Download dataset" class="btn btn-default toolbtn-download-dataset primary-button" type="button"><span class="fa fa-download"></span> Download</span></button>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Import dataset into history" class="btn btn-default toolbtn-import-dataset primary-button" type="button"><span class="fa fa-book"></span> to History</span></button>');e.push('   <% if (item.get("can_user_modify")) { %>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Modify library item" class="btn btn-default toolbtn_modify_dataset primary-button" type="button"><span class="fa fa-pencil"></span> Modify</span></button>');e.push("   <% } %>");e.push('   <% if (item.get("can_user_manage")) { %>');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>/permissions"><button data-toggle="tooltip" data-placement="top" title="Manage permissions" class="btn btn-default toolbtn_change_permissions primary-button" type="button"><span class="fa fa-group"></span> Permissions</span></button></a>');e.push("   <% } %>");e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a> </li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('<% if (item.get("is_unrestricted")) { %>');e.push('  <div class="alert alert-info">');e.push("  This dataset is unrestricted so everybody can access it. Just share the URL of this page. ");e.push('  <button data-toggle="tooltip" data-placement="top" title="Copy to clipboard" class="btn btn-default btn-copy-link-to-clipboard primary-button" type="button"><span class="fa fa-clipboard"></span> To Clipboard</span></button> ');e.push("  </div>");e.push("<% } %>");e.push('<div class="dataset_table">');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(item.get("ldda_id")) %>">Name</th>');e.push('           <td><%= _.escape(item.get("name")) %></td>');e.push("       </tr>");e.push('   <% if (item.get("file_ext")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(item.get("file_ext")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("genome_build")) { %>');e.push("       <tr>");e.push('           <th scope="row">Genome build</th>');e.push('           <td><%= _.escape(item.get("genome_build")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("file_size")) { %>');e.push("       <tr>");e.push('           <th scope="row">Size</th>');e.push('           <td><%= _.escape(item.get("file_size")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("date_uploaded")) { %>');e.push("       <tr>");e.push('           <th scope="row">Date uploaded (UTC)</th>');e.push('           <td><%= _.escape(item.get("date_uploaded")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("uploaded_by")) { %>');e.push("       <tr>");e.push('           <th scope="row">Uploaded by</th>');e.push('           <td><%= _.escape(item.get("uploaded_by")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_data_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data Lines</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_data_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_comment_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Comment Lines</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_comment_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_columns")) { %>');e.push("       <tr>");e.push('           <th scope="row">Number of Columns</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_columns")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_column_types")) { %>');e.push("       <tr>");e.push('           <th scope="row">Column Types</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_column_types")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("message")) { %>');e.push("       <tr>");e.push('           <th scope="row">Message</th>');e.push('           <td scope="row"><%= _.escape(item.get("message")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("misc_blurb")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous blurb</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_blurb")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("misc_info")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous information</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_info")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push("    </table>");e.push("    <div>");e.push('        <pre class="peek">');e.push("        </pre>");e.push("    </div>");e.push('   <% if (item.get("has_versions")) { %>');e.push("      <div>");e.push("      <h3>Expired versions:</h3>");e.push("      <ul>");e.push('      <% _.each(item.get("expired_versions"), function(version) { %>');e.push('        <li><a title="See details of this version" href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>/versions/<%- version[0] %>"><%- version[1] %></a></li>');e.push("      <% }) %>");e.push("      <ul>");e.push("      </div>");e.push("   <% } %>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateVersion:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>"><button data-toggle="tooltip" data-placement="top" title="Go to latest dataset" class="btn btn-default primary-button" type="button"><span class="fa fa-caret-left fa-lg"></span> Latest dataset</span></button><a>');e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a> </li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('  <div class="alert alert-warning">This is an expired version of the library dataset: <%= _.escape(item.get("name")) %></div>');e.push('<div class="dataset_table">');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(ldda.id) %>">Name</th>');e.push('           <td><%= _.escape(ldda.get("name")) %></td>');e.push("       </tr>");e.push('   <% if (ldda.get("file_ext")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(ldda.get("file_ext")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("genome_build")) { %>');e.push("       <tr>");e.push('           <th scope="row">Genome build</th>');e.push('           <td><%= _.escape(ldda.get("genome_build")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("file_size")) { %>');e.push("       <tr>");e.push('           <th scope="row">Size</th>');e.push('           <td><%= _.escape(ldda.get("file_size")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("date_uploaded")) { %>');e.push("       <tr>");e.push('           <th scope="row">Date uploaded (UTC)</th>');e.push('           <td><%= _.escape(ldda.get("date_uploaded")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("uploaded_by")) { %>');e.push("       <tr>");e.push('           <th scope="row">Uploaded by</th>');e.push('           <td><%= _.escape(ldda.get("uploaded_by")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_data_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data Lines</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_data_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_comment_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Comment Lines</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_comment_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_columns")) { %>');e.push("       <tr>");e.push('           <th scope="row">Number of Columns</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_columns")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_column_types")) { %>');e.push("       <tr>");e.push('           <th scope="row">Column Types</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_column_types")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("message")) { %>');e.push("       <tr>");e.push('           <th scope="row">Message</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("message")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("misc_blurb")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous blurb</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("misc_blurb")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("misc_info")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous information</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("misc_info")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push("    </table>");e.push("    <div>");e.push('        <pre class="peek">');e.push("        </pre>");e.push("    </div>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateModifyDataset:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <button data-toggle="tooltip" data-placement="top" title="Cancel modifications" class="btn btn-default toolbtn_cancel_modifications primary-button" type="button"><span class="fa fa-times"></span> Cancel</span></button>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Save modifications" class="btn btn-default toolbtn_save_modifications primary-button" type="button"><span class="fa fa-floppy-o"></span> Save</span></button>');e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a> </li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('<div class="dataset_table">');e.push('<p>For more editing options please import the dataset to history and use "Edit attributes" on it.</p>');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(item.get("ldda_id")) %>">Name</th>');e.push('           <td><input class="input_dataset_name form-control" type="text" placeholder="name" value="<%= _.escape(item.get("name")) %>"></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(item.get("file_ext")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Genome build</th>');e.push('           <td><%= _.escape(item.get("genome_build")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Size</th>');e.push('           <td><%= _.escape(item.get("file_size")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Date uploaded (UTC)</th>');e.push('           <td><%= _.escape(item.get("date_uploaded")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Uploaded by</th>');e.push('           <td><%= _.escape(item.get("uploaded_by")) %></td>');e.push("       </tr>");e.push('           <tr scope="row">');e.push('           <th scope="row">Data Lines</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_data_lines")) %></td>');e.push("       </tr>");e.push('       <th scope="row">Comment Lines</th>');e.push('           <% if (item.get("metadata_comment_lines") === "") { %>');e.push('               <td scope="row"><%= _.escape(item.get("metadata_comment_lines")) %></td>');e.push("           <% } else { %>");e.push('               <td scope="row">unknown</td>');e.push("           <% } %>");e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Number of Columns</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_columns")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Column Types</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_column_types")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Message</th>');e.push('           <td scope="row"><%= _.escape(item.get("message")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Miscellaneous information</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_info")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Miscellaneous blurb</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_blurb")) %></td>');e.push("       </tr>");e.push("   </table>");e.push("<div>");e.push('   <pre class="peek">');e.push("   </pre>");e.push("</div>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateDatasetPermissions:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <a href="#folders/<%- item.get("folder_id") %>"><button data-toggle="tooltip" data-placement="top" title="Go back to containing folder" class="btn btn-default primary-button" type="button"><span class="fa fa-folder-open-o"></span> Containing Folder</span></button></a>');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>"><button data-toggle="tooltip" data-placement="top" title="Go back to dataset" class="btn btn-default primary-button" type="button"><span class="fa fa-file-o"></span> Dataset Details</span></button><a>');e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a> </li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('<h1>Dataset: <%= _.escape(item.get("name")) %></h1>');e.push('<div class="alert alert-warning">');e.push("<% if (is_admin) { %>");e.push("You are logged in as an <strong>administrator</strong> therefore you can manage any dataset on this Galaxy instance. Please make sure you understand the consequences.");e.push("<% } else { %>");e.push("You can assign any number of roles to any of the following permission types. However please read carefully the implications of such actions.");e.push("<% } %>");e.push("</div>");e.push('<div class="dataset_table">');e.push("<h2>Library-related permissions</h2>");e.push("<h4>Roles that can modify the library item</h4>");e.push('<div id="modify_perm" class="modify_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can modify name, metadata, and other information about this library item.</div>');e.push("<hr/>");e.push("<h2>Dataset-related permissions</h2>");e.push('<div class="alert alert-warning">Changes made below will affect <strong>every</strong> library item that was created from this dataset and also every history this dataset is part of.</div>');e.push('<% if (!item.get("is_unrestricted")) { %>');e.push(" <p>You can remove all access restrictions on this dataset. ");e.push(' <button data-toggle="tooltip" data-placement="top" title="Everybody will be able to access the dataset." class="btn btn-default btn-remove-restrictions primary-button" type="button">');e.push(' <span class="fa fa-globe"> Remove restrictions</span>');e.push(" </button>");e.push(" </p>");e.push("<% } else { %>");e.push("  This dataset is unrestricted so everybody can access it. Just share the URL of this page.");e.push('  <button data-toggle="tooltip" data-placement="top" title="Copy to clipboard" class="btn btn-default btn-copy-link-to-clipboard primary-button" type="button"><span class="fa fa-clipboard"> To Clipboard</span></button> ');e.push("  <p>You can make this dataset private to you. ");e.push(' <button data-toggle="tooltip" data-placement="top" title="Only you will be able to access the dataset." class="btn btn-default btn-make-private primary-button" type="button"><span class="fa fa-key"> Make Private</span></button>');e.push(" </p>");e.push("<% } %>");e.push("<h4>Roles that can access the dataset</h4>");e.push('<div id="access_perm" class="access_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User has to have <strong>all these roles</strong> in order to access this dataset. Users without access permission <strong>cannot</strong> have other permissions on this dataset. If there are no access roles set on the dataset it is considered <strong>unrestricted</strong>.</div>');e.push("<h4>Roles that can manage permissions on the dataset</h4>");e.push('<div id="manage_perm" class="manage_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can manage permissions of this dataset. If you remove yourself you will loose the ability manage this dataset unless you are an admin.</div>');e.push('<button data-toggle="tooltip" data-placement="top" title="Save modifications made on this page" class="btn btn-default toolbtn_save_permissions primary-button" type="button"><span class="fa fa-floppy-o"></span> Save</span></button>');e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateBulkImportInModal:function(){var e=[];e.push('<span id="history_modal_combo_bulk" style="width:90%; margin-left: 1em; margin-right: 1em; ">');e.push("Select history: ");e.push('<select id="dataset_import_single" name="dataset_import_single" style="width:50%; margin-bottom: 1em; "> ');e.push("   <% _.each(histories, function(history) { %>");e.push('       <option value="<%= _.escape(history.get("id")) %>"><%= _.escape(history.get("name")) %></option>');e.push("   <% }); %>");e.push("</select>");e.push("</span>");return _.template(e.join(""))},templateAccessSelect:function(){var e=[];e.push('<select id="access_select" multiple>');e.push("   <% _.each(options, function(option) { %>");e.push('       <option value="<%- option.name %>"><%- option.name %></option>');e.push("   <% }); %>");e.push("</select>");return _.template(e.join(""))}});return{LibraryDatasetView:a}});
\ No newline at end of file
+define(["libs/toastr","mvc/library/library-model","mvc/ui/ui-select"],function(d,c,b){var a=Backbone.View.extend({el:"#center",model:null,options:{},events:{"click .toolbtn_modify_dataset":"enableModification","click .toolbtn_cancel_modifications":"render","click .toolbtn-download-dataset":"downloadDataset","click .toolbtn-import-dataset":"importIntoHistory","click .toolbtn-share-dataset":"shareDataset","click .btn-copy-link-to-clipboard":"copyToClipboard","click .btn-make-private":"makeDatasetPrivate","click .btn-remove-restrictions":"removeDatasetRestrictions","click .toolbtn_save_permissions":"savePermissions","click .toolbtn_save_modifications":"comingSoon",},initialize:function(e){this.options=_.extend(this.options,e);if(this.options.id){this.fetchDataset()}},fetchDataset:function(e){this.options=_.extend(this.options,e);this.model=new c.Item({id:this.options.id});var f=this;this.model.fetch({success:function(){if(f.options.show_permissions){f.showPermissions()}else{if(f.options.show_version){f.fetchVersion()}else{f.render()}}},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error(g.responseJSON.err_msg+" Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}else{d.error("An error ocurred. Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}}})},render:function(e){this.options=_.extend(this.options,e);$(".tooltip").remove();var f=this.templateDataset();this.$el.html(f({item:this.model}));$(".peek").html(this.model.get("peek"));$("#center [data-toggle]").tooltip()},fetchVersion:function(e){this.options=_.extend(this.options,e);that=this;if(!this.options.ldda_id){this.render();d.error("Library dataset version requested but no id provided.")}else{this.ldda=new c.Ldda({id:this.options.ldda_id});this.ldda.url=this.ldda.urlRoot+this.model.id+"/versions/"+this.ldda.id;this.ldda.fetch({success:function(){that.renderVersion()},error:function(g,f){if(typeof f.responseJSON!=="undefined"){d.error(f.responseJSON.err_msg)}else{d.error("An error ocurred.")}}})}},renderVersion:function(){$(".tooltip").remove();var e=this.templateVersion();this.$el.html(e({item:this.model,ldda:this.ldda}));$(".peek").html(this.ldda.get("peek"))},enableModification:function(){$(".tooltip").remove();var e=this.templateModifyDataset();this.$el.html(e({item:this.model}));$(".peek").html(this.model.get("peek"));$("#center [data-toggle]").tooltip()},downloadDataset:function(){var e=(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/download/uncompressed";var f={ld_ids:this.id};this.processDownload(e,f)},processDownload:function(f,g,h){if(f&&g){g=typeof g=="string"?g:$.param(g);var e="";$.each(g.split("&"),function(){var i=this.split("=");e+='<input type="hidden" name="'+i[0]+'" value="'+i[1]+'" />'});$('<form action="'+f+'" method="'+(h||"post")+'">'+e+"</form>").appendTo("body").submit().remove();d.info("Your download will begin soon.")}},importIntoHistory:function(){this.refreshUserHistoriesList(function(e){var f=e.templateBulkImportInModal();e.modal=Galaxy.modal;e.modal.show({closing_events:true,title:"Import into History",body:f({histories:e.histories.models}),buttons:{Import:function(){e.importCurrentIntoHistory()},Close:function(){Galaxy.modal.hide()}}})})},refreshUserHistoriesList:function(f){var e=this;this.histories=new c.GalaxyHistories();this.histories.fetch({success:function(g){if(g.length===0){d.warning("You have to create history first. Click this to do so.","",{onclick:function(){window.location="/"}})}else{f(e)}},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error(g.responseJSON.err_msg)}else{d.error("An error ocurred.")}}})},importCurrentIntoHistory:function(){var e=$(this.modal.elMain).find("select[name=dataset_import_single] option:selected").val();var f=new c.HistoryItem();f.url=f.urlRoot+e+"/contents";jQuery.getJSON(galaxy_config.root+"history/set_as_current?id="+e);f.save({content:this.id,source:"library"},{success:function(){Galaxy.modal.hide();d.success("Dataset imported. Click this to start analysing it.","",{onclick:function(){window.location="/"}})},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error("Dataset not imported. "+g.responseJSON.err_msg)}else{d.error("An error occured. Dataset not imported. Please try again.")}}})},shareDataset:function(){d.info("Feature coming soon.")},goBack:function(){Galaxy.libraries.library_router.back()},showPermissions:function(f){this.options=_.extend(this.options,f);$(".tooltip").remove();if(this.options.fetched_permissions!==undefined){if(this.options.fetched_permissions.access_dataset_roles.length===0){this.model.set({is_unrestricted:true})}else{this.model.set({is_unrestricted:false})}}var h=false;if(Galaxy.currUser){h=Galaxy.currUser.isAdmin()}var g=this.templateDatasetPermissions();this.$el.html(g({item:this.model,is_admin:h}));var e=this;if(this.options.fetched_permissions===undefined){$.get((window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"+e.id+"/permissions?scope=current").done(function(i){e.prepareSelectBoxes({fetched_permissions:i,is_admin:h})}).fail(function(){d.error("An error occurred while attempting to fetch dataset permissions.")})}else{this.prepareSelectBoxes({is_admin:h})}$("#center [data-toggle]").tooltip();$("#center").css("overflow","auto")},prepareSelectBoxes:function(r){this.options=_.extend(this.options,r);var s=this.options.fetched_permissions;var k=this.options.is_admin;var q=this;var m=[];for(var h=0;h<s.access_dataset_roles.length;h++){m.push(s.access_dataset_roles[h]+":"+s.access_dataset_roles[h])}var f=[];for(var h=0;h<s.modify_item_roles.length;h++){f.push(s.modify_item_roles[h]+":"+s.modify_item_roles[h])}var g=[];for(var h=0;h<s.manage_dataset_roles.length;h++){g.push(s.manage_dataset_roles[h]+":"+s.manage_dataset_roles[h])}if(k){var o={minimumInputLength:0,css:"access_perm",multiple:true,placeholder:"Click to select a role",container:q.$el.find("#access_perm"),ajax:{url:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"+q.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(i,t){return{q:i,page_limit:10,page:t}},results:function(u,t){var i=(t*10)<u.total;return{results:u.roles,more:i}}},formatResult:function j(i){return i.name+" type: "+i.type},formatSelection:function e(i){return i.name},initSelection:function(i,u){var t=[];$(i.val().split(",")).each(function(){var v=this.split(":");t.push({id:v[1],name:v[1]})});u(t)},initialData:m.join(","),dropdownCssClass:"bigdrop"};var l={minimumInputLength:0,css:"modify_perm",multiple:true,placeholder:"Click to select a role",container:q.$el.find("#modify_perm"),ajax:{url:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"+q.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(i,t){return{q:i,page_limit:10,page:t}},results:function(u,t){var i=(t*10)<u.total;return{results:u.roles,more:i}}},formatResult:function j(i){return i.name+" type: "+i.type},formatSelection:function e(i){return i.name},initSelection:function(i,u){var t=[];$(i.val().split(",")).each(function(){var v=this.split(":");t.push({id:v[1],name:v[1]})});u(t)},initialData:f.join(","),dropdownCssClass:"bigdrop"};var p={minimumInputLength:0,css:"manage_perm",multiple:true,placeholder:"Click to select a role",container:q.$el.find("#manage_perm"),ajax:{url:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"+q.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(i,t){return{q:i,page_limit:10,page:t}},results:function(u,t){var i=(t*10)<u.total;return{results:u.roles,more:i}}},formatResult:function j(i){return i.name+" type: "+i.type},formatSelection:function e(i){return i.name},initSelection:function(i,u){var t=[];$(i.val().split(",")).each(function(){var v=this.split(":");t.push({id:v[1],name:v[1]})});u(t)},initialData:g.join(","),dropdownCssClass:"bigdrop"};q.accessSelectObject=new b.View(o);q.modifySelectObject=new b.View(l);q.manageSelectObject=new b.View(p)}else{var n=q.templateAccessSelect();$.get((window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"+q.id+"/permissions?scope=available",function(i){$(".access_perm").html(n({options:i.roles}));q.accessSelectObject=$("#access_select").select2()}).fail(function(){d.error("An error occurred while attempting to fetch dataset permissions.")})}},comingSoon:function(){d.warning("Feature coming soon.")},copyToClipboard:function(){var e=Backbone.history.location.href;if(e.lastIndexOf("/permissions")!==-1){e=e.substr(0,e.lastIndexOf("/permissions"))}window.prompt("Copy to clipboard: Ctrl+C, Enter",e)},makeDatasetPrivate:function(){var e=this;$.post((window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"+e.id+"/permissions?action=make_private").done(function(f){e.model.set({is_unrestricted:false});e.showPermissions({fetched_permissions:f});d.success("The dataset is now private to you.")}).fail(function(){d.error("An error occurred while attempting to make dataset private.")})},removeDatasetRestrictions:function(){var e=this;$.post((window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"+e.id+"/permissions?action=remove_restrictions").done(function(f){e.model.set({is_unrestricted:true});e.showPermissions({fetched_permissions:f});d.success("Access to this dataset is now unrestricted.")}).fail(function(){d.error("An error occurred while attempting to make dataset unrestricted.")})},savePermissions:function(e){var n=this;var k=this.accessSelectObject.$el.select2("data");var f=this.manageSelectObject.$el.select2("data");var m=this.modifySelectObject.$el.select2("data");var g=[];var j=[];var l=[];for(var h=k.length-1;h>=0;h--){g.push(k[h].id)}for(var h=f.length-1;h>=0;h--){j.push(f[h].id)}for(var h=m.length-1;h>=0;h--){l.push(m[h].id)}$.post((window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"+n.id+"/permissions?action=set_permissions",{"access_ids[]":g,"manage_ids[]":j,"modify_ids[]":l,}).done(function(i){n.showPermissions({fetched_permissions:i});d.success("Permissions saved.")}).fail(function(){d.error("An error occurred while attempting to set dataset permissions.")})},templateDataset:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <button data-toggle="tooltip" data-placement="top" title="Download dataset" class="btn btn-default toolbtn-download-dataset primary-button" type="button"><span class="fa fa-download"></span> Download</span></button>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Import dataset into history" class="btn btn-default toolbtn-import-dataset primary-button" type="button"><span class="fa fa-book"></span> to History</span></button>');e.push('   <% if (item.get("can_user_modify")) { %>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Modify library item" class="btn btn-default toolbtn_modify_dataset primary-button" type="button"><span class="fa fa-pencil"></span> Modify</span></button>');e.push("   <% } %>");e.push('   <% if (item.get("can_user_manage")) { %>');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>/permissions"><button data-toggle="tooltip" data-placement="top" title="Manage permissions" class="btn btn-default toolbtn_change_permissions primary-button" type="button"><span class="fa fa-group"></span> Permissions</span></button></a>');e.push("   <% } %>");e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a> </li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('<% if (item.get("is_unrestricted")) { %>');e.push('  <div class="alert alert-info">');e.push("  This dataset is unrestricted so everybody can access it. Just share the URL of this page. ");e.push('  <button data-toggle="tooltip" data-placement="top" title="Copy to clipboard" class="btn btn-default btn-copy-link-to-clipboard primary-button" type="button"><span class="fa fa-clipboard"></span> To Clipboard</span></button> ');e.push("  </div>");e.push("<% } %>");e.push('<div class="dataset_table">');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(item.get("ldda_id")) %>">Name</th>');e.push('           <td><%= _.escape(item.get("name")) %></td>');e.push("       </tr>");e.push('   <% if (item.get("file_ext")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(item.get("file_ext")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("genome_build")) { %>');e.push("       <tr>");e.push('           <th scope="row">Genome build</th>');e.push('           <td><%= _.escape(item.get("genome_build")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("file_size")) { %>');e.push("       <tr>");e.push('           <th scope="row">Size</th>');e.push('           <td><%= _.escape(item.get("file_size")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("date_uploaded")) { %>');e.push("       <tr>");e.push('           <th scope="row">Date uploaded (UTC)</th>');e.push('           <td><%= _.escape(item.get("date_uploaded")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("uploaded_by")) { %>');e.push("       <tr>");e.push('           <th scope="row">Uploaded by</th>');e.push('           <td><%= _.escape(item.get("uploaded_by")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_data_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data Lines</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_data_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_comment_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Comment Lines</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_comment_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_columns")) { %>');e.push("       <tr>");e.push('           <th scope="row">Number of Columns</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_columns")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("metadata_column_types")) { %>');e.push("       <tr>");e.push('           <th scope="row">Column Types</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_column_types")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("message")) { %>');e.push("       <tr>");e.push('           <th scope="row">Message</th>');e.push('           <td scope="row"><%= _.escape(item.get("message")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("misc_blurb")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous blurb</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_blurb")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (item.get("misc_info")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous information</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_info")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push("    </table>");e.push("    <div>");e.push('        <pre class="peek">');e.push("        </pre>");e.push("    </div>");e.push('   <% if (item.get("has_versions")) { %>');e.push("      <div>");e.push("      <h3>Expired versions:</h3>");e.push("      <ul>");e.push('      <% _.each(item.get("expired_versions"), function(version) { %>');e.push('        <li><a title="See details of this version" href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>/versions/<%- version[0] %>"><%- version[1] %></a></li>');e.push("      <% }) %>");e.push("      <ul>");e.push("      </div>");e.push("   <% } %>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateVersion:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>"><button data-toggle="tooltip" data-placement="top" title="Go to latest dataset" class="btn btn-default primary-button" type="button"><span class="fa fa-caret-left fa-lg"></span> Latest dataset</span></button><a>');e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a> </li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('  <div class="alert alert-warning">This is an expired version of the library dataset: <%= _.escape(item.get("name")) %></div>');e.push('<div class="dataset_table">');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(ldda.id) %>">Name</th>');e.push('           <td><%= _.escape(ldda.get("name")) %></td>');e.push("       </tr>");e.push('   <% if (ldda.get("file_ext")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(ldda.get("file_ext")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("genome_build")) { %>');e.push("       <tr>");e.push('           <th scope="row">Genome build</th>');e.push('           <td><%= _.escape(ldda.get("genome_build")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("file_size")) { %>');e.push("       <tr>");e.push('           <th scope="row">Size</th>');e.push('           <td><%= _.escape(ldda.get("file_size")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("date_uploaded")) { %>');e.push("       <tr>");e.push('           <th scope="row">Date uploaded (UTC)</th>');e.push('           <td><%= _.escape(ldda.get("date_uploaded")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("uploaded_by")) { %>');e.push("       <tr>");e.push('           <th scope="row">Uploaded by</th>');e.push('           <td><%= _.escape(ldda.get("uploaded_by")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_data_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data Lines</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_data_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_comment_lines")) { %>');e.push("       <tr>");e.push('           <th scope="row">Comment Lines</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_comment_lines")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_columns")) { %>');e.push("       <tr>");e.push('           <th scope="row">Number of Columns</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_columns")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("metadata_column_types")) { %>');e.push("       <tr>");e.push('           <th scope="row">Column Types</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("metadata_column_types")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("message")) { %>');e.push("       <tr>");e.push('           <th scope="row">Message</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("message")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("misc_blurb")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous blurb</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("misc_blurb")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push('   <% if (ldda.get("misc_info")) { %>');e.push("       <tr>");e.push('           <th scope="row">Miscellaneous information</th>');e.push('           <td scope="row"><%= _.escape(ldda.get("misc_info")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push("    </table>");e.push("    <div>");e.push('        <pre class="peek">');e.push("        </pre>");e.push("    </div>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateModifyDataset:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <button data-toggle="tooltip" data-placement="top" title="Cancel modifications" class="btn btn-default toolbtn_cancel_modifications primary-button" type="button"><span class="fa fa-times"></span> Cancel</span></button>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Save modifications" class="btn btn-default toolbtn_save_modifications primary-button" type="button"><span class="fa fa-floppy-o"></span> Save</span></button>');e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a> </li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('<div class="dataset_table">');e.push('<p>For more editing options please import the dataset to history and use "Edit attributes" on it.</p>');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(item.get("ldda_id")) %>">Name</th>');e.push('           <td><input class="input_dataset_name form-control" type="text" placeholder="name" value="<%= _.escape(item.get("name")) %>"></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(item.get("file_ext")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Genome build</th>');e.push('           <td><%= _.escape(item.get("genome_build")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Size</th>');e.push('           <td><%= _.escape(item.get("file_size")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Date uploaded (UTC)</th>');e.push('           <td><%= _.escape(item.get("date_uploaded")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Uploaded by</th>');e.push('           <td><%= _.escape(item.get("uploaded_by")) %></td>');e.push("       </tr>");e.push('           <tr scope="row">');e.push('           <th scope="row">Data Lines</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_data_lines")) %></td>');e.push("       </tr>");e.push('       <th scope="row">Comment Lines</th>');e.push('           <% if (item.get("metadata_comment_lines") === "") { %>');e.push('               <td scope="row"><%= _.escape(item.get("metadata_comment_lines")) %></td>');e.push("           <% } else { %>");e.push('               <td scope="row">unknown</td>');e.push("           <% } %>");e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Number of Columns</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_columns")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Column Types</th>');e.push('           <td scope="row"><%= _.escape(item.get("metadata_column_types")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Message</th>');e.push('           <td scope="row"><%= _.escape(item.get("message")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Miscellaneous information</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_info")) %></td>');e.push("       </tr>");e.push("       <tr>");e.push('           <th scope="row">Miscellaneous blurb</th>');e.push('           <td scope="row"><%= _.escape(item.get("misc_blurb")) %></td>');e.push("       </tr>");e.push("   </table>");e.push("<div>");e.push('   <pre class="peek">');e.push("   </pre>");e.push("</div>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateDatasetPermissions:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <a href="#folders/<%- item.get("folder_id") %>"><button data-toggle="tooltip" data-placement="top" title="Go back to containing folder" class="btn btn-default primary-button" type="button"><span class="fa fa-folder-open-o"></span> Containing Folder</span></button></a>');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>"><button data-toggle="tooltip" data-placement="top" title="Go back to dataset" class="btn btn-default primary-button" type="button"><span class="fa fa-file-o"></span> Dataset Details</span></button><a>');e.push("  </div>");e.push('<ol class="breadcrumb">');e.push('   <li><a title="Return to the list of libraries" href="#">Libraries</a></li>');e.push('   <% _.each(item.get("full_path"), function(path_item) { %>');e.push("   <% if (path_item[0] != item.id) { %>");e.push('   <li><a title="Return to this folder" href="#/folders/<%- path_item[0] %>"><%- path_item[1] %></a> </li> ');e.push("<% } else { %>");e.push('   <li class="active"><span title="You are here"><%- path_item[1] %></span></li>');e.push("   <% } %>");e.push("   <% }); %>");e.push("</ol>");e.push('<h1>Dataset: <%= _.escape(item.get("name")) %></h1>');e.push('<div class="alert alert-warning">');e.push("<% if (is_admin) { %>");e.push("You are logged in as an <strong>administrator</strong> therefore you can manage any dataset on this Galaxy instance. Please make sure you understand the consequences.");e.push("<% } else { %>");e.push("You can assign any number of roles to any of the following permission types. However please read carefully the implications of such actions.");e.push("<% } %>");e.push("</div>");e.push('<div class="dataset_table">');e.push("<h2>Library-related permissions</h2>");e.push("<h4>Roles that can modify the library item</h4>");e.push('<div id="modify_perm" class="modify_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can modify name, metadata, and other information about this library item.</div>');e.push("<hr/>");e.push("<h2>Dataset-related permissions</h2>");e.push('<div class="alert alert-warning">Changes made below will affect <strong>every</strong> library item that was created from this dataset and also every history this dataset is part of.</div>');e.push('<% if (!item.get("is_unrestricted")) { %>');e.push(" <p>You can remove all access restrictions on this dataset. ");e.push(' <button data-toggle="tooltip" data-placement="top" title="Everybody will be able to access the dataset." class="btn btn-default btn-remove-restrictions primary-button" type="button">');e.push(' <span class="fa fa-globe"> Remove restrictions</span>');e.push(" </button>");e.push(" </p>");e.push("<% } else { %>");e.push("  This dataset is unrestricted so everybody can access it. Just share the URL of this page.");e.push('  <button data-toggle="tooltip" data-placement="top" title="Copy to clipboard" class="btn btn-default btn-copy-link-to-clipboard primary-button" type="button"><span class="fa fa-clipboard"> To Clipboard</span></button> ');e.push("  <p>You can make this dataset private to you. ");e.push(' <button data-toggle="tooltip" data-placement="top" title="Only you will be able to access the dataset." class="btn btn-default btn-make-private primary-button" type="button"><span class="fa fa-key"> Make Private</span></button>');e.push(" </p>");e.push("<% } %>");e.push("<h4>Roles that can access the dataset</h4>");e.push('<div id="access_perm" class="access_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User has to have <strong>all these roles</strong> in order to access this dataset. Users without access permission <strong>cannot</strong> have other permissions on this dataset. If there are no access roles set on the dataset it is considered <strong>unrestricted</strong>.</div>');e.push("<h4>Roles that can manage permissions on the dataset</h4>");e.push('<div id="manage_perm" class="manage_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can manage permissions of this dataset. If you remove yourself you will loose the ability manage this dataset unless you are an admin.</div>');e.push('<button data-toggle="tooltip" data-placement="top" title="Save modifications made on this page" class="btn btn-default toolbtn_save_permissions primary-button" type="button"><span class="fa fa-floppy-o"></span> Save</span></button>');e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateBulkImportInModal:function(){var e=[];e.push('<span id="history_modal_combo_bulk" style="width:90%; margin-left: 1em; margin-right: 1em; ">');e.push("Select history: ");e.push('<select id="dataset_import_single" name="dataset_import_single" style="width:50%; margin-bottom: 1em; "> ');e.push("   <% _.each(histories, function(history) { %>");e.push('       <option value="<%= _.escape(history.get("id")) %>"><%= _.escape(history.get("name")) %></option>');e.push("   <% }); %>");e.push("</select>");e.push("</span>");return _.template(e.join(""))},templateAccessSelect:function(){var e=[];e.push('<select id="access_select" multiple>');e.push("   <% _.each(options, function(option) { %>");e.push('       <option value="<%- option.name %>"><%- option.name %></option>');e.push("   <% }); %>");e.push("</select>");return _.template(e.join(""))}});return{LibraryDatasetView:a}});
\ No newline at end of file
diff --git a/static/scripts/packed/mvc/library/library-folder-view.js b/static/scripts/packed/mvc/library/library-folder-view.js
index 98a95469209..7b5a848b3b5 100644
--- a/static/scripts/packed/mvc/library/library-folder-view.js
+++ b/static/scripts/packed/mvc/library/library-folder-view.js
@@ -1 +1 @@
-define(["libs/toastr","mvc/library/library-model","mvc/ui/ui-select"],function(d,c,a){var b=Backbone.View.extend({el:"#center",model:null,options:{},events:{"click .toolbtn_save_permissions":"savePermissions"},initialize:function(e){this.options=_.extend(this.options,e);if(this.options.id){this.fetchFolder()}},fetchFolder:function(e){this.options=_.extend(this.options,e);this.model=new c.FolderAsModel({id:this.options.id});var f=this;this.model.fetch({success:function(){if(f.options.show_permissions){f.showPermissions()}else{f.render()}},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error(g.responseJSON.err_msg+" Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}else{d.error("An error ocurred. Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}}})},render:function(e){$(".tooltip").remove();this.options=_.extend(this.options,e);var f=this.templateFolder();this.$el.html(f({item:this.model}));$(".peek").html(this.model.get("peek"));$("#center [data-toggle]").tooltip()},shareFolder:function(){d.info("Feature coming soon.")},goBack:function(){Galaxy.libraries.library_router.back()},showPermissions:function(f){this.options=_.extend(this.options,f);$(".tooltip").remove();var h=false;if(Galaxy.currUser){h=Galaxy.currUser.isAdmin()}var g=this.templateFolderPermissions();this.$el.html(g({folder:this.model,is_admin:h}));var e=this;if(this.options.fetched_permissions===undefined){$.get("/api/folders/"+e.id+"/permissions?scope=current").done(function(i){e.prepareSelectBoxes({fetched_permissions:i})}).fail(function(){d.error("An error occurred while attempting to fetch folder permissions.")})}else{this.prepareSelectBoxes({})}$("#center [data-toggle]").tooltip();$("#center").css("overflow","auto")},_serializeRoles:function(g){var e=[];for(var f=0;f<g.length;f++){e.push(g[f]+":"+g[f])}return e},prepareSelectBoxes:function(h){this.options=_.extend(this.options,h);var f=this.options.fetched_permissions;var g=this;var i=this._serializeRoles(f.add_library_item_role_list);var j=this._serializeRoles(f.manage_folder_role_list);var e=this._serializeRoles(f.modify_folder_role_list);g.addSelectObject=new a.View(this._createSelectOptions(this,"add_perm",i,false));g.manageSelectObject=new a.View(this._createSelectOptions(this,"manage_perm",j,false));g.modifySelectObject=new a.View(this._createSelectOptions(this,"modify_perm",e,false))},_createSelectOptions:function(e,j,h){var i={minimumInputLength:0,css:j,multiple:true,placeholder:"Click to select a role",container:e.$el.find("#"+j),ajax:{url:"/api/folders/"+e.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(k,l){return{q:k,page_limit:10,page:l}},results:function(m,l){var k=(l*10)<m.total;return{results:m.roles,more:k}}},formatResult:function f(k){return k.name+" type: "+k.type},formatSelection:function g(k){return k.name},initSelection:function(k,m){var l=[];$(k.val().split(",")).each(function(){var n=this.split(":");l.push({id:n[1],name:n[1]})});m(l)},initialData:h.join(","),dropdownCssClass:"bigdrop"};return i},comingSoon:function(){d.warning("Feature coming soon.")},copyToClipboard:function(){var e=Backbone.history.location.href;if(e.lastIndexOf("/permissions")!==-1){e=e.substr(0,e.lastIndexOf("/permissions"))}window.prompt("Copy to clipboard: Ctrl+C, Enter",e)},_extractIds:function(e){ids_list=[];for(var f=e.length-1;f>=0;f--){ids_list.push(e[f].id)}return ids_list},savePermissions:function(h){var g=this;var e=this._extractIds(this.addSelectObject.$el.select2("data"));var i=this._extractIds(this.manageSelectObject.$el.select2("data"));var f=this._extractIds(this.modifySelectObject.$el.select2("data"));$.post("/api/folders/"+g.id+"/permissions?action=set_permissions",{"add_ids[]":e,"manage_ids[]":i,"modify_ids[]":f,}).done(function(j){g.showPermissions({fetched_permissions:j});d.success("Permissions saved.")}).fail(function(){d.error("An error occurred while attempting to set folder permissions.")})},templateFolder:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <button data-toggle="tooltip" data-placement="top" title="Modify library item" class="btn btn-default toolbtn_modify_dataset primary-button" type="button"><span class="fa fa-pencil"></span> Modify</span></button>');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>/permissions"><button data-toggle="tooltip" data-placement="top" title="Manage permissions" class="btn btn-default toolbtn_change_permissions primary-button" type="button"><span class="fa fa-group"></span> Permissions</span></button></a>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Share dataset" class="btn btn-default toolbtn-share-dataset primary-button" type="button"><span class="fa fa-share"></span> Share</span></button>');e.push("  </div>");e.push("  <p>");e.push("  This dataset is unrestricted so everybody can access it. Just share the URL of this page. ");e.push('  <button data-toggle="tooltip" data-placement="top" title="Copy to clipboard" class="btn btn-default btn-copy-link-to-clipboard primary-button" type="button"><span class="fa fa-clipboard"></span> To Clipboard</span></button> ');e.push("  </p>");e.push('<div class="dataset_table">');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(item.get("ldda_id")) %>">Name</th>');e.push('           <td><%= _.escape(item.get("name")) %></td>');e.push("       </tr>");e.push('   <% if (item.get("file_ext")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(item.get("file_ext")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push("    </table>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateFolderPermissions:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <a href="#/folders/<%= folder.get("parent_id") %>"><button data-toggle="tooltip" data-placement="top" title="Go back to the parent folder" class="btn btn-default primary-button" type="button"><span class="fa fa-caret-left fa-lg"></span> Parent folder</span></button></a>');e.push("  </div>");e.push('<h1>Folder: <%= _.escape(folder.get("name")) %></h1>');e.push('<div class="alert alert-warning">');e.push("<% if (is_admin) { %>");e.push("You are logged in as an <strong>administrator</strong> therefore you can manage any folder on this Galaxy instance. Please make sure you understand the consequences.");e.push("<% } else { %>");e.push("You can assign any number of roles to any of the following permission types. However please read carefully the implications of such actions.");e.push("<% }%>");e.push("</div>");e.push('<div class="dataset_table">');e.push("<h2>Folder permissions</h2>");e.push("<h4>Roles that can manage permissions on this folder</h4>");e.push('<div id="manage_perm" class="manage_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can manage permissions on this folder.</div>');e.push("<h4>Roles that can add items to this folder</h4>");e.push('<div id="add_perm" class="add_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can add items to this folder (folders and datasets).</div>');e.push("<h4>Roles that can modify this folder</h4>");e.push('<div id="modify_perm" class="modify_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can modify this folder (name, etc.).</div>');e.push('<button data-toggle="tooltip" data-placement="top" title="Save modifications" class="btn btn-default toolbtn_save_permissions primary-button" type="button"><span class="fa fa-floppy-o"></span> Save</span></button>');e.push("</div>");e.push("</div>");return _.template(e.join(""))}});return{FolderView:b}});
\ No newline at end of file
+define(["libs/toastr","mvc/library/library-model","mvc/ui/ui-select"],function(d,c,a){var b=Backbone.View.extend({el:"#center",model:null,options:{},events:{"click .toolbtn_save_permissions":"savePermissions"},initialize:function(e){this.options=_.extend(this.options,e);if(this.options.id){this.fetchFolder()}},fetchFolder:function(e){this.options=_.extend(this.options,e);this.model=new c.FolderAsModel({id:this.options.id});var f=this;this.model.fetch({success:function(){if(f.options.show_permissions){f.showPermissions()}else{f.render()}},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error(g.responseJSON.err_msg+" Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}else{d.error("An error ocurred. Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}}})},render:function(e){$(".tooltip").remove();this.options=_.extend(this.options,e);var f=this.templateFolder();this.$el.html(f({item:this.model}));$(".peek").html(this.model.get("peek"));$("#center [data-toggle]").tooltip()},shareFolder:function(){d.info("Feature coming soon.")},goBack:function(){Galaxy.libraries.library_router.back()},showPermissions:function(f){this.options=_.extend(this.options,f);$(".tooltip").remove();var h=false;if(Galaxy.currUser){h=Galaxy.currUser.isAdmin()}var g=this.templateFolderPermissions();this.$el.html(g({folder:this.model,is_admin:h}));var e=this;if(this.options.fetched_permissions===undefined){$.get((window.galaxy_config?galaxy_config.root:"/")+"api/folders/"+e.id+"/permissions?scope=current").done(function(i){e.prepareSelectBoxes({fetched_permissions:i})}).fail(function(){d.error("An error occurred while attempting to fetch folder permissions.")})}else{this.prepareSelectBoxes({})}$("#center [data-toggle]").tooltip();$("#center").css("overflow","auto")},_serializeRoles:function(g){var e=[];for(var f=0;f<g.length;f++){e.push(g[f]+":"+g[f])}return e},prepareSelectBoxes:function(h){this.options=_.extend(this.options,h);var f=this.options.fetched_permissions;var g=this;var i=this._serializeRoles(f.add_library_item_role_list);var j=this._serializeRoles(f.manage_folder_role_list);var e=this._serializeRoles(f.modify_folder_role_list);g.addSelectObject=new a.View(this._createSelectOptions(this,"add_perm",i,false));g.manageSelectObject=new a.View(this._createSelectOptions(this,"manage_perm",j,false));g.modifySelectObject=new a.View(this._createSelectOptions(this,"modify_perm",e,false))},_createSelectOptions:function(e,j,h){var i={minimumInputLength:0,css:j,multiple:true,placeholder:"Click to select a role",container:e.$el.find("#"+j),ajax:{url:(window.galaxy_config?galaxy_config.root:"/")+"api/folders/"+e.id+"/permissions?scope=available",dataType:"json",quietMillis:100,data:function(k,l){return{q:k,page_limit:10,page:l}},results:function(m,l){var k=(l*10)<m.total;return{results:m.roles,more:k}}},formatResult:function f(k){return k.name+" type: "+k.type},formatSelection:function g(k){return k.name},initSelection:function(k,m){var l=[];$(k.val().split(",")).each(function(){var n=this.split(":");l.push({id:n[1],name:n[1]})});m(l)},initialData:h.join(","),dropdownCssClass:"bigdrop"};return i},comingSoon:function(){d.warning("Feature coming soon.")},copyToClipboard:function(){var e=Backbone.history.location.href;if(e.lastIndexOf("/permissions")!==-1){e=e.substr(0,e.lastIndexOf("/permissions"))}window.prompt("Copy to clipboard: Ctrl+C, Enter",e)},_extractIds:function(e){ids_list=[];for(var f=e.length-1;f>=0;f--){ids_list.push(e[f].id)}return ids_list},savePermissions:function(h){var g=this;var e=this._extractIds(this.addSelectObject.$el.select2("data"));var i=this._extractIds(this.manageSelectObject.$el.select2("data"));var f=this._extractIds(this.modifySelectObject.$el.select2("data"));$.post((window.galaxy_config?galaxy_config.root:"/")+"api/folders/"+g.id+"/permissions?action=set_permissions",{"add_ids[]":e,"manage_ids[]":i,"modify_ids[]":f,}).done(function(j){g.showPermissions({fetched_permissions:j});d.success("Permissions saved.")}).fail(function(){d.error("An error occurred while attempting to set folder permissions.")})},templateFolder:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <button data-toggle="tooltip" data-placement="top" title="Modify library item" class="btn btn-default toolbtn_modify_dataset primary-button" type="button"><span class="fa fa-pencil"></span> Modify</span></button>');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>/permissions"><button data-toggle="tooltip" data-placement="top" title="Manage permissions" class="btn btn-default toolbtn_change_permissions primary-button" type="button"><span class="fa fa-group"></span> Permissions</span></button></a>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Share dataset" class="btn btn-default toolbtn-share-dataset primary-button" type="button"><span class="fa fa-share"></span> Share</span></button>');e.push("  </div>");e.push("  <p>");e.push("  This dataset is unrestricted so everybody can access it. Just share the URL of this page. ");e.push('  <button data-toggle="tooltip" data-placement="top" title="Copy to clipboard" class="btn btn-default btn-copy-link-to-clipboard primary-button" type="button"><span class="fa fa-clipboard"></span> To Clipboard</span></button> ');e.push("  </p>");e.push('<div class="dataset_table">');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(item.get("ldda_id")) %>">Name</th>');e.push('           <td><%= _.escape(item.get("name")) %></td>');e.push("       </tr>");e.push('   <% if (item.get("file_ext")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(item.get("file_ext")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push("    </table>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateFolderPermissions:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <a href="#/folders/<%= folder.get("parent_id") %>"><button data-toggle="tooltip" data-placement="top" title="Go back to the parent folder" class="btn btn-default primary-button" type="button"><span class="fa fa-caret-left fa-lg"></span> Parent folder</span></button></a>');e.push("  </div>");e.push('<h1>Folder: <%= _.escape(folder.get("name")) %></h1>');e.push('<div class="alert alert-warning">');e.push("<% if (is_admin) { %>");e.push("You are logged in as an <strong>administrator</strong> therefore you can manage any folder on this Galaxy instance. Please make sure you understand the consequences.");e.push("<% } else { %>");e.push("You can assign any number of roles to any of the following permission types. However please read carefully the implications of such actions.");e.push("<% }%>");e.push("</div>");e.push('<div class="dataset_table">');e.push("<h2>Folder permissions</h2>");e.push("<h4>Roles that can manage permissions on this folder</h4>");e.push('<div id="manage_perm" class="manage_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can manage permissions on this folder.</div>');e.push("<h4>Roles that can add items to this folder</h4>");e.push('<div id="add_perm" class="add_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can add items to this folder (folders and datasets).</div>');e.push("<h4>Roles that can modify this folder</h4>");e.push('<div id="modify_perm" class="modify_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can modify this folder (name, etc.).</div>');e.push('<button data-toggle="tooltip" data-placement="top" title="Save modifications" class="btn btn-default toolbtn_save_permissions primary-button" type="button"><span class="fa fa-floppy-o"></span> Save</span></button>');e.push("</div>");e.push("</div>");return _.template(e.join(""))}});return{FolderView:b}});
\ No newline at end of file
diff --git a/static/scripts/packed/mvc/library/library-foldertoolbar-view.js b/static/scripts/packed/mvc/library/library-foldertoolbar-view.js
index 29d42c238a0..35ecfd5398d 100644
--- a/static/scripts/packed/mvc/library/library-foldertoolbar-view.js
+++ b/static/scripts/packed/mvc/library/library-foldertoolbar-view.js
@@ -1 +1 @@
-define(["galaxy.masthead","utils/utils","libs/toastr","mvc/library/library-model","mvc/ui/ui-select"],function(c,e,f,d,a){var b=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:false,contains_file:false,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(g){this.options=_.defaults(g||{},this.defaults);this.fetchExtAndGenomes();this.render()},render:function(g){this.options=_.extend(this.options,g);var i=this.templateToolBar();var h={id:this.options.id,is_admin:false,is_anonym:true,mutiple_add_dataset_options:false};if(Galaxy.currUser){h.is_admin=Galaxy.currUser.isAdmin();h.is_anonym=Galaxy.currUser.isAnonymous();if(Galaxy.config.user_library_import_dir!==null||Galaxy.config.allow_library_path_paste!==false||Galaxy.config.library_import_dir!==null){h.mutiple_add_dataset_options=true}}this.$el.html(i(h))},renderPaginator:function(h){this.options=_.extend(this.options,h);var g=this.templatePaginator();this.$el.find("#folder_paginator").html(g({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(g){this.options=_.extend(this.options,g);if(this.options.can_add_library_item===true){$(".add-library-items").show()}else{$(".add-library-items").hide()}if(this.options.contains_file===true){if(Galaxy.currUser){if(!Galaxy.currUser.isAnonymous()){$(".logged-dataset-manipulation").show();$(".dataset-manipulation").show()}else{$(".dataset-manipulation").show();$(".logged-dataset-manipulation").hide()}}else{$(".logged-dataset-manipulation").hide();$(".dataset-manipulation").hide()}}else{$(".logged-dataset-manipulation").hide();$(".dataset-manipulation").hide()}this.$el.find("[data-toggle]").tooltip()},createFolderFromModal:function(i){i.preventDefault();i.stopPropagation();var g=this;var h=this.templateNewFolderInModal();this.modal=Galaxy.modal;this.modal.show({closing_events:true,title:"Create New Folder",body:h(),buttons:{Create:function(){g.create_new_folder_event()},Close:function(){Galaxy.modal.hide()}}})},create_new_folder_event:function(){var g=this.serialize_new_folder();if(this.validate_new_folder(g)){var h=new d.FolderAsModel();url_items=Backbone.history.fragment.split("/");current_folder_id=url_items[url_items.length-1];h.url=h.urlRoot+"/"+current_folder_id;h.save(g,{success:function(i){Galaxy.modal.hide();f.success("Folder created.");i.set({type:"folder"});Galaxy.libraries.folderListView.collection.add(i)},error:function(j,i){Galaxy.modal.hide();if(typeof i.responseJSON!=="undefined"){f.error(i.responseJSON.err_msg)}else{f.error("An error ocurred.")}}})}else{f.error("Folder's name is missing.")}return false},serialize_new_folder:function(){return{name:$("input[name='Name']").val(),description:$("input[name='Description']").val()}},validate_new_folder:function(g){return g.name!==""},modalBulkImport:function(){var g=$("#folder_table").find(":checked");if(g.length===0){f.info("You must select some datasets first.")}else{this.refreshUserHistoriesList(function(i){var h=i.templateBulkImportInModal();i.modal=Galaxy.modal;i.modal.show({closing_events:true,title:"Import into History",body:h({histories:i.histories.models}),buttons:{Import:function(){i.importAllIntoHistory()},Close:function(){Galaxy.modal.hide()}}})})}},refreshUserHistoriesList:function(h){var g=this;this.histories=new d.GalaxyHistories();this.histories.fetch({success:function(){h(g)},error:function(j,i){if(typeof i.responseJSON!=="undefined"){f.error(i.responseJSON.err_msg)}else{f.error("An error ocurred.")}}})},importAllIntoHistory:function(){this.modal.disableButton("Import");var k=$("select[name=dataset_import_bulk] option:selected").val();var n=$("select[name=dataset_import_bulk] option:selected").text();this.options.last_used_history_id=k;var h=[];$("#folder_table").find(":checked").each(function(){if(this.parentElement.parentElement.id!==""){h.push(this.parentElement.parentElement.id)}});var m=[];for(var j=h.length-1;j>=0;j--){var g=h[j];var l=new d.HistoryItem();l.url=l.urlRoot+k+"/contents";l.content=g;l.source="library";m.push(l)}this.initChainCallControl({length:m.length,action:"to_history",history_name:n});jQuery.getJSON(galaxy_config.root+"history/set_as_current?id="+k);this.chainCallImportingIntoHistory(m,n)},updateProgress:function(){this.progress+=this.progressStep;$(".progress-bar-import").width(Math.round(this.progress)+"%");txt_representation=Math.round(this.progress)+"% Complete";$(".completion_span").text(txt_representation)},download:function(g,k){var i=[];$("#folder_table").find(":checked").each(function(){if(this.parentElement.parentElement.id!==""){i.push(this.parentElement.parentElement.id)}});var h="/api/libraries/datasets/download/"+k;var j={ld_ids:i};this.processDownload(h,j,"get")},processDownload:function(h,i,j){if(h&&i){i=typeof i==="string"?i:$.param(i);var g="";$.each(i.split("&"),function(){var k=this.split("=");g+='<input type="hidden" name="'+k[0]+'" value="'+k[1]+'" />'});$('<form action="'+h+'" method="'+(j||"post")+'">'+g+"</form>").appendTo("body").submit().remove();f.info("Your download will begin soon.")}else{f.error("An error occurred.")}},addFilesFromHistoryModal:function(){this.refreshUserHistoriesList(function(g){g.modal=Galaxy.modal;var h=g.templateAddFilesFromHistory();var i=g.options.full_path[g.options.full_path.length-1][1];g.modal.show({closing_events:true,title:"Adding datasets from your history to folder "+i,body:h({histories:g.histories.models}),buttons:{Add:function(){g.addAllDatasetsFromHistory()},Close:function(){Galaxy.modal.hide()}},closing_callback:function(){Galaxy.libraries.library_router.back()}});if(g.histories.models.length>0){g.fetchAndDisplayHistoryContents(g.histories.models[0].id);$("#dataset_add_bulk").change(function(j){g.fetchAndDisplayHistoryContents(j.target.value)})}else{f.error("An error ocurred.")}})},importFilesFromPathModal:function(){var h=this;this.modal=Galaxy.modal;var g=this.templateImportPathModal();this.modal.show({closing_events:true,title:"Please enter paths to import",body:g({}),buttons:{Import:function(){h.importFromPathsClicked(h)},Close:function(){Galaxy.modal.hide()}},closing_callback:function(){Galaxy.libraries.library_router.navigate("folders/"+h.id,{trigger:true})}});this.renderSelectBoxes()},fetchExtAndGenomes:function(){var g=this;e.get({url:galaxy_config.root+"api/datatypes?extension_only=False",success:function(h){for(key in h){g.list_extensions.push({id:h[key].extension,text:h[key].extension,description:h[key].description,description_url:h[key].description_url})}g.list_extensions.sort(function(j,i){return j.id>i.id?1:j.id<i.id?-1:0});g.list_extensions.unshift(g.auto)}});e.get({url:galaxy_config.root+"api/genomes",success:function(h){for(key in h){g.list_genomes.push({id:h[key][1],text:h[key][0]})}g.list_genomes.sort(function(j,i){return j.id>i.id?1:j.id<i.id?-1:0})}})},renderSelectBoxes:function(){var g=this;this.select_genome=new a.View({css:"library-genome-select",data:g.list_genomes,container:Galaxy.modal.$el.find("#library_genome_select"),value:"?"});this.select_extension=new a.View({css:"library-extension-select",data:g.list_extensions,container:Galaxy.modal.$el.find("#library_extension_select"),value:"auto"})},importFilesFromGalaxyFolderModal:function(g){var i=this;var h=this.templateBrowserModal();this.modal=Galaxy.modal;this.modal.show({closing_events:true,title:"Please select folders or files",body:h({}),buttons:{Import:function(){i.importFromJstreePath(i,g)},Close:function(){Galaxy.modal.hide()}},closing_callback:function(){Galaxy.libraries.library_router.navigate("folders/"+i.id,{trigger:true})}});this.renderSelectBoxes();g.disabled_jstree_element="folders";this.renderJstree(g);$("input[type=radio]").change(function(j){if(j.target.value==="jstree-disable-folders"){g.disabled_jstree_element="folders";i.renderJstree(g);$(".jstree-folders-message").hide();$(".jstree-preserve-structure").hide();$(".jstree-link-files").hide();$(".jstree-files-message").show()}else{if(j.target.value==="jstree-disable-files"){$(".jstree-files-message").hide();$(".jstree-folders-message").show();$(".jstree-link-files").show();$(".jstree-preserve-structure").show();g.disabled_jstree_element="files";i.renderJstree(g)}}})},renderJstree:function(g){var i=this;this.options=_.extend(this.options,g);var j=g.source||"userdir";var h=this.options.disabled_jstree_element;this.jstree=new d.Jstree();this.jstree.url=this.jstree.urlRoot+"?target="+j+"&format=jstree&disable="+h;this.jstree.fetch({success:function(l,k){define("jquery",function(){return jQuery});require(["libs/jquery/jstree"],function(m){$("#jstree_browser").jstree("destroy");$("#jstree_browser").jstree({core:{data:l},plugins:["types","checkbox"],types:{folder:{icon:"jstree-folder"},file:{icon:"jstree-file"}},checkbox:{three_state:false}})})},error:function(l,k){if(typeof k.responseJSON!=="undefined"){f.error(k.responseJSON.err_msg)}else{f.error("An error ocurred.")}}})},importFromPathsClicked:function(){var g=this.modal.$el.find(".preserve-checkbox").is(":checked");var n=this.modal.$el.find(".link-checkbox").is(":checked");var h=this.select_extension.value();var j=this.select_genome.value();var m=$("textarea#import_paths").val();var l=[];if(!m){f.info("Please enter a path relative to Galaxy root.")}else{this.modal.disableButton("Import");m=m.split("\n");for(var k=m.length-1;k>=0;k--){trimmed=m[k].trim();if(trimmed.length!==0){l.push(trimmed)}}this.initChainCallControl({length:l.length,action:"adding_datasets"});this.chainCallImportingFolders({paths:l,preserve_dirs:g,link_data:n,source:"admin_path",file_type:h,dbkey:j})}},initChainCallControl:function(g){var h;switch(g.action){case"adding_datasets":h=this.templateAddingDatasetsProgressBar();this.modal.$el.find(".modal-body").html(h({folder_name:this.options.folder_name}));break;case"deleting_datasets":h=this.templateDeletingDatasetsProgressBar();this.modal.$el.find(".modal-body").html(h());break;case"to_history":h=this.templateImportIntoHistoryProgressBar();this.modal.$el.find(".modal-body").html(h({history_name:g.history_name}));break;default:console.error("Wrong action specified.");break}this.progress=0;this.progressStep=100/g.length;this.options.chain_call_control.total_number=g.length;this.options.chain_call_control.failed_number=0},importFromJstreePath:function(n,r){var g=$("#jstree_browser").jstree().get_selected(true);var m=this.modal.$el.find(".preserve-checkbox").is(":checked");var o=this.modal.$el.find(".link-checkbox").is(":checked");var j=this.select_extension.value();var p=this.select_genome.value();var k=g[0].type;var q=[];if(g.length<1){f.info("Please select some items first.")}else{this.modal.disableButton("Import");for(var l=g.length-1;l>=0;l--){if(g[l].li_attr.full_path!==undefined){q.push(g[l].li_attr.full_path)}}this.initChainCallControl({length:q.length,action:"adding_datasets"});if(k==="folder"){var h=r.source+"_folder";this.chainCallImportingFolders({paths:q,preserve_dirs:m,link_data:o,source:h,file_type:j,dbkey:p})}else{if(k==="file"){var h=r.source+"_file";this.chainCallImportingUserdirFiles({paths:q,file_type:j,dbkey:p,source:h})}}}},fetchAndDisplayHistoryContents:function(i){var h=new d.HistoryContents({id:i});var g=this;h.fetch({success:function(k){var j=g.templateHistoryContents();g.histories.get(i).set({contents:k});g.modal.$el.find("#selected_history_content").html(j({history_contents:k.models.reverse()}))},error:function(k,j){if(typeof j.responseJSON!=="undefined"){f.error(j.responseJSON.err_msg)}else{f.error("An error ocurred.")}}})},addAllDatasetsFromHistory:function(){var l=this.modal.$el.find("#selected_history_content").find(":checked");var g=[];var k=[];if(l.length<1){f.info("You must select some datasets first.")}else{this.modal.disableButton("Add");l.each(function(){var i=$(this.parentElement).data("id");if(i){g.push(i)}});for(var j=g.length-1;j>=0;j--){history_dataset_id=g[j];var h=new d.Item();h.url="/api/folders/"+this.options.id+"/contents";h.set({from_hda_id:history_dataset_id});k.push(h)}this.initChainCallControl({length:k.length,action:"adding_datasets"});this.chainCallAddingHdas(k)}},chainCallImportingIntoHistory:function(h,k){var g=this;var i=h.pop();if(typeof i=="undefined"){if(this.options.chain_call_control.failed_number===0){f.success("Selected datasets imported into history. Click this to start analysing it.","",{onclick:function(){window.location="/"}})}else{if(this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number){f.error("There was an error and no datasets were imported into history.")}else{if(this.options.chain_call_control.failed_number<this.options.chain_call_control.total_number){f.warning("Some of the datasets could not be imported into history. Click this to see what was imported.","",{onclick:function(){window.location="/"}})}}}Galaxy.modal.hide();return true}var j=$.when(i.save({content:i.content,source:i.source}));j.done(function(){g.updateProgress();g.chainCallImportingIntoHistory(h,k)}).fail(function(){g.options.chain_call_control.failed_number+=1;g.updateProgress();g.chainCallImportingIntoHistory(h,k)})},chainCallImportingUserdirFiles:function(g){var h=this;var i=g.paths.pop();if(typeof i==="undefined"){if(this.options.chain_call_control.failed_number===0){f.success("Selected files imported into the current folder");Galaxy.modal.hide()}else{f.error("An error occured.")}return true}var j=$.when($.post("/api/libraries/datasets?encoded_folder_id="+h.id+"&source="+g.source+"&path="+i+"&file_type="+g.file_type+"&dbkey="+g.dbkey));j.done(function(k){h.updateProgress();h.chainCallImportingUserdirFiles(g)}).fail(function(){h.options.chain_call_control.failed_number+=1;h.updateProgress();h.chainCallImportingUserdirFiles(g)})},chainCallImportingFolders:function(g){var h=this;var i=g.paths.pop();if(typeof i=="undefined"){if(this.options.chain_call_control.failed_number===0){f.success("Selected folders and their contents imported into the current folder.");Galaxy.modal.hide()}else{f.error("An error occured.")}return true}var j=$.when($.post("/api/libraries/datasets?encoded_folder_id="+h.id+"&source="+g.source+"&path="+i+"&preserve_dirs="+g.preserve_dirs+"&link_data="+g.link_data+"&file_type="+g.file_type+"&dbkey="+g.dbkey));j.done(function(k){h.updateProgress();h.chainCallImportingFolders(g)}).fail(function(){h.options.chain_call_control.failed_number+=1;h.updateProgress();h.chainCallImportingFolders(g)})},chainCallAddingHdas:function(h){var g=this;this.added_hdas=new d.Folder();var i=h.pop();if(typeof i=="undefined"){if(this.options.chain_call_control.failed_number===0){f.success("Selected datasets from history added to the folder")}else{if(this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number){f.error("There was an error and no datasets were added to the folder.")}else{if(this.options.chain_call_control.failed_number<this.options.chain_call_control.total_number){f.warning("Some of the datasets could not be added to the folder")}}}Galaxy.modal.hide();return this.added_hdas}var j=$.when(i.save({from_hda_id:i.get("from_hda_id")}));j.done(function(k){Galaxy.libraries.folderListView.collection.add(k);g.updateProgress();g.chainCallAddingHdas(h)}).fail(function(){g.options.chain_call_control.failed_number+=1;g.updateProgress();g.chainCallAddingHdas(h)})},chainCallDeletingHdas:function(h){var g=this;this.deleted_lddas=new d.Folder();var i=h.pop();if(typeof i==="undefined"){if(this.options.chain_call_control.failed_number===0){f.success("Selected datasets were deleted.")}else{if(this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number){f.error("There was an error and no datasets were deleted. Please make sure you have sufficient permissions.")}else{if(this.options.chain_call_control.failed_number<this.options.chain_call_control.total_number){f.warning("Some of the datasets could not be deleted. Please make sure you have sufficient permissions.")}}}Galaxy.modal.hide();return this.deleted_lddas}var j=$.when(i.destroy());j.done(function(l){Galaxy.libraries.folderListView.collection.remove(i.id);g.updateProgress();if(Galaxy.libraries.folderListView.options.include_deleted){var k=new d.Item(l);Galaxy.libraries.folderListView.collection.add(k)}g.chainCallDeletingHdas(h)}).fail(function(){g.options.chain_call_control.failed_number+=1;g.updateProgress();g.chainCallDeletingHdas(h)})},checkIncludeDeleted:function(g){if(g.target.checked){Galaxy.libraries.folderListView.fetchFolder({include_deleted:true})}else{Galaxy.libraries.folderListView.fetchFolder({include_deleted:false})}},deleteSelectedDatasets:function(){var g=$("#folder_table").find(":checked");if(g.length===0){f.info("You must select at least one dataset for deletion.")}else{var k=this.templateDeletingDatasetsProgressBar();this.modal=Galaxy.modal;this.modal.show({closing_events:true,title:"Deleting selected datasets",body:k({}),buttons:{Close:function(){Galaxy.modal.hide()}}});this.options.chain_call_control.total_number=0;this.options.chain_call_control.failed_number=0;var h=[];g.each(function(){if(this.parentElement.parentElement.id!==""){h.push(this.parentElement.parentElement.id)}});this.progressStep=100/h.length;this.progress=0;var m=[];for(var j=h.length-1;j>=0;j--){var l=new d.Item({id:h[j]});m.push(l)}this.options.chain_call_control.total_number=h.length;this.chainCallDeletingHdas(m)}},showLibInfo:function(){var h=Galaxy.libraries.folderListView.folderContainer.attributes.metadata.parent_library_id;var g=null;var i=this;if(Galaxy.libraries.libraryListView!==null){g=Galaxy.libraries.libraryListView.collection.get(h);this.showLibInfoModal(g)}else{g=new d.Library({id:h});g.fetch({success:function(){i.showLibInfoModal(g)},error:function(k,j){if(typeof j.responseJSON!=="undefined"){f.error(j.responseJSON.err_msg)}else{f.error("An error ocurred.")}}})}},showLibInfoModal:function(g){var h=this.templateLibInfoInModal();this.modal=Galaxy.modal;this.modal.show({closing_events:true,title:"Library Information",body:h({library:g}),buttons:{Close:function(){Galaxy.modal.hide()}}})},showImportModal:function(g){switch(g.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();f.error("Invalid import source.");break}},showPageSizePrompt:function(){var g=prompt("How many items per page do you want to see?",Galaxy.libraries.preferences.get("folder_page_size"));if((g!=null)&&(g==parseInt(g))){Galaxy.libraries.preferences.set({folder_page_size:parseInt(g)});Galaxy.libraries.folderListView.render({id:this.options.id,show_page:1})}},templateToolBar:function(){tmpl_array=[];tmpl_array.push('<div class="library_style_container">');tmpl_array.push(' <div id="library_toolbar">');tmpl_array.push("   <span><strong>DATA LIBRARIES</strong></span>");tmpl_array.push('   <span data-toggle="tooltip" data-placement="top" class="logged-dataset-manipulation" title="Include deleted datasets" style="display:none;"> | <input id="include_deleted_datasets_chk" style="margin: 0;" type="checkbox"> include deleted | </input></span>');tmpl_array.push('   <button style="display:none;" data-toggle="tooltip" data-placement="top" title="Create New Folder" id="toolbtn_create_folder" class="btn btn-default primary-button add-library-items" type="button"><span class="fa fa-plus"></span> <span class="fa fa-folder"></span></button>');tmpl_array.push("<% if(mutiple_add_dataset_options) { %>");tmpl_array.push('   <div class="btn-group add-library-items" style="display:none;">');tmpl_array.push('     <button title="Add Datasets to Current Folder" id="" type="button" class="primary-button dropdown-toggle" data-toggle="dropdown">');tmpl_array.push('     <span class="fa fa-plus"></span> <span class="fa fa-file"></span> <span class="caret"></span>');tmpl_array.push("     </button>");tmpl_array.push('     <ul class="dropdown-menu" role="menu">');tmpl_array.push('        <li><a href="#folders/<%= id %>/import/history"> from History</a></li>');tmpl_array.push("<% if(Galaxy.config.user_library_import_dir !== null) { %>");tmpl_array.push('        <li><a href="#folders/<%= id %>/import/userdir"> from User Directory</a></li>');tmpl_array.push("<% } %>");tmpl_array.push("<% if(Galaxy.config.allow_library_path_paste) { %>");tmpl_array.push('   <li class="divider"></li>');tmpl_array.push('   <li class="dropdown-header">Admins only</li>');tmpl_array.push("<% if(Galaxy.config.library_import_dir !== null) { %>");tmpl_array.push('   <li><a href="#folders/<%= id %>/import/importdir">from Import Directory</a></li>');tmpl_array.push("<% } %>");tmpl_array.push("<% if(Galaxy.config.allow_library_path_paste) { %>");tmpl_array.push('        <li><a href="#folders/<%= id %>/import/path">from Path</a></li>');tmpl_array.push("<% } %>");tmpl_array.push("<% } %>");tmpl_array.push("     </ul>");tmpl_array.push("   </div>");tmpl_array.push("<% } else { %>");tmpl_array.push(' <a  data-placement="top" title="Add Datasets to Current Folder" style="display:none;" class="btn btn-default add-library-items" href="#folders/<%= id %>/import/history" role="button"><span class="fa fa-plus"></span> <span class="fa fa-file"></span></span></a>');tmpl_array.push("<% } %>");tmpl_array.push('  <button data-toggle="tooltip" data-placement="top" title="Import selected datasets into history" id="toolbtn_bulk_import" class="primary-button dataset-manipulation" style="margin-left: 0.5em; display:none;" type="button"><span class="fa fa-book"></span> to History</button>');tmpl_array.push('   <div id="toolbtn_dl" class="btn-group dataset-manipulation" style="margin-left: 0.5em; display:none; ">');tmpl_array.push('     <button title="Download selected datasets as archive" id="drop_toggle" type="button" class="primary-button dropdown-toggle" data-toggle="dropdown">');tmpl_array.push('     <span class="fa fa-download"></span> Download <span class="caret"></span>');tmpl_array.push("     </button>");tmpl_array.push('     <ul class="dropdown-menu" role="menu">');tmpl_array.push('        <li><a href="#/folders/<%= id %>/download/tgz">.tar.gz</a></li>');tmpl_array.push('        <li><a href="#/folders/<%= id %>/download/tbz">.tar.bz</a></li>');tmpl_array.push('        <li><a href="#/folders/<%= id %>/download/zip">.zip</a></li>');tmpl_array.push("     </ul>");tmpl_array.push("   </div>");tmpl_array.push('   <button data-toggle="tooltip" data-placement="top" title="Mark selected datasets deleted" id="toolbtn_bulk_delete" class="primary-button logged-dataset-manipulation" style="margin-left: 0.5em; display:none; " type="button"><span class="fa fa-times"></span> Delete</button>');tmpl_array.push('   <button data-id="<%- id %>" data-toggle="tooltip" data-placement="top" title="Show library information" id="toolbtn_show_libinfo" class="primary-button" style="margin-left: 0.5em;" type="button"><span class="fa fa-info-circle"></span> Library Info</button>');tmpl_array.push('   <span class="help-button" data-toggle="tooltip" data-placement="top" title="Visit Libraries Wiki"><a href="https://wiki.galaxyproject.org/DataLibraries/screen/FolderContents" target="_blank"><button class="primary-button" type="button"><span class="fa fa-question-circle"></span> Help</button></a></span>');tmpl_array.push('          <span id="folder_paginator" class="library-paginator">');tmpl_array.push("          </span>");tmpl_array.push(" </div>");tmpl_array.push(' <div id="folder_items_element">');tmpl_array.push(" </div>");tmpl_array.push("</div>");return _.template(tmpl_array.join(""))},templateLibInfoInModal:function(){tmpl_array=[];tmpl_array.push('<div id="lif_info_modal">');tmpl_array.push("<h2>Library name:</h2>");tmpl_array.push('<p><%- library.get("name") %></p>');tmpl_array.push("<h3>Library description:</h3>");tmpl_array.push('<p><%- library.get("description") %></p>');tmpl_array.push("<h3>Library synopsis:</h3>");tmpl_array.push('<p><%- library.get("synopsis") %></p>');tmpl_array.push("</div>");return _.template(tmpl_array.join(""))},templateNewFolderInModal:function(){tmpl_array=[];tmpl_array.push('<div id="new_folder_modal">');tmpl_array.push("<form>");tmpl_array.push('<input type="text" name="Name" value="" placeholder="Name">');tmpl_array.push('<input type="text" name="Description" value="" placeholder="Description">');tmpl_array.push("</form>");tmpl_array.push("</div>");return _.template(tmpl_array.join(""))},templateBulkImportInModal:function(){var g=[];g.push('<span id="history_modal_combo_bulk" style="width:90%; margin-left: 1em; margin-right: 1em; ">');g.push("Select history: ");g.push('<select id="dataset_import_bulk" name="dataset_import_bulk" style="width:50%; margin-bottom: 1em; "> ');g.push("   <% _.each(histories, function(history) { %>");g.push('       <option value="<%= _.escape(history.get("id")) %>"><%= _.escape(history.get("name")) %></option>');g.push("   <% }); %>");g.push("</select>");g.push("</span>");return _.template(g.join(""))},templateImportIntoHistoryProgressBar:function(){var g=[];g.push('<div class="import_text">');g.push("Importing selected datasets to history <b><%= _.escape(history_name) %></b>");g.push("</div>");g.push('<div class="progress">');g.push('   <div class="progress-bar progress-bar-import" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100" style="width: 00%;">');g.push('       <span class="completion_span">0% Complete</span>');g.push("   </div>");g.push("</div>");g.push("");return _.template(g.join(""))},templateAddingDatasetsProgressBar:function(){var g=[];g.push('<div class="import_text">');g.push("Adding selected datasets to library folder <b><%= _.escape(folder_name) %></b>");g.push("</div>");g.push('<div class="progress">');g.push('   <div class="progress-bar progress-bar-import" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100" style="width: 00%;">');g.push('       <span class="completion_span">0% Complete</span>');g.push("   </div>");g.push("</div>");g.push("");return _.template(g.join(""))},templateDeletingDatasetsProgressBar:function(){var g=[];g.push('<div class="import_text">');g.push("</div>");g.push('<div class="progress">');g.push('   <div class="progress-bar progress-bar-import" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100" style="width: 00%;">');g.push('       <span class="completion_span">0% Complete</span>');g.push("   </div>");g.push("</div>");g.push("");return _.template(g.join(""))},templateBrowserModal:function(){var g=[];g.push('<div id="file_browser_modal">');g.push('<div class="alert alert-info jstree-files-message">All files you select will be imported into the current folder.</div>');g.push('<div class="alert alert-info jstree-folders-message" style="display:none;">All files within the selected folders and their subfolders will be imported into the current folder.</div>');g.push('<div style="margin-bottom:1em;">');g.push('<label class="radio-inline">');g.push('  <input title="Switch to selecting files" type="radio" name="jstree-radio" value="jstree-disable-folders" checked="checked"> Files');g.push("</label>");g.push('<label class="radio-inline">');g.push('  <input title="Switch to selecting folders" type="radio" name="jstree-radio" value="jstree-disable-files"> Folders');g.push("</label>");g.push("</div>");g.push('<div style="margin-bottom:1em;">');g.push('<label class="checkbox-inline jstree-preserve-structure" style="display:none;">');g.push('   <input class="preserve-checkbox" type="checkbox" value="preserve_directory_structure">');g.push("Preserve directory structure");g.push(" </label>");g.push('<label class="checkbox-inline jstree-link-files" style="display:none;">');g.push('   <input class="link-checkbox" type="checkbox" value="link_files">');g.push("Link files instead of copying");g.push(" </label>");g.push("</div>");g.push('<div id="jstree_browser">');g.push("</div>");g.push("<hr />");g.push("<p>You can set extension type and genome for all imported datasets at once:</p>");g.push("<div>");g.push('Type: <span id="library_extension_select" class="library-extension-select" />');g.push('  Genome: <span id="library_genome_select" class="library-genome-select" />');g.push("</div>");g.push("</div>");return _.template(g.join(""))},templateImportPathModal:function(){var g=[];g.push('<div id="file_browser_modal">');g.push('<div class="alert alert-info jstree-folders-message">All files within the given folders and their subfolders will be imported into the current folder.</div>');g.push('<div style="margin-bottom: 0.5em;">');g.push('<label class="checkbox-inline jstree-preserve-structure">');g.push('   <input class="preserve-checkbox" type="checkbox" value="preserve_directory_structure">');g.push("Preserve directory structure");g.push(" </label>");g.push('<label class="checkbox-inline jstree-link-files">');g.push('   <input class="link-checkbox" type="checkbox" value="link_files">');g.push("Link files instead of copying");g.push(" </label>");g.push("</div>");g.push('<textarea id="import_paths" class="form-control" rows="5" placeholder="Absolute paths (or paths relative to Galaxy root) separated by newline"></textarea>');g.push("<hr />");g.push("<p>You can set extension type and genome for all imported datasets at once:</p>");g.push("<div>");g.push('Type: <span id="library_extension_select" class="library-extension-select" />');g.push('  Genome: <span id="library_genome_select" class="library-genome-select" />');g.push("</div>");g.push("</div>");return _.template(g.join(""))},templateAddFilesFromHistory:function(){var g=[];g.push('<div id="add_files_modal">');g.push('<div id="history_modal_combo_bulk">');g.push("Select history:  ");g.push('<select id="dataset_add_bulk" name="dataset_add_bulk" style="width:66%; "> ');g.push("   <% _.each(histories, function(history) { %>");g.push('       <option value="<%= _.escape(history.get("id")) %>"><%= _.escape(history.get("name")) %></option>');g.push("   <% }); %>");g.push("</select>");g.push("</div>");g.push("<br/>");g.push('<div id="selected_history_content">');g.push("</div>");g.push("</div>");return _.template(g.join(""))},templateHistoryContents:function(){var g=[];g.push("<strong>Choose the datasets to import:</strong>");g.push("<ul>");g.push(" <% _.each(history_contents, function(history_item) { %>");g.push(' <li data-id="<%= _.escape(history_item.get("id")) %>">');g.push('   <input style="margin: 0;" type="checkbox"> <%= _.escape(history_item.get("hid")) %>: <%= _.escape(history_item.get("name")) %>');g.push(" </li>");g.push(" <% }); %>");g.push("</ul>");return _.template(g.join(""))},templatePaginator:function(){tmpl_array=[];tmpl_array.push('   <ul class="pagination pagination-sm">');tmpl_array.push("       <% if ( ( show_page - 1 ) > 0 ) { %>");tmpl_array.push("           <% if ( ( show_page - 1 ) > page_count ) { %>");tmpl_array.push('               <li><a href="#folders/<%= id %>/page/1"><span class="fa fa-angle-double-left"></span></a></li>');tmpl_array.push('               <li class="disabled"><a href="#folders/<%= id %>/page/<% print( show_page ) %>"><% print( show_page - 1 ) %></a></li>');tmpl_array.push("           <% } else { %>");tmpl_array.push('               <li><a href="#folders/<%= id %>/page/1"><span class="fa fa-angle-double-left"></span></a></li>');tmpl_array.push('               <li><a href="#folders/<%= id %>/page/<% print( show_page - 1 ) %>"><% print( show_page - 1 ) %></a></li>');tmpl_array.push("           <% } %>");tmpl_array.push("       <% } else { %>");tmpl_array.push('           <li class="disabled"><a href="#folders/<%= id %>/page/1"><span class="fa fa-angle-double-left"></span></a></li>');tmpl_array.push('           <li class="disabled"><a href="#folders/<%= id %>/page/<% print( show_page ) %>"><% print( show_page - 1 ) %></a></li>');tmpl_array.push("       <% } %>");tmpl_array.push('       <li class="active">');tmpl_array.push('       <a href="#folders/<%= id %>/page/<% print( show_page ) %>"><% print( show_page ) %></a>');tmpl_array.push("       </li>");tmpl_array.push("       <% if ( ( show_page ) < page_count ) { %>");tmpl_array.push('           <li><a href="#folders/<%= id %>/page/<% print( show_page + 1 ) %>"><% print( show_page + 1 ) %></a></li>');tmpl_array.push('           <li><a href="#folders/<%= id %>/page/<% print( page_count ) %>"><span class="fa fa-angle-double-right"></span></a></li>');tmpl_array.push("       <% } else { %>");tmpl_array.push('           <li class="disabled"><a href="#folders/<%= id %>/page/<% print( show_page  ) %>"><% print( show_page + 1 ) %></a></li>');tmpl_array.push('           <li class="disabled"><a href="#folders/<%= id %>/page/<% print( page_count ) %>"><span class="fa fa-angle-double-right"></span></a></li>');tmpl_array.push("       <% } %>");tmpl_array.push("   </ul>");tmpl_array.push("   <span>");tmpl_array.push('       showing <a data-toggle="tooltip" data-placement="top" title="Click to change the number of items on page" id="page_size_prompt"><%- items_shown %></a> of <%- total_items_count %> items');tmpl_array.push("   </span>");return _.template(tmpl_array.join(""))},});return{FolderToolbarView:b}});
\ No newline at end of file
+define(["galaxy.masthead","utils/utils","libs/toastr","mvc/library/library-model","mvc/ui/ui-select"],function(c,e,f,d,a){var b=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:false,contains_file:false,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(g){this.options=_.defaults(g||{},this.defaults);this.fetchExtAndGenomes();this.render()},render:function(g){this.options=_.extend(this.options,g);var i=this.templateToolBar();var h={id:this.options.id,is_admin:false,is_anonym:true,mutiple_add_dataset_options:false};if(Galaxy.currUser){h.is_admin=Galaxy.currUser.isAdmin();h.is_anonym=Galaxy.currUser.isAnonymous();if(Galaxy.config.user_library_import_dir!==null||Galaxy.config.allow_library_path_paste!==false||Galaxy.config.library_import_dir!==null){h.mutiple_add_dataset_options=true}}this.$el.html(i(h))},renderPaginator:function(h){this.options=_.extend(this.options,h);var g=this.templatePaginator();this.$el.find("#folder_paginator").html(g({id:this.options.id,show_page:parseInt(this.options.show_page),page_count:parseInt(this.options.page_count),total_items_count:this.options.total_items_count,items_shown:this.options.items_shown}))},configureElements:function(g){this.options=_.extend(this.options,g);if(this.options.can_add_library_item===true){$(".add-library-items").show()}else{$(".add-library-items").hide()}if(this.options.contains_file===true){if(Galaxy.currUser){if(!Galaxy.currUser.isAnonymous()){$(".logged-dataset-manipulation").show();$(".dataset-manipulation").show()}else{$(".dataset-manipulation").show();$(".logged-dataset-manipulation").hide()}}else{$(".logged-dataset-manipulation").hide();$(".dataset-manipulation").hide()}}else{$(".logged-dataset-manipulation").hide();$(".dataset-manipulation").hide()}this.$el.find("[data-toggle]").tooltip()},createFolderFromModal:function(i){i.preventDefault();i.stopPropagation();var g=this;var h=this.templateNewFolderInModal();this.modal=Galaxy.modal;this.modal.show({closing_events:true,title:"Create New Folder",body:h(),buttons:{Create:function(){g.create_new_folder_event()},Close:function(){Galaxy.modal.hide()}}})},create_new_folder_event:function(){var g=this.serialize_new_folder();if(this.validate_new_folder(g)){var h=new d.FolderAsModel();url_items=Backbone.history.fragment.split("/");current_folder_id=url_items[url_items.length-1];h.url=h.urlRoot+"/"+current_folder_id;h.save(g,{success:function(i){Galaxy.modal.hide();f.success("Folder created.");i.set({type:"folder"});Galaxy.libraries.folderListView.collection.add(i)},error:function(j,i){Galaxy.modal.hide();if(typeof i.responseJSON!=="undefined"){f.error(i.responseJSON.err_msg)}else{f.error("An error ocurred.")}}})}else{f.error("Folder's name is missing.")}return false},serialize_new_folder:function(){return{name:$("input[name='Name']").val(),description:$("input[name='Description']").val()}},validate_new_folder:function(g){return g.name!==""},modalBulkImport:function(){var g=$("#folder_table").find(":checked");if(g.length===0){f.info("You must select some datasets first.")}else{this.refreshUserHistoriesList(function(i){var h=i.templateBulkImportInModal();i.modal=Galaxy.modal;i.modal.show({closing_events:true,title:"Import into History",body:h({histories:i.histories.models}),buttons:{Import:function(){i.importAllIntoHistory()},Close:function(){Galaxy.modal.hide()}}})})}},refreshUserHistoriesList:function(h){var g=this;this.histories=new d.GalaxyHistories();this.histories.fetch({success:function(){h(g)},error:function(j,i){if(typeof i.responseJSON!=="undefined"){f.error(i.responseJSON.err_msg)}else{f.error("An error ocurred.")}}})},importAllIntoHistory:function(){this.modal.disableButton("Import");var k=$("select[name=dataset_import_bulk] option:selected").val();var n=$("select[name=dataset_import_bulk] option:selected").text();this.options.last_used_history_id=k;var h=[];$("#folder_table").find(":checked").each(function(){if(this.parentElement.parentElement.id!==""){h.push(this.parentElement.parentElement.id)}});var m=[];for(var j=h.length-1;j>=0;j--){var g=h[j];var l=new d.HistoryItem();l.url=l.urlRoot+k+"/contents";l.content=g;l.source="library";m.push(l)}this.initChainCallControl({length:m.length,action:"to_history",history_name:n});jQuery.getJSON(galaxy_config.root+"history/set_as_current?id="+k);this.chainCallImportingIntoHistory(m,n)},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(g,k){var i=[];$("#folder_table").find(":checked").each(function(){if(this.parentElement.parentElement.id!==""){i.push(this.parentElement.parentElement.id)}});var h=(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/download/"+k;var j={ld_ids:i};this.processDownload(h,j,"get")},processDownload:function(h,i,j){if(h&&i){i=typeof i==="string"?i:$.param(i);var g="";$.each(i.split("&"),function(){var k=this.split("=");g+='<input type="hidden" name="'+k[0]+'" value="'+k[1]+'" />'});$('<form action="'+h+'" method="'+(j||"post")+'">'+g+"</form>").appendTo("body").submit().remove();f.info("Your download will begin soon.")}else{f.error("An error occurred.")}},addFilesFromHistoryModal:function(){this.refreshUserHistoriesList(function(g){g.modal=Galaxy.modal;var h=g.templateAddFilesFromHistory();var i=g.options.full_path[g.options.full_path.length-1][1];g.modal.show({closing_events:true,title:"Adding datasets from your history to folder "+i,body:h({histories:g.histories.models}),buttons:{Add:function(){g.addAllDatasetsFromHistory()},Close:function(){Galaxy.modal.hide()}},closing_callback:function(){Galaxy.libraries.library_router.back()}});if(g.histories.models.length>0){g.fetchAndDisplayHistoryContents(g.histories.models[0].id);$("#dataset_add_bulk").change(function(j){g.fetchAndDisplayHistoryContents(j.target.value)})}else{f.error("An error ocurred.")}})},importFilesFromPathModal:function(){var h=this;this.modal=Galaxy.modal;var g=this.templateImportPathModal();this.modal.show({closing_events:true,title:"Please enter paths to import",body:g({}),buttons:{Import:function(){h.importFromPathsClicked(h)},Close:function(){Galaxy.modal.hide()}},closing_callback:function(){Galaxy.libraries.library_router.navigate("folders/"+h.id,{trigger:true})}});this.renderSelectBoxes()},fetchExtAndGenomes:function(){var g=this;e.get({url:(window.galaxy_config?galaxy_config.root:"/")+"api/datatypes?extension_only=False",success:function(h){for(key in h){g.list_extensions.push({id:h[key].extension,text:h[key].extension,description:h[key].description,description_url:h[key].description_url})}g.list_extensions.sort(function(j,i){return j.id>i.id?1:j.id<i.id?-1:0});g.list_extensions.unshift(g.auto)}});e.get({url:(window.galaxy_config?galaxy_config.root:"/")+"api/genomes",success:function(h){for(key in h){g.list_genomes.push({id:h[key][1],text:h[key][0]})}g.list_genomes.sort(function(j,i){return j.id>i.id?1:j.id<i.id?-1:0})}})},renderSelectBoxes:function(){var g=this;this.select_genome=new a.View({css:"library-genome-select",data:g.list_genomes,container:Galaxy.modal.$el.find("#library_genome_select"),value:"?"});this.select_extension=new a.View({css:"library-extension-select",data:g.list_extensions,container:Galaxy.modal.$el.find("#library_extension_select"),value:"auto"})},importFilesFromGalaxyFolderModal:function(g){var i=this;var h=this.templateBrowserModal();this.modal=Galaxy.modal;this.modal.show({closing_events:true,title:"Please select folders or files",body:h({}),buttons:{Import:function(){i.importFromJstreePath(i,g)},Close:function(){Galaxy.modal.hide()}},closing_callback:function(){Galaxy.libraries.library_router.navigate("folders/"+i.id,{trigger:true})}});this.renderSelectBoxes();g.disabled_jstree_element="folders";this.renderJstree(g);$("input[type=radio]").change(function(j){if(j.target.value==="jstree-disable-folders"){g.disabled_jstree_element="folders";i.renderJstree(g);$(".jstree-folders-message").hide();$(".jstree-preserve-structure").hide();$(".jstree-link-files").hide();$(".jstree-files-message").show()}else{if(j.target.value==="jstree-disable-files"){$(".jstree-files-message").hide();$(".jstree-folders-message").show();$(".jstree-link-files").show();$(".jstree-preserve-structure").show();g.disabled_jstree_element="files";i.renderJstree(g)}}})},renderJstree:function(g){var i=this;this.options=_.extend(this.options,g);var j=g.source||"userdir";var h=this.options.disabled_jstree_element;this.jstree=new d.Jstree();this.jstree.url=this.jstree.urlRoot+"?target="+j+"&format=jstree&disable="+h;this.jstree.fetch({success:function(l,k){define("jquery",function(){return jQuery});require(["libs/jquery/jstree"],function(m){$("#jstree_browser").jstree("destroy");$("#jstree_browser").jstree({core:{data:l},plugins:["types","checkbox"],types:{folder:{icon:"jstree-folder"},file:{icon:"jstree-file"}},checkbox:{three_state:false}})})},error:function(l,k){if(typeof k.responseJSON!=="undefined"){f.error(k.responseJSON.err_msg)}else{f.error("An error ocurred.")}}})},importFromPathsClicked:function(){var g=this.modal.$el.find(".preserve-checkbox").is(":checked");var n=this.modal.$el.find(".link-checkbox").is(":checked");var h=this.select_extension.value();var j=this.select_genome.value();var m=$("textarea#import_paths").val();var l=[];if(!m){f.info("Please enter a path relative to Galaxy root.")}else{this.modal.disableButton("Import");m=m.split("\n");for(var k=m.length-1;k>=0;k--){trimmed=m[k].trim();if(trimmed.length!==0){l.push(trimmed)}}this.initChainCallControl({length:l.length,action:"adding_datasets"});this.chainCallImportingFolders({paths:l,preserve_dirs:g,link_data:n,source:"admin_path",file_type:h,dbkey:j})}},initChainCallControl:function(g){var h;switch(g.action){case"adding_datasets":h=this.templateAddingDatasetsProgressBar();this.modal.$el.find(".modal-body").html(h({folder_name:this.options.folder_name}));break;case"deleting_datasets":h=this.templateDeletingDatasetsProgressBar();this.modal.$el.find(".modal-body").html(h());break;case"to_history":h=this.templateImportIntoHistoryProgressBar();this.modal.$el.find(".modal-body").html(h({history_name:g.history_name}));break;default:console.error("Wrong action specified.");break}this.progress=0;this.progressStep=100/g.length;this.options.chain_call_control.total_number=g.length;this.options.chain_call_control.failed_number=0},importFromJstreePath:function(n,r){var g=$("#jstree_browser").jstree().get_selected(true);var m=this.modal.$el.find(".preserve-checkbox").is(":checked");var o=this.modal.$el.find(".link-checkbox").is(":checked");var j=this.select_extension.value();var p=this.select_genome.value();var k=g[0].type;var q=[];if(g.length<1){f.info("Please select some items first.")}else{this.modal.disableButton("Import");for(var l=g.length-1;l>=0;l--){if(g[l].li_attr.full_path!==undefined){q.push(g[l].li_attr.full_path)}}this.initChainCallControl({length:q.length,action:"adding_datasets"});if(k==="folder"){var h=r.source+"_folder";this.chainCallImportingFolders({paths:q,preserve_dirs:m,link_data:o,source:h,file_type:j,dbkey:p})}else{if(k==="file"){var h=r.source+"_file";this.chainCallImportingUserdirFiles({paths:q,file_type:j,dbkey:p,source:h})}}}},fetchAndDisplayHistoryContents:function(i){var h=new d.HistoryContents({id:i});var g=this;h.fetch({success:function(k){var j=g.templateHistoryContents();g.histories.get(i).set({contents:k});g.modal.$el.find("#selected_history_content").html(j({history_contents:k.models.reverse()}))},error:function(k,j){if(typeof j.responseJSON!=="undefined"){f.error(j.responseJSON.err_msg)}else{f.error("An error ocurred.")}}})},addAllDatasetsFromHistory:function(){var l=this.modal.$el.find("#selected_history_content").find(":checked");var g=[];var k=[];if(l.length<1){f.info("You must select some datasets first.")}else{this.modal.disableButton("Add");l.each(function(){var i=$(this.parentElement).data("id");if(i){g.push(i)}});for(var j=g.length-1;j>=0;j--){history_dataset_id=g[j];var h=new d.Item();h.url=(window.galaxy_config?galaxy_config.root:"/")+"api/folders/"+this.options.id+"/contents";h.set({from_hda_id:history_dataset_id});k.push(h)}this.initChainCallControl({length:k.length,action:"adding_datasets"});this.chainCallAddingHdas(k)}},chainCallImportingIntoHistory:function(h,k){var g=this;var i=h.pop();if(typeof i=="undefined"){if(this.options.chain_call_control.failed_number===0){f.success("Selected datasets imported into history. Click this to start analysing it.","",{onclick:function(){window.location="/"}})}else{if(this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number){f.error("There was an error and no datasets were imported into history.")}else{if(this.options.chain_call_control.failed_number<this.options.chain_call_control.total_number){f.warning("Some of the datasets could not be imported into history. Click this to see what was imported.","",{onclick:function(){window.location="/"}})}}}Galaxy.modal.hide();return true}var j=$.when(i.save({content:i.content,source:i.source}));j.done(function(){g.updateProgress();g.chainCallImportingIntoHistory(h,k)}).fail(function(){g.options.chain_call_control.failed_number+=1;g.updateProgress();g.chainCallImportingIntoHistory(h,k)})},chainCallImportingUserdirFiles:function(g){var h=this;var i=g.paths.pop();if(typeof i==="undefined"){if(this.options.chain_call_control.failed_number===0){f.success("Selected files imported into the current folder");Galaxy.modal.hide()}else{f.error("An error occured.")}return true}var j=$.when($.post((window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets?encoded_folder_id="+h.id+"&source="+g.source+"&path="+i+"&file_type="+g.file_type+"&dbkey="+g.dbkey));j.done(function(k){h.updateProgress();h.chainCallImportingUserdirFiles(g)}).fail(function(){h.options.chain_call_control.failed_number+=1;h.updateProgress();h.chainCallImportingUserdirFiles(g)})},chainCallImportingFolders:function(g){var h=this;var i=g.paths.pop();if(typeof i=="undefined"){if(this.options.chain_call_control.failed_number===0){f.success("Selected folders and their contents imported into the current folder.");Galaxy.modal.hide()}else{f.error("An error occured.")}return true}var j=$.when($.post((window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets?encoded_folder_id="+h.id+"&source="+g.source+"&path="+i+"&preserve_dirs="+g.preserve_dirs+"&link_data="+g.link_data+"&file_type="+g.file_type+"&dbkey="+g.dbkey));j.done(function(k){h.updateProgress();h.chainCallImportingFolders(g)}).fail(function(){h.options.chain_call_control.failed_number+=1;h.updateProgress();h.chainCallImportingFolders(g)})},chainCallAddingHdas:function(h){var g=this;this.added_hdas=new d.Folder();var i=h.pop();if(typeof i=="undefined"){if(this.options.chain_call_control.failed_number===0){f.success("Selected datasets from history added to the folder")}else{if(this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number){f.error("There was an error and no datasets were added to the folder.")}else{if(this.options.chain_call_control.failed_number<this.options.chain_call_control.total_number){f.warning("Some of the datasets could not be added to the folder")}}}Galaxy.modal.hide();return this.added_hdas}var j=$.when(i.save({from_hda_id:i.get("from_hda_id")}));j.done(function(k){Galaxy.libraries.folderListView.collection.add(k);g.updateProgress();g.chainCallAddingHdas(h)}).fail(function(){g.options.chain_call_control.failed_number+=1;g.updateProgress();g.chainCallAddingHdas(h)})},chainCallDeletingHdas:function(h){var g=this;this.deleted_lddas=new d.Folder();var i=h.pop();if(typeof i==="undefined"){if(this.options.chain_call_control.failed_number===0){f.success("Selected datasets were deleted.")}else{if(this.options.chain_call_control.failed_number===this.options.chain_call_control.total_number){f.error("There was an error and no datasets 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){f.warning("Some of the datasets could not be deleted. Please make sure you have sufficient permissions.")}}}Galaxy.modal.hide();return this.deleted_lddas}var j=$.when(i.destroy());j.done(function(l){Galaxy.libraries.folderListView.collection.remove(i.id);g.updateProgress();if(Galaxy.libraries.folderListView.options.include_deleted){var k=new d.Item(l);Galaxy.libraries.folderListView.collection.add(k)}g.chainCallDeletingHdas(h)}).fail(function(){g.options.chain_call_control.failed_number+=1;g.updateProgress();g.chainCallDeletingHdas(h)})},checkIncludeDeleted:function(g){if(g.target.checked){Galaxy.libraries.folderListView.fetchFolder({include_deleted:true})}else{Galaxy.libraries.folderListView.fetchFolder({include_deleted:false})}},deleteSelectedDatasets:function(){var g=$("#folder_table").find(":checked");if(g.length===0){f.info("You must select at least one dataset for deletion.")}else{var k=this.templateDeletingDatasetsProgressBar();this.modal=Galaxy.modal;this.modal.show({closing_events:true,title:"Deleting selected datasets",body:k({}),buttons:{Close:function(){Galaxy.modal.hide()}}});this.options.chain_call_control.total_number=0;this.options.chain_call_control.failed_number=0;var h=[];g.each(function(){if(this.parentElement.parentElement.id!==""){h.push(this.parentElement.parentElement.id)}});this.progressStep=100/h.length;this.progress=0;var m=[];for(var j=h.length-1;j>=0;j--){var l=new d.Item({id:h[j]});m.push(l)}this.options.chain_call_control.total_number=h.length;this.chainCallDeletingHdas(m)}},showLibInfo:function(){var h=Galaxy.libraries.folderListView.folderContainer.attributes.metadata.parent_library_id;var g=null;var i=this;if(Galaxy.libraries.libraryListView!==null){g=Galaxy.libraries.libraryListView.collection.get(h);this.showLibInfoModal(g)}else{g=new d.Library({id:h});g.fetch({success:function(){i.showLibInfoModal(g)},error:function(k,j){if(typeof j.responseJSON!=="undefined"){f.error(j.responseJSON.err_msg)}else{f.error("An error ocurred.")}}})}},showLibInfoModal:function(g){var h=this.templateLibInfoInModal();this.modal=Galaxy.modal;this.modal.show({closing_events:true,title:"Library Information",body:h({library:g}),buttons:{Close:function(){Galaxy.modal.hide()}}})},showImportModal:function(g){switch(g.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();f.error("Invalid import source.");break}},showPageSizePrompt:function(){var g=prompt("How many items per page do you want to see?",Galaxy.libraries.preferences.get("folder_page_size"));if((g!=null)&&(g==parseInt(g))){Galaxy.libraries.preferences.set({folder_page_size:parseInt(g)});Galaxy.libraries.folderListView.render({id:this.options.id,show_page:1})}},templateToolBar:function(){tmpl_array=[];tmpl_array.push('<div class="library_style_container">');tmpl_array.push(' <div id="library_toolbar">');tmpl_array.push("   <span><strong>DATA LIBRARIES</strong></span>");tmpl_array.push('   <span data-toggle="tooltip" data-placement="top" class="logged-dataset-manipulation" title="Include deleted datasets" style="display:none;"> | <input id="include_deleted_datasets_chk" style="margin: 0;" type="checkbox"> include deleted | </input></span>');tmpl_array.push('   <button style="display:none;" data-toggle="tooltip" data-placement="top" title="Create New Folder" id="toolbtn_create_folder" class="btn btn-default primary-button add-library-items" type="button"><span class="fa fa-plus"></span> <span class="fa fa-folder"></span></button>');tmpl_array.push("<% if(mutiple_add_dataset_options) { %>");tmpl_array.push('   <div class="btn-group add-library-items" style="display:none;">');tmpl_array.push('     <button title="Add Datasets to Current Folder" id="" type="button" class="primary-button dropdown-toggle" data-toggle="dropdown">');tmpl_array.push('     <span class="fa fa-plus"></span> <span class="fa fa-file"></span> <span class="caret"></span>');tmpl_array.push("     </button>");tmpl_array.push('     <ul class="dropdown-menu" role="menu">');tmpl_array.push('        <li><a href="#folders/<%= id %>/import/history"> from History</a></li>');tmpl_array.push("<% if(Galaxy.config.user_library_import_dir !== null) { %>");tmpl_array.push('        <li><a href="#folders/<%= id %>/import/userdir"> from User Directory</a></li>');tmpl_array.push("<% } %>");tmpl_array.push("<% if(Galaxy.config.allow_library_path_paste) { %>");tmpl_array.push('   <li class="divider"></li>');tmpl_array.push('   <li class="dropdown-header">Admins only</li>');tmpl_array.push("<% if(Galaxy.config.library_import_dir !== null) { %>");tmpl_array.push('   <li><a href="#folders/<%= id %>/import/importdir">from Import Directory</a></li>');tmpl_array.push("<% } %>");tmpl_array.push("<% if(Galaxy.config.allow_library_path_paste) { %>");tmpl_array.push('        <li><a href="#folders/<%= id %>/import/path">from Path</a></li>');tmpl_array.push("<% } %>");tmpl_array.push("<% } %>");tmpl_array.push("     </ul>");tmpl_array.push("   </div>");tmpl_array.push("<% } else { %>");tmpl_array.push(' <a  data-placement="top" title="Add Datasets to Current Folder" style="display:none;" class="btn btn-default add-library-items" href="#folders/<%= id %>/import/history" role="button"><span class="fa fa-plus"></span> <span class="fa fa-file"></span></span></a>');tmpl_array.push("<% } %>");tmpl_array.push('  <button data-toggle="tooltip" data-placement="top" title="Import selected datasets into history" id="toolbtn_bulk_import" class="primary-button dataset-manipulation" style="margin-left: 0.5em; display:none;" type="button"><span class="fa fa-book"></span> to History</button>');tmpl_array.push('   <div id="toolbtn_dl" class="btn-group dataset-manipulation" style="margin-left: 0.5em; display:none; ">');tmpl_array.push('     <button title="Download selected datasets as archive" id="drop_toggle" type="button" class="primary-button dropdown-toggle" data-toggle="dropdown">');tmpl_array.push('     <span class="fa fa-download"></span> Download <span class="caret"></span>');tmpl_array.push("     </button>");tmpl_array.push('     <ul class="dropdown-menu" role="menu">');tmpl_array.push('        <li><a href="#/folders/<%= id %>/download/tgz">.tar.gz</a></li>');tmpl_array.push('        <li><a href="#/folders/<%= id %>/download/tbz">.tar.bz</a></li>');tmpl_array.push('        <li><a href="#/folders/<%= id %>/download/zip">.zip</a></li>');tmpl_array.push("     </ul>");tmpl_array.push("   </div>");tmpl_array.push('   <button data-toggle="tooltip" data-placement="top" title="Mark selected datasets deleted" id="toolbtn_bulk_delete" class="primary-button logged-dataset-manipulation" style="margin-left: 0.5em; display:none; " type="button"><span class="fa fa-times"></span> Delete</button>');tmpl_array.push('   <button data-id="<%- id %>" data-toggle="tooltip" data-placement="top" title="Show library information" id="toolbtn_show_libinfo" class="primary-button" style="margin-left: 0.5em;" type="button"><span class="fa fa-info-circle"></span> Library Info</button>');tmpl_array.push('   <span class="help-button" data-toggle="tooltip" data-placement="top" title="Visit Libraries Wiki"><a href="https://wiki.galaxyproject.org/DataLibraries/screen/FolderContents" target="_blank"><button class="primary-button" type="button"><span class="fa fa-question-circle"></span> Help</button></a></span>');tmpl_array.push('          <span id="folder_paginator" class="library-paginator">');tmpl_array.push("          </span>");tmpl_array.push(" </div>");tmpl_array.push(' <div id="folder_items_element">');tmpl_array.push(" </div>");tmpl_array.push("</div>");return _.template(tmpl_array.join(""))},templateLibInfoInModal:function(){tmpl_array=[];tmpl_array.push('<div id="lif_info_modal">');tmpl_array.push("<h2>Library name:</h2>");tmpl_array.push('<p><%- library.get("name") %></p>');tmpl_array.push("<h3>Library description:</h3>");tmpl_array.push('<p><%- library.get("description") %></p>');tmpl_array.push("<h3>Library synopsis:</h3>");tmpl_array.push('<p><%- library.get("synopsis") %></p>');tmpl_array.push("</div>");return _.template(tmpl_array.join(""))},templateNewFolderInModal:function(){tmpl_array=[];tmpl_array.push('<div id="new_folder_modal">');tmpl_array.push("<form>");tmpl_array.push('<input type="text" name="Name" value="" placeholder="Name">');tmpl_array.push('<input type="text" name="Description" value="" placeholder="Description">');tmpl_array.push("</form>");tmpl_array.push("</div>");return _.template(tmpl_array.join(""))},templateBulkImportInModal:function(){var g=[];g.push('<span id="history_modal_combo_bulk" style="width:90%; margin-left: 1em; margin-right: 1em; ">');g.push("Select history: ");g.push('<select id="dataset_import_bulk" name="dataset_import_bulk" style="width:50%; margin-bottom: 1em; "> ');g.push("   <% _.each(histories, function(history) { %>");g.push('       <option value="<%= _.escape(history.get("id")) %>"><%= _.escape(history.get("name")) %></option>');g.push("   <% }); %>");g.push("</select>");g.push("</span>");return _.template(g.join(""))},templateImportIntoHistoryProgressBar:function(){var g=[];g.push('<div class="import_text">');g.push("Importing selected datasets to history <b><%= _.escape(history_name) %></b>");g.push("</div>");g.push('<div class="progress">');g.push('   <div class="progress-bar progress-bar-import" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100" style="width: 00%;">');g.push('       <span class="completion_span">0% Complete</span>');g.push("   </div>");g.push("</div>");g.push("");return _.template(g.join(""))},templateAddingDatasetsProgressBar:function(){var g=[];g.push('<div class="import_text">');g.push("Adding selected datasets to library folder <b><%= _.escape(folder_name) %></b>");g.push("</div>");g.push('<div class="progress">');g.push('   <div class="progress-bar progress-bar-import" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100" style="width: 00%;">');g.push('       <span class="completion_span">0% Complete</span>');g.push("   </div>");g.push("</div>");g.push("");return _.template(g.join(""))},templateDeletingDatasetsProgressBar:function(){var g=[];g.push('<div class="import_text">');g.push("</div>");g.push('<div class="progress">');g.push('   <div class="progress-bar progress-bar-import" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100" style="width: 00%;">');g.push('       <span class="completion_span">0% Complete</span>');g.push("   </div>");g.push("</div>");g.push("");return _.template(g.join(""))},templateBrowserModal:function(){var g=[];g.push('<div id="file_browser_modal">');g.push('<div class="alert alert-info jstree-files-message">All files you select will be imported into the current folder.</div>');g.push('<div class="alert alert-info jstree-folders-message" style="display:none;">All files within the selected folders and their subfolders will be imported into the current folder.</div>');g.push('<div style="margin-bottom:1em;">');g.push('<label class="radio-inline">');g.push('  <input title="Switch to selecting files" type="radio" name="jstree-radio" value="jstree-disable-folders" checked="checked"> Files');g.push("</label>");g.push('<label class="radio-inline">');g.push('  <input title="Switch to selecting folders" type="radio" name="jstree-radio" value="jstree-disable-files"> Folders');g.push("</label>");g.push("</div>");g.push('<div style="margin-bottom:1em;">');g.push('<label class="checkbox-inline jstree-preserve-structure" style="display:none;">');g.push('   <input class="preserve-checkbox" type="checkbox" value="preserve_directory_structure">');g.push("Preserve directory structure");g.push(" </label>");g.push('<label class="checkbox-inline jstree-link-files" style="display:none;">');g.push('   <input class="link-checkbox" type="checkbox" value="link_files">');g.push("Link files instead of copying");g.push(" </label>");g.push("</div>");g.push('<div id="jstree_browser">');g.push("</div>");g.push("<hr />");g.push("<p>You can set extension type and genome for all imported datasets at once:</p>");g.push("<div>");g.push('Type: <span id="library_extension_select" class="library-extension-select" />');g.push('  Genome: <span id="library_genome_select" class="library-genome-select" />');g.push("</div>");g.push("</div>");return _.template(g.join(""))},templateImportPathModal:function(){var g=[];g.push('<div id="file_browser_modal">');g.push('<div class="alert alert-info jstree-folders-message">All files within the given folders and their subfolders will be imported into the current folder.</div>');g.push('<div style="margin-bottom: 0.5em;">');g.push('<label class="checkbox-inline jstree-preserve-structure">');g.push('   <input class="preserve-checkbox" type="checkbox" value="preserve_directory_structure">');g.push("Preserve directory structure");g.push(" </label>");g.push('<label class="checkbox-inline jstree-link-files">');g.push('   <input class="link-checkbox" type="checkbox" value="link_files">');g.push("Link files instead of copying");g.push(" </label>");g.push("</div>");g.push('<textarea id="import_paths" class="form-control" rows="5" placeholder="Absolute paths (or paths relative to Galaxy root) separated by newline"></textarea>');g.push("<hr />");g.push("<p>You can set extension type and genome for all imported datasets at once:</p>");g.push("<div>");g.push('Type: <span id="library_extension_select" class="library-extension-select" />');g.push('  Genome: <span id="library_genome_select" class="library-genome-select" />');g.push("</div>");g.push("</div>");return _.template(g.join(""))},templateAddFilesFromHistory:function(){var g=[];g.push('<div id="add_files_modal">');g.push('<div id="history_modal_combo_bulk">');g.push("Select history:  ");g.push('<select id="dataset_add_bulk" name="dataset_add_bulk" style="width:66%; "> ');g.push("   <% _.each(histories, function(history) { %>");g.push('       <option value="<%= _.escape(history.get("id")) %>"><%= _.escape(history.get("name")) %></option>');g.push("   <% }); %>");g.push("</select>");g.push("</div>");g.push("<br/>");g.push('<div id="selected_history_content">');g.push("</div>");g.push("</div>");return _.template(g.join(""))},templateHistoryContents:function(){var g=[];g.push("<strong>Choose the datasets to import:</strong>");g.push("<ul>");g.push(" <% _.each(history_contents, function(history_item) { %>");g.push(' <li data-id="<%= _.escape(history_item.get("id")) %>">');g.push('   <input style="margin: 0;" type="checkbox"> <%= _.escape(history_item.get("hid")) %>: <%= _.escape(history_item.get("name")) %>');g.push(" </li>");g.push(" <% }); %>");g.push("</ul>");return _.template(g.join(""))},templatePaginator:function(){tmpl_array=[];tmpl_array.push('   <ul class="pagination pagination-sm">');tmpl_array.push("       <% if ( ( show_page - 1 ) > 0 ) { %>");tmpl_array.push("           <% if ( ( show_page - 1 ) > page_count ) { %>");tmpl_array.push('               <li><a href="#folders/<%= id %>/page/1"><span class="fa fa-angle-double-left"></span></a></li>');tmpl_array.push('               <li class="disabled"><a href="#folders/<%= id %>/page/<% print( show_page ) %>"><% print( show_page - 1 ) %></a></li>');tmpl_array.push("           <% } else { %>");tmpl_array.push('               <li><a href="#folders/<%= id %>/page/1"><span class="fa fa-angle-double-left"></span></a></li>');tmpl_array.push('               <li><a href="#folders/<%= id %>/page/<% print( show_page - 1 ) %>"><% print( show_page - 1 ) %></a></li>');tmpl_array.push("           <% } %>");tmpl_array.push("       <% } else { %>");tmpl_array.push('           <li class="disabled"><a href="#folders/<%= id %>/page/1"><span class="fa fa-angle-double-left"></span></a></li>');tmpl_array.push('           <li class="disabled"><a href="#folders/<%= id %>/page/<% print( show_page ) %>"><% print( show_page - 1 ) %></a></li>');tmpl_array.push("       <% } %>");tmpl_array.push('       <li class="active">');tmpl_array.push('       <a href="#folders/<%= id %>/page/<% print( show_page ) %>"><% print( show_page ) %></a>');tmpl_array.push("       </li>");tmpl_array.push("       <% if ( ( show_page ) < page_count ) { %>");tmpl_array.push('           <li><a href="#folders/<%= id %>/page/<% print( show_page + 1 ) %>"><% print( show_page + 1 ) %></a></li>');tmpl_array.push('           <li><a href="#folders/<%= id %>/page/<% print( page_count ) %>"><span class="fa fa-angle-double-right"></span></a></li>');tmpl_array.push("       <% } else { %>");tmpl_array.push('           <li class="disabled"><a href="#folders/<%= id %>/page/<% print( show_page  ) %>"><% print( show_page + 1 ) %></a></li>');tmpl_array.push('           <li class="disabled"><a href="#folders/<%= id %>/page/<% print( page_count ) %>"><span class="fa fa-angle-double-right"></span></a></li>');tmpl_array.push("       <% } %>");tmpl_array.push("   </ul>");tmpl_array.push("   <span>");tmpl_array.push('       showing <a data-toggle="tooltip" data-placement="top" title="Click to change the number of items on page" id="page_size_prompt"><%- items_shown %></a> of <%- total_items_count %> items');tmpl_array.push("   </span>");return _.template(tmpl_array.join(""))},});return{FolderToolbarView:b}});
\ No newline at end of file
diff --git a/static/scripts/packed/mvc/library/library-library-view.js b/static/scripts/packed/mvc/library/library-library-view.js
index 23b5ad0b391..1cf92b9a788 100644
--- a/static/scripts/packed/mvc/library/library-library-view.js
+++ b/static/scripts/packed/mvc/library/library-library-view.js
@@ -1 +1 @@
-define(["libs/toastr","mvc/library/library-model","mvc/ui/ui-select"],function(d,c,a){var b=Backbone.View.extend({el:"#center",model:null,options:{},events:{"click .toolbtn_save_permissions":"savePermissions"},initialize:function(e){this.options=_.extend(this.options,e);if(this.options.id){this.fetchLibrary()}},fetchLibrary:function(e){this.options=_.extend(this.options,e);this.model=new c.Library({id:this.options.id});var f=this;this.model.fetch({success:function(){if(f.options.show_permissions){f.showPermissions()}else{f.render()}},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error(g.responseJSON.err_msg+" Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}else{d.error("An error ocurred. Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}}})},render:function(e){$(".tooltip").remove();this.options=_.extend(this.options,e);var f=this.templateLibrary();this.$el.html(f({item:this.model}));$("#center [data-toggle]").tooltip()},shareDataset:function(){d.info("Feature coming soon.")},goBack:function(){Galaxy.libraries.library_router.back()},showPermissions:function(f){this.options=_.extend(this.options,f);$(".tooltip").remove();if(this.options.fetched_permissions!==undefined){if(this.options.fetched_permissions.access_library_role_list.length===0){this.model.set({is_unrestricted:true})}else{this.model.set({is_unrestricted:false})}}var h=false;if(Galaxy.currUser){h=Galaxy.currUser.isAdmin()}var g=this.templateLibraryPermissions();this.$el.html(g({library:this.model,is_admin:h}));var e=this;if(this.options.fetched_permissions===undefined){$.get("/api/libraries/"+e.id+"/permissions?scope=current").done(function(i){e.prepareSelectBoxes({fetched_permissions:i})}).fail(function(){d.error("An error occurred while attempting to fetch library permissions.")})}else{this.prepareSelectBoxes({})}$("#center [data-toggle]").tooltip();$("#center").css("overflow","auto")},_serializeRoles:function(g){var e=[];for(var f=0;f<g.length;f++){e.push(g[f][1]+":"+g[f][0])}return e},prepareSelectBoxes:function(i){this.options=_.extend(this.options,i);var e=this.options.fetched_permissions;var g=this;var f=this._serializeRoles(e.access_library_role_list);var j=this._serializeRoles(e.add_library_item_role_list);var h=this._serializeRoles(e.manage_library_role_list);var k=this._serializeRoles(e.modify_library_role_list);g.accessSelectObject=new a.View(this._createSelectOptions(this,"access_perm",f,true));g.addSelectObject=new a.View(this._createSelectOptions(this,"add_perm",j,false));g.manageSelectObject=new a.View(this._createSelectOptions(this,"manage_perm",h,false));g.modifySelectObject=new a.View(this._createSelectOptions(this,"modify_perm",k,false))},_createSelectOptions:function(f,k,i,e){e=e===true?e:false;var j={minimumInputLength:0,css:k,multiple:true,placeholder:"Click to select a role",container:f.$el.find("#"+k),ajax:{url:"/api/libraries/"+f.id+"/permissions?scope=available&is_library_access="+e,dataType:"json",quietMillis:100,data:function(l,m){return{q:l,page_limit:10,page:m}},results:function(n,m){var l=(m*10)<n.total;return{results:n.roles,more:l}}},formatResult:function g(l){return l.name+" type: "+l.type},formatSelection:function h(l){return l.name},initSelection:function(l,n){var m=[];$(l.val().split(",")).each(function(){var o=this.split(":");m.push({id:o[0],name:o[1]})});n(m)},initialData:i,dropdownCssClass:"bigdrop"};return j},comingSoon:function(){d.warning("Feature coming soon.")},copyToClipboard:function(){var e=Backbone.history.location.href;if(e.lastIndexOf("/permissions")!==-1){e=e.substr(0,e.lastIndexOf("/permissions"))}window.prompt("Copy to clipboard: Ctrl+C, Enter",e)},makeDatasetPrivate:function(){var e=this;$.post("/api/libraries/datasets/"+e.id+"/permissions?action=make_private").done(function(f){e.model.set({is_unrestricted:false});e.showPermissions({fetched_permissions:f});d.success("The dataset is now private to you.")}).fail(function(){d.error("An error occurred while attempting to make dataset private.")})},removeDatasetRestrictions:function(){var e=this;$.post("/api/libraries/datasets/"+e.id+"/permissions?action=remove_restrictions").done(function(f){e.model.set({is_unrestricted:true});e.showPermissions({fetched_permissions:f});d.success("Access to this dataset is now unrestricted.")}).fail(function(){d.error("An error occurred while attempting to make dataset unrestricted.")})},_extractIds:function(e){ids_list=[];for(var f=e.length-1;f>=0;f--){ids_list.push(e[f].id)}return ids_list},savePermissions:function(h){var g=this;var i=this._extractIds(this.accessSelectObject.$el.select2("data"));var e=this._extractIds(this.addSelectObject.$el.select2("data"));var j=this._extractIds(this.manageSelectObject.$el.select2("data"));var f=this._extractIds(this.modifySelectObject.$el.select2("data"));$.post("/api/libraries/"+g.id+"/permissions?action=set_permissions",{"access_ids[]":i,"add_ids[]":e,"manage_ids[]":j,"modify_ids[]":f,}).done(function(k){g.showPermissions({fetched_permissions:k});d.success("Permissions saved.")}).fail(function(){d.error("An error occurred while attempting to set library permissions.")})},templateLibrary:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <button data-toggle="tooltip" data-placement="top" title="Modify library item" class="btn btn-default toolbtn_modify_dataset primary-button" type="button"><span class="fa fa-pencil"></span> Modify</span></button>');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>/permissions"><button data-toggle="tooltip" data-placement="top" title="Manage permissions" class="btn btn-default toolbtn_change_permissions primary-button" type="button"><span class="fa fa-group"></span> Permissions</span></button></a>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Share dataset" class="btn btn-default toolbtn-share-dataset primary-button" type="button"><span class="fa fa-share"></span> Share</span></button>');e.push("  </div>");e.push("  <p>");e.push("  This dataset is unrestricted so everybody can access it. Just share the URL of this page. ");e.push('  <button data-toggle="tooltip" data-placement="top" title="Copy to clipboard" class="btn btn-default btn-copy-link-to-clipboard primary-button" type="button"><span class="fa fa-clipboard"></span> To Clipboard</span></button> ');e.push("  </p>");e.push('<div class="dataset_table">');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(item.get("ldda_id")) %>">Name</th>');e.push('           <td><%= _.escape(item.get("name")) %></td>');e.push("       </tr>");e.push('   <% if (item.get("file_ext")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(item.get("file_ext")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push("    </table>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateLibraryPermissions:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <a href="#"><button data-toggle="tooltip" data-placement="top" title="Go back to the list of Libraries" class="btn btn-default primary-button" type="button"><span class="fa fa-list"></span> Libraries</span></button></a>');e.push("  </div>");e.push('<h1>Library: <%= _.escape(library.get("name")) %></h1>');e.push('<div class="alert alert-warning">');e.push("<% if (is_admin) { %>");e.push("You are logged in as an <strong>administrator</strong> therefore you can manage any library on this Galaxy instance. Please make sure you understand the consequences.");e.push("<% } else { %>");e.push("You can assign any number of roles to any of the following permission types. However please read carefully the implications of such actions.");e.push("<% }%>");e.push("</div>");e.push('<div class="dataset_table">');e.push("<h2>Library permissions</h2>");e.push("<h4>Roles that can access the library</h4>");e.push('<div id="access_perm" class="access_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can access this library. If there are no access roles set on the library it is considered <strong>unrestricted</strong>.</div>');e.push("<h4>Roles that can manage permissions on this library</h4>");e.push('<div id="manage_perm" class="manage_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can manage permissions on this library (includes giving access).</div>');e.push("<h4>Roles that can add items to this library</h4>");e.push('<div id="add_perm" class="add_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can add items to this library (folders and datasets).</div>');e.push("<h4>Roles that can modify this library</h4>");e.push('<div id="modify_perm" class="modify_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can modify this library (name, synopsis, etc.).</div>');e.push('<button data-toggle="tooltip" data-placement="top" title="Save modifications made on this page" class="btn btn-default toolbtn_save_permissions primary-button" type="button"><span class="fa fa-floppy-o"></span> Save</span></button>');e.push("</div>");e.push("</div>");return _.template(e.join(""))}});return{LibraryView:b}});
\ No newline at end of file
+define(["libs/toastr","mvc/library/library-model","mvc/ui/ui-select"],function(d,c,a){var b=Backbone.View.extend({el:"#center",model:null,options:{},events:{"click .toolbtn_save_permissions":"savePermissions"},initialize:function(e){this.options=_.extend(this.options,e);if(this.options.id){this.fetchLibrary()}},fetchLibrary:function(e){this.options=_.extend(this.options,e);this.model=new c.Library({id:this.options.id});var f=this;this.model.fetch({success:function(){if(f.options.show_permissions){f.showPermissions()}else{f.render()}},error:function(h,g){if(typeof g.responseJSON!=="undefined"){d.error(g.responseJSON.err_msg+" Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}else{d.error("An error ocurred. Click this to go back.","",{onclick:function(){Galaxy.libraries.library_router.back()}})}}})},render:function(e){$(".tooltip").remove();this.options=_.extend(this.options,e);var f=this.templateLibrary();this.$el.html(f({item:this.model}));$("#center [data-toggle]").tooltip()},shareDataset:function(){d.info("Feature coming soon.")},goBack:function(){Galaxy.libraries.library_router.back()},showPermissions:function(f){this.options=_.extend(this.options,f);$(".tooltip").remove();if(this.options.fetched_permissions!==undefined){if(this.options.fetched_permissions.access_library_role_list.length===0){this.model.set({is_unrestricted:true})}else{this.model.set({is_unrestricted:false})}}var h=false;if(Galaxy.currUser){h=Galaxy.currUser.isAdmin()}var g=this.templateLibraryPermissions();this.$el.html(g({library:this.model,is_admin:h}));var e=this;if(this.options.fetched_permissions===undefined){$.get((window.galaxy_config?galaxy_config.root:"/")+"api/libraries/"+e.id+"/permissions?scope=current").done(function(i){e.prepareSelectBoxes({fetched_permissions:i})}).fail(function(){d.error("An error occurred while attempting to fetch library permissions.")})}else{this.prepareSelectBoxes({})}$("#center [data-toggle]").tooltip();$("#center").css("overflow","auto")},_serializeRoles:function(g){var e=[];for(var f=0;f<g.length;f++){e.push(g[f][1]+":"+g[f][0])}return e},prepareSelectBoxes:function(i){this.options=_.extend(this.options,i);var e=this.options.fetched_permissions;var g=this;var f=this._serializeRoles(e.access_library_role_list);var j=this._serializeRoles(e.add_library_item_role_list);var h=this._serializeRoles(e.manage_library_role_list);var k=this._serializeRoles(e.modify_library_role_list);g.accessSelectObject=new a.View(this._createSelectOptions(this,"access_perm",f,true));g.addSelectObject=new a.View(this._createSelectOptions(this,"add_perm",j,false));g.manageSelectObject=new a.View(this._createSelectOptions(this,"manage_perm",h,false));g.modifySelectObject=new a.View(this._createSelectOptions(this,"modify_perm",k,false))},_createSelectOptions:function(f,k,i,e){e=e===true?e:false;var j={minimumInputLength:0,css:k,multiple:true,placeholder:"Click to select a role",container:f.$el.find("#"+k),ajax:{url:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/"+f.id+"/permissions?scope=available&is_library_access="+e,dataType:"json",quietMillis:100,data:function(l,m){return{q:l,page_limit:10,page:m}},results:function(n,m){var l=(m*10)<n.total;return{results:n.roles,more:l}}},formatResult:function g(l){return l.name+" type: "+l.type},formatSelection:function h(l){return l.name},initSelection:function(l,n){var m=[];$(l.val().split(",")).each(function(){var o=this.split(":");m.push({id:o[0],name:o[1]})});n(m)},initialData:i,dropdownCssClass:"bigdrop"};return j},comingSoon:function(){d.warning("Feature coming soon.")},copyToClipboard:function(){var e=Backbone.history.location.href;if(e.lastIndexOf("/permissions")!==-1){e=e.substr(0,e.lastIndexOf("/permissions"))}window.prompt("Copy to clipboard: Ctrl+C, Enter",e)},makeDatasetPrivate:function(){var e=this;$.post((window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"+e.id+"/permissions?action=make_private").done(function(f){e.model.set({is_unrestricted:false});e.showPermissions({fetched_permissions:f});d.success("The dataset is now private to you.")}).fail(function(){d.error("An error occurred while attempting to make dataset private.")})},removeDatasetRestrictions:function(){var e=this;$.post((window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"+e.id+"/permissions?action=remove_restrictions").done(function(f){e.model.set({is_unrestricted:true});e.showPermissions({fetched_permissions:f});d.success("Access to this dataset is now unrestricted.")}).fail(function(){d.error("An error occurred while attempting to make dataset unrestricted.")})},_extractIds:function(e){ids_list=[];for(var f=e.length-1;f>=0;f--){ids_list.push(e[f].id)}return ids_list},savePermissions:function(h){var g=this;var i=this._extractIds(this.accessSelectObject.$el.select2("data"));var e=this._extractIds(this.addSelectObject.$el.select2("data"));var j=this._extractIds(this.manageSelectObject.$el.select2("data"));var f=this._extractIds(this.modifySelectObject.$el.select2("data"));$.post((window.galaxy_config?galaxy_config.root:"/")+"api/libraries/"+g.id+"/permissions?action=set_permissions",{"access_ids[]":i,"add_ids[]":e,"manage_ids[]":j,"modify_ids[]":f,}).done(function(k){g.showPermissions({fetched_permissions:k});d.success("Permissions saved.")}).fail(function(){d.error("An error occurred while attempting to set library permissions.")})},templateLibrary:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <button data-toggle="tooltip" data-placement="top" title="Modify library item" class="btn btn-default toolbtn_modify_dataset primary-button" type="button"><span class="fa fa-pencil"></span> Modify</span></button>');e.push('   <a href="#folders/<%- item.get("folder_id") %>/datasets/<%- item.id %>/permissions"><button data-toggle="tooltip" data-placement="top" title="Manage permissions" class="btn btn-default toolbtn_change_permissions primary-button" type="button"><span class="fa fa-group"></span> Permissions</span></button></a>');e.push('   <button data-toggle="tooltip" data-placement="top" title="Share dataset" class="btn btn-default toolbtn-share-dataset primary-button" type="button"><span class="fa fa-share"></span> Share</span></button>');e.push("  </div>");e.push("  <p>");e.push("  This dataset is unrestricted so everybody can access it. Just share the URL of this page. ");e.push('  <button data-toggle="tooltip" data-placement="top" title="Copy to clipboard" class="btn btn-default btn-copy-link-to-clipboard primary-button" type="button"><span class="fa fa-clipboard"></span> To Clipboard</span></button> ');e.push("  </p>");e.push('<div class="dataset_table">');e.push('   <table class="grid table table-striped table-condensed">');e.push("       <tr>");e.push('           <th scope="row" id="id_row" data-id="<%= _.escape(item.get("ldda_id")) %>">Name</th>');e.push('           <td><%= _.escape(item.get("name")) %></td>');e.push("       </tr>");e.push('   <% if (item.get("file_ext")) { %>');e.push("       <tr>");e.push('           <th scope="row">Data type</th>');e.push('           <td><%= _.escape(item.get("file_ext")) %></td>');e.push("       </tr>");e.push("   <% } %>");e.push("    </table>");e.push("</div>");e.push("</div>");return _.template(e.join(""))},templateLibraryPermissions:function(){var e=[];e.push('<div class="library_style_container">');e.push('  <div id="library_toolbar">');e.push('   <a href="#"><button data-toggle="tooltip" data-placement="top" title="Go back to the list of Libraries" class="btn btn-default primary-button" type="button"><span class="fa fa-list"></span> Libraries</span></button></a>');e.push("  </div>");e.push('<h1>Library: <%= _.escape(library.get("name")) %></h1>');e.push('<div class="alert alert-warning">');e.push("<% if (is_admin) { %>");e.push("You are logged in as an <strong>administrator</strong> therefore you can manage any library on this Galaxy instance. Please make sure you understand the consequences.");e.push("<% } else { %>");e.push("You can assign any number of roles to any of the following permission types. However please read carefully the implications of such actions.");e.push("<% }%>");e.push("</div>");e.push('<div class="dataset_table">');e.push("<h2>Library permissions</h2>");e.push("<h4>Roles that can access the library</h4>");e.push('<div id="access_perm" class="access_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can access this library. If there are no access roles set on the library it is considered <strong>unrestricted</strong>.</div>');e.push("<h4>Roles that can manage permissions on this library</h4>");e.push('<div id="manage_perm" class="manage_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can manage permissions on this library (includes giving access).</div>');e.push("<h4>Roles that can add items to this library</h4>");e.push('<div id="add_perm" class="add_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can add items to this library (folders and datasets).</div>');e.push("<h4>Roles that can modify this library</h4>");e.push('<div id="modify_perm" class="modify_perm roles-selection"></div>');e.push('<div class="alert alert-info roles-selection">User with <strong>any</strong> of these roles can modify this library (name, synopsis, etc.).</div>');e.push('<button data-toggle="tooltip" data-placement="top" title="Save modifications made on this page" class="btn btn-default toolbtn_save_permissions primary-button" type="button"><span class="fa fa-floppy-o"></span> Save</span></button>');e.push("</div>");e.push("</div>");return _.template(e.join(""))}});return{LibraryView:b}});
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diff --git a/static/scripts/packed/mvc/library/library-model.js b/static/scripts/packed/mvc/library/library-model.js
index 92f54886f53..63cfbdf071f 100644
--- a/static/scripts/packed/mvc/library/library-model.js
+++ b/static/scripts/packed/mvc/library/library-model.js
@@ -1 +1 @@
-define([],function(){var f=Backbone.Model.extend({urlRoot:"/api/libraries/",isVisible:function(n){var m=true;if((!n)&&(this.get("deleted"))){m=false}return m}});var i=Backbone.Collection.extend({url:"/api/libraries",model:f,sort_key:"name",sort_order:null,initialize:function(m){m=m||{}},getVisible:function(n,o){o=o||[];var m=new i(this.filter(function(p){return p.isVisible(n)}));return m},sortByNameAsc:function(){this.comparator=function(n,m){if(n.get("name").toLowerCase()>m.get("name").toLowerCase()){return 1}if(m.get("name").toLowerCase()>n.get("name").toLowerCase()){return -1}return 0};this.sort();return this},sortByNameDesc:function(){this.comparator=function(n,m){if(n.get("name").toLowerCase()>m.get("name").toLowerCase()){return -1}if(m.get("name").toLowerCase()>n.get("name").toLowerCase()){return 1}return 0};this.sort();return this}});var g=Backbone.Model.extend({urlRoot:"/api/libraries/datasets/"});var l=Backbone.Model.extend({urlRoot:"/api/libraries/datasets/"});var a=Backbone.Model.extend({urlRoot:"/api/folders"});var c=Backbone.Collection.extend({model:g,sortByNameAsc:function(){this.comparator=function(n,m){if(n.get("type")===m.get("type")){if(n.get("name").toLowerCase()>m.get("name").toLowerCase()){return 1}if(m.get("name").toLowerCase()>n.get("name").toLowerCase()){return -1}return 0}else{if(n.get("type")==="folder"){return -1}else{return 1}}};this.sort();return this},sortByNameDesc:function(){this.comparator=function(n,m){if(n.get("type")===m.get("type")){if(n.get("name").toLowerCase()>m.get("name").toLowerCase()){return -1}if(m.get("name").toLowerCase()>n.get("name").toLowerCase()){return 1}return 0}else{if(n.get("type")==="folder"){return -1}else{return 1}}};this.sort();return this}});var e=Backbone.Model.extend({defaults:{folder:new c(),urlRoot:"/api/folders/",id:"unknown"},parse:function(m){this.get("folder").reset(m.folder_contents);return m}});var b=Backbone.Model.extend({urlRoot:"/api/histories/"});var d=Backbone.Collection.extend({urlRoot:"/api/histories/",initialize:function(m){this.id=m.id},url:function(){return this.urlRoot+this.id+"/contents"},model:b});var h=Backbone.Model.extend({urlRoot:"/api/histories/"});var k=Backbone.Collection.extend({url:"/api/histories",model:h});var j=Backbone.Model.extend({urlRoot:"/api/remote_files"});return{Library:f,FolderAsModel:a,Libraries:i,Item:g,Ldda:l,Folder:c,FolderContainer:e,HistoryItem:b,HistoryContents:d,GalaxyHistory:h,GalaxyHistories:k,Jstree:j}});
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+define([],function(){var f=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/",isVisible:function(n){var m=true;if((!n)&&(this.get("deleted"))){m=false}return m}});var i=Backbone.Collection.extend({url:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries",model:f,sort_key:"name",sort_order:null,initialize:function(m){m=m||{}},getVisible:function(n,o){o=o||[];var m=new i(this.filter(function(p){return p.isVisible(n)}));return m},sortByNameAsc:function(){this.comparator=function(n,m){if(n.get("name").toLowerCase()>m.get("name").toLowerCase()){return 1}if(m.get("name").toLowerCase()>n.get("name").toLowerCase()){return -1}return 0};this.sort();return this},sortByNameDesc:function(){this.comparator=function(n,m){if(n.get("name").toLowerCase()>m.get("name").toLowerCase()){return -1}if(m.get("name").toLowerCase()>n.get("name").toLowerCase()){return 1}return 0};this.sort();return this}});var g=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"});var l=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/libraries/datasets/"});var a=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/folders"});var c=Backbone.Collection.extend({model:g,sortByNameAsc:function(){this.comparator=function(n,m){if(n.get("type")===m.get("type")){if(n.get("name").toLowerCase()>m.get("name").toLowerCase()){return 1}if(m.get("name").toLowerCase()>n.get("name").toLowerCase()){return -1}return 0}else{if(n.get("type")==="folder"){return -1}else{return 1}}};this.sort();return this},sortByNameDesc:function(){this.comparator=function(n,m){if(n.get("type")===m.get("type")){if(n.get("name").toLowerCase()>m.get("name").toLowerCase()){return -1}if(m.get("name").toLowerCase()>n.get("name").toLowerCase()){return 1}return 0}else{if(n.get("type")==="folder"){return -1}else{return 1}}};this.sort();return this}});var e=Backbone.Model.extend({defaults:{folder:new c(),urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/folders/",id:"unknown"},parse:function(m){this.get("folder").reset(m.folder_contents);return m}});var b=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/histories/"});var d=Backbone.Collection.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/histories/",initialize:function(m){this.id=m.id},url:function(){return this.urlRoot+this.id+"/contents"},model:b});var h=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/histories/"});var k=Backbone.Collection.extend({url:(window.galaxy_config?galaxy_config.root:"/")+"api/histories",model:h});var j=Backbone.Model.extend({urlRoot:(window.galaxy_config?galaxy_config.root:"/")+"api/remote_files"});return{Library:f,FolderAsModel:a,Libraries:i,Item:g,Ldda:l,Folder:c,FolderContainer:e,HistoryItem:b,HistoryContents:d,GalaxyHistory:h,GalaxyHistories:k,Jstree:j}});
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