opensource/galaxy
3
0
Fork 0
mirror of https://github.com/galaxyproject/galaxy.git synced 2026-09-24 16:30:27 +08:00
Code Issues Packages Projects Releases Wiki Activity

History & collections: client-side file and class renaming: - li: readonly list item view, - li-edit: editable list item view, - primary identity first (eg. hda-*), - moved hda/hdca into history directory; Fix bug for dataset URLs

Browse Source
This commit is contained in:
Carl Eberhard
2014-08-12 09:38:08 -04:00
parent ead6e62dd4
commit 2d4e2a7523
59 changed files with 1660 additions and 1736 deletions
Download Patch File Download Diff File Expand all files Collapse all files
static/scripts/mvc/collection/dataset-collection-edit.js → static/scripts/mvc/collection/collection-li-edit.js
+7 -13
View File
@@ -1,8 +1,7 @@
define([
"mvc/dataset/states",
"mvc/collection/dataset-collection-base",
"mvc/collection/collection-li",
"utils/localization"
], function( STATES, DC_BASE_VIEW, _l ){
], function( DC_LI, _l ){
//==============================================================================
/*
@@ -11,29 +10,24 @@ NOTE: not much going on here. Until we find out what operations a user will need
*/
//==============================================================================
var _super = DC_BASE_VIEW.DCBaseView;
/** @class Editing view for DatasetCollection.
* @name DatasetCollectionEditView
*
* @augments DCBaseView
* @constructs
var _super = DC_LI.DCListItemView;
/** @class Editing view for DatasetCollectionElement.
*/
var DCEditView = _super.extend({
var DCEListItemEdit = _super.extend({
/** logger used to record this.log messages, commonly set to console */
// comment this out to suppress log output
//logger : console,
// ......................................................................... misc
/** string rep */
toString : function(){
var modelString = ( this.model )?( this.model + '' ):( '(no model)' );
return 'DCEditView(' + modelString + ')';
return 'DCEListItemEdit(' + modelString + ')';
}
});
//==============================================================================
return {
DCEditView : DCEditView
DCEListItemEdit : DCEListItemEdit
};
});
static/scripts/mvc/collection/dataset-collection-base.js → static/scripts/mvc/collection/collection-li.js
+25 -24
View File
@@ -1,5 +1,5 @@
define([
"mvc/dataset/dataset-list-element",
"mvc/dataset/dataset-li",
"mvc/base-mvc",
"utils/localization"
], function( DATASET_LI, BASE_MVC, _l ){
@@ -8,7 +8,7 @@ define([
var ListItemView = BASE_MVC.ListItemView;
/** @class Read only view for DatasetCollection.
*/
var DCBaseView = ListItemView.extend({
var DCListItemView = ListItemView.extend({
//TODO: may not be needed
/** logger used to record this.log messages, commonly set to console */
@@ -22,7 +22,7 @@ var DCBaseView = ListItemView.extend({
/** set up */
initialize : function( attributes ){
if( attributes.logger ){ this.logger = this.model.logger = attributes.logger; }
this.log( 'DCBaseView.initialize:', attributes );
this.log( this + '(DCListItemView).initialize:', attributes );
ListItemView.prototype.initialize.call( this, attributes );
},
@@ -60,13 +60,13 @@ var DCBaseView = ListItemView.extend({
/** String representation */
toString : function(){
var modelString = ( this.model )?( this.model + '' ):( '(no model)' );
return 'DCBaseView(' + modelString + ')';
return 'DCListItemView(' + modelString + ')';
}
});
// ............................................................................ TEMPLATES
/** underscore templates */
DCBaseView.prototype.templates = (function(){
DCListItemView.prototype.templates = (function(){
// use element identifier
var titleBarTemplate = BASE_MVC.wrapTemplate([
@@ -87,8 +87,8 @@ DCBaseView.prototype.templates = (function(){
//==============================================================================
/** @class Read only view for DatasetCollectionElement.
*/
var DCEBaseView = ListItemView.extend({
//TODO: this might be expendable - compacted with HDADCEBaseView
var DCEListItemView = ListItemView.extend({
//TODO: this might be expendable - compacted with HDAListItemView
/** logger used to record this.log messages, commonly set to console */
// comment this out to suppress log output
@@ -102,7 +102,7 @@ var DCEBaseView = ListItemView.extend({
/** */
initialize : function( attributes ){
if( attributes.logger ){ this.logger = this.model.logger = attributes.logger; }
this.log( 'DCEBaseView.initialize:', attributes );
this.log( 'DCEListItemView.initialize:', attributes );
ListItemView.prototype.initialize.call( this, attributes );
},
@@ -110,13 +110,13 @@ var DCEBaseView = ListItemView.extend({
/** String representation */
toString : function(){
var modelString = ( this.model )?( this.model + '' ):( '(no model)' );
return 'DCEBaseView(' + modelString + ')';
return 'DCEListItemView(' + modelString + ')';
}
});
// ............................................................................ TEMPLATES
/** underscore templates */
DCEBaseView.prototype.templates = (function(){
DCEListItemView.prototype.templates = (function(){
// use the element identifier here - since that will persist and the user will need it
var titleBarTemplate = BASE_MVC.wrapTemplate([
@@ -135,20 +135,20 @@ DCEBaseView.prototype.templates = (function(){
//==============================================================================
/** @class Read only view for a DatasetCollectionElement that is also an HDA.
/** @class Read only view for a DatasetCollectionElement that is also an DatasetAssociation
* (a dataset contained in a dataset collection).
*/
var DatasetDCEBaseView = DATASET_LI.DatasetListItemView.extend({
var DatasetDCEListItemView = DATASET_LI.DatasetListItemView.extend({
className : DATASET_LI.DatasetListItemView.prototype.className + " dataset-collection-element",
/** logger used to record this.log messages, commonly set to console */
// comment this out to suppress log output
//logger : console,
/** */
initialize : function( attributes ){
if( attributes.logger ){ this.logger = this.model.logger = attributes.logger; }
this.log( 'DatasetDCEBaseView.initialize:', attributes );
this.log( 'DatasetDCEListItemView.initialize:', attributes );
DATASET_LI.DatasetListItemView.prototype.initialize.call( this, attributes );
},
@@ -156,13 +156,13 @@ var DatasetDCEBaseView = DATASET_LI.DatasetListItemView.extend({
/** String representation */
toString : function(){
var modelString = ( this.model )?( this.model + '' ):( '(no model)' );
return 'DatasetDCEBaseView(' + modelString + ')';
return 'DatasetDCEListItemView(' + modelString + ')';
}
});
// ............................................................................ TEMPLATES
/** underscore templates */
DatasetDCEBaseView.prototype.templates = (function(){
DatasetDCEListItemView.prototype.templates = (function(){
// use the element identifier here and not the dataset name
//TODO:?? can we steal the DCE titlebar?
@@ -180,13 +180,14 @@ DatasetDCEBaseView.prototype.templates = (function(){
});
}());
//==============================================================================
/** @class Read only view for a DatasetCollectionElement that is also a DatasetCollection
* (a nested DC).
*/
var NestedDCDCEBaseView = DCBaseView.extend({
var NestedDCDCEListItemView = DCListItemView.extend({
className : DCBaseView.prototype.className + " dataset-collection-element",
className : DCListItemView.prototype.className + " dataset-collection-element",
/** logger used to record this.log messages, commonly set to console */
// comment this out to suppress log output
@@ -194,7 +195,7 @@ var NestedDCDCEBaseView = DCBaseView.extend({
/** In this override, add the state as a class for use with state-based CSS */
_swapNewRender : function( $newRender ){
DATASET_LI.DatasetListItemView.prototype._swapNewRender.call( this, $newRender );
DCListItemView.prototype._swapNewRender.call( this, $newRender );
//TODO: model currently has no state
var state = this.model.get( 'state' ) || 'ok';
//if( this.model.has( 'state' ) ){
@@ -207,16 +208,16 @@ var NestedDCDCEBaseView = DCBaseView.extend({
/** String representation */
toString : function(){
var modelString = ( this.model )?( this.model + '' ):( '(no model)' );
return 'NestedDCDCEBaseView(' + modelString + ')';
return 'NestedDCDCEListItemView(' + modelString + ')';
}
});
//==============================================================================
return {
DCBaseView : DCBaseView,
DCEBaseView : DCEBaseView,
DatasetDCEBaseView : DatasetDCEBaseView,
NestedDCDCEBaseView : NestedDCDCEBaseView
DCListItemView : DCListItemView,
DCEListItemView : DCEListItemView,
DatasetDCEListItemView : DatasetDCEListItemView,
NestedDCDCEListItemView : NestedDCDCEListItemView
};
});
static/scripts/mvc/collection/collection-model.js
+5 -5
View File
@@ -2,7 +2,7 @@ define([
"mvc/dataset/dataset-model",
"mvc/base-mvc",
"utils/localization"
], function( DATASET, BASE_MVC, _l ){
], function( DATASET_MODEL, BASE_MVC, _l ){
//==============================================================================
/*
Notes:
@@ -118,13 +118,13 @@ var DCECollection = Backbone.Collection.extend( BASE_MVC.LoggableMixin ).extend(
//==============================================================================
/** @class Backbone model for a dataset collection element that is a dataset (HDA).
*/
var DatasetDCE = DATASET.DatasetAssociation.extend( BASE_MVC.mixin( DatasetCollectionElementMixin,
var DatasetDCE = DATASET_MODEL.DatasetAssociation.extend( BASE_MVC.mixin( DatasetCollectionElementMixin,
/** @lends DatasetDCE.prototype */{
/** logger used to record this.log messages, commonly set to console */
//logger : console,
defaults : _.extend( {}, DATASET.DatasetAssociation.prototype.defaults, DatasetCollectionElementMixin.defaults ),
defaults : _.extend( {}, DATASET_MODEL.DatasetAssociation.prototype.defaults, DatasetCollectionElementMixin.defaults ),
// because all objects have constructors (as this hashmap would even if this next line wasn't present)
// the constructor in hcontentMixin won't be attached by BASE_MVC.mixin to this model
@@ -132,7 +132,7 @@ var DatasetDCE = DATASET.DatasetAssociation.extend( BASE_MVC.mixin( DatasetColle
/** call the mixin constructor */
constructor : function( attributes, options ){
this.debug( '\t DatasetDCE.constructor:', attributes, options );
//DATASET.DatasetAssociation.prototype.constructor.call( this, attributes, options );
//DATASET_MODEL.DatasetAssociation.prototype.constructor.call( this, attributes, options );
DatasetCollectionElementMixin.constructor.call( this, attributes, options );
},
@@ -140,7 +140,7 @@ var DatasetDCE = DATASET.DatasetAssociation.extend( BASE_MVC.mixin( DatasetColle
/** set up */
initialize : function( attributes, options ){
this.debug( this + '(DatasetDCE).initialize:', attributes, options );
DATASET.DatasetAssociation.prototype.initialize.call( this, attributes, options );
DATASET_MODEL.DatasetAssociation.prototype.initialize.call( this, attributes, options );
},
/** String representation. */
static/scripts/mvc/collection/collection-panel.js
+35 -32
View File
@@ -1,20 +1,15 @@
define([
"mvc/collection/dataset-collection-base",
"mvc/collection/collection-model",
"mvc/collection/collection-li",
"mvc/base-mvc",
"utils/localization"
], function( DC_BASE, BASE_MVC, _l ){
], function( DC_MODEL, DC_LI, BASE_MVC, _l ){
/* =============================================================================
TODO:
============================================================================= */
// =============================================================================
/** @class non-editable, read-only View/Controller for a dataset collection.
* @name CollectionPanel
*
* @augments Backbone.View
* @borrows LoggableMixin#logger as #logger
* @borrows LoggableMixin#log as #log
* @constructs
*/
var CollectionPanel = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend(
/** @lends CollectionPanel.prototype */{
@@ -29,8 +24,8 @@ var CollectionPanel = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend(
/** (in ms) that jquery effects will use */
fxSpeed : 'fast',
DatasetDCEViewClass : DC_BASE.DatasetDCEBaseView,
NestedDCEViewClass : DC_BASE.NestedDCEBaseView,
DatasetDCEViewClass : DC_LI.DatasetDCEListItemView,
NestedDCDCEViewClass : DC_LI.NestedDCDCEListItemView,
// ......................................................................... SET UP
/** Set up the view, set up storage, bind listeners to HistoryContents events
@@ -44,9 +39,13 @@ var CollectionPanel = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend(
}
this.log( this + '.initialize:', attributes );
this.linkTarget = attributes.linkTarget || '_blank';
this.hasUser = attributes.hasUser;
this.panelStack = [];
this.parentName = attributes.parentName;
//window.collectionPanel = this;
},
/** create any event listeners for the panel
@@ -70,7 +69,7 @@ var CollectionPanel = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend(
},
// ------------------------------------------------------------------------ panel rendering
/** Render urls, historyPanel body, and hdas (if any are shown)
/** Render panel
* @fires: rendered when the panel is attached and fully visible
* @see Backbone.View#render
*/
@@ -122,7 +121,7 @@ var CollectionPanel = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend(
return this;
},
/** render with history data
/** render with collection data
* @returns {jQuery} dom fragment as temporary container to be swapped out later
*/
renderModel : function( ){
@@ -139,7 +138,7 @@ var CollectionPanel = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend(
return $newRender;
},
/** Set up HistoryPanel js/widget behaviours */
/** Set up js/widget behaviours */
_setUpBehaviours : function( $where ){
//TODO: these should be either sub-MVs, or handled by events
$where = $where || this.$el;
@@ -152,16 +151,16 @@ var CollectionPanel = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend(
$container : function(){
return ( this.findContainerFn )?( this.findContainerFn.call( this ) ):( this.$el.parent() );
},
/** where hdaViews are attached */
/** where list content views are attached */
$datasetsList : function( $where ){
return ( $where || this.$el ).find( '.datasets-list' );
},
// ------------------------------------------------------------------------ sub-views
/** Set up/render a view for each HDA to be shown, init with model and listeners.
* HDA views are cached to the map this.hdaViews (using the model.id as key).
* @param {jQuery} $whereTo what dom element to prepend the HDA views to
* @returns the number of visible hda views
/** Set up/render a view for each DCE to be shown, init with model and listeners.
* DCE views are cached to the map this.contentViews (using the model.id as key).
* @param {jQuery} $whereTo what dom element to prepend the DCE views to
* @returns the number of visible DCE views
*/
renderContents : function( $whereTo ){
//this.debug( 'renderContents, elements:', this.model.elements );
@@ -172,7 +171,7 @@ var CollectionPanel = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend(
contentViews = {},
//NOTE: no filtering here
visibleContents = this.model.getVisibleContents();
this.log( 'renderContents, visibleContents:', visibleContents, $whereTo );
//this.debug( 'renderContents, visibleContents:', visibleContents, $whereTo );
this.$datasetsList( $whereTo ).empty();
if( visibleContents && visibleContents.length ){
@@ -192,8 +191,8 @@ var CollectionPanel = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend(
//this.debug( 'content json:', JSON.stringify( content, null, ' ' ) );
var contentView = null,
ContentClass = this._getContentClass( content );
this.debug( 'ContentClass:', ContentClass );
this.debug( 'content:', content );
//this.debug( 'content:', content );
//this.debug( 'ContentClass:', ContentClass );
contentView = new ContentClass({
model : content,
linkTarget : this.linkTarget,
@@ -201,20 +200,20 @@ var CollectionPanel = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend(
hasUser : this.hasUser,
logger : this.logger
});
this.debug( 'contentView:', contentView );
//this.debug( 'contentView:', contentView );
this._setUpContentListeners( contentView );
return contentView;
},
/** */
_getContentClass : function( content ){
this.debug( this + '._getContentClass:', content );
this.debug( 'DCEViewClass:', this.DCEViewClass );
//this.debug( this + '._getContentClass:', content );
//TODO: subclasses use DCEViewClass - but are currently unused - decide
switch( content.get( 'element_type' ) ){
case 'hda':
return this.DCEViewClass;
return this.DatasetDCEViewClass;
case 'dataset_collection':
return this.DCEViewClass;
return this.NestedDCDCEViewClass;
}
throw new TypeError( 'Unknown element type:', content.get( 'element_type' ) );
},
@@ -232,14 +231,16 @@ var CollectionPanel = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend(
/** */
_addCollectionPanel : function( collectionView ){
//TODO: a bit hackish
var currPanel = this,
collectionModel = collectionView.model;
this.debug( 'collection panel (stack), collectionView:', collectionView );
this.debug( 'collection panel (stack), collectionModel:', collectionModel );
//this.debug( 'collection panel (stack), collectionView:', collectionView );
//this.debug( 'collection panel (stack), collectionModel:', collectionModel );
var panel = new PairCollectionPanel({
model : collectionModel,
parentName : this.model.get( 'name' )
parentName : this.model.get( 'name' ),
linkTarget : this.linkTarget
});
currPanel.panelStack.push( panel );
@@ -277,7 +278,7 @@ var CollectionPanel = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend(
'click .navigation .back' : 'close'
},
/** */
/** close/remove this collection panel */
close : function( event ){
this.$el.remove();
this.trigger( 'close' );
@@ -334,7 +335,8 @@ CollectionPanel.templates = CollectionPanel.prototype.templates = (function(){
/** @class non-editable, read-only View/Controller for a dataset collection. */
var ListCollectionPanel = CollectionPanel.extend({
DCEViewClass : DC_BASE.DatasetDCEBaseView,
//TODO: not strictly needed - due to switch in CollectionPanel._getContentClass
DatasetDCEViewClass : DC_LI.DatasetDCEListItemView,
// ........................................................................ misc
/** string rep */
@@ -360,7 +362,8 @@ var PairCollectionPanel = ListCollectionPanel.extend({
/** @class non-editable, read-only View/Controller for a dataset collection. */
var ListOfPairsCollectionPanel = CollectionPanel.extend({
DCEViewClass : DC_BASE.NestedDCDCEBaseView,
//TODO: not strictly needed - due to switch in CollectionPanel._getContentClass
NestedDCDCEViewClass : DC_LI.NestedDCDCEListItemView,
// ........................................................................ misc
/** string rep */
static/scripts/mvc/dataset/editable-dataset-list-element.js → static/scripts/mvc/dataset/dataset-li-edit.js
+5 -11
View File
@@ -1,6 +1,6 @@
define([
"mvc/dataset/states",
"mvc/dataset/dataset-list-element",
"mvc/dataset/dataset-li",
"mvc/tags",
"mvc/annotations",
"mvc/base-mvc",
@@ -9,15 +9,9 @@ define([
//==============================================================================
var _super = DATASET_LI.DatasetListItemView;
/** @class Editing view for DatasetAssociation.
* @name EditableDatasetListItemView
*
* @augments HDABaseView
* @borrows LoggableMixin#logger as #logger
* @borrows LoggableMixin#log as #log
* @constructs
*/
var EditableDatasetListItemView = _super.extend(
/** @lends EditableDatasetListItemView.prototype */{
var DatasetListItemEdit = _super.extend(
/** @lends DatasetListItemEdit.prototype */{
/** logger used to record this.log messages, commonly set to console */
//logger : console,
@@ -285,7 +279,7 @@ var EditableDatasetListItemView = _super.extend(
// ............................................................................ TEMPLATES
/** underscore templates */
EditableDatasetListItemView.prototype.templates = (function(){
DatasetListItemEdit.prototype.templates = (function(){
//TODO: move to require text! plugin
var warnings = _.extend( {}, _super.prototype.templates.warnings, {
@@ -352,6 +346,6 @@ EditableDatasetListItemView.prototype.templates = (function(){
//==============================================================================
return {
EditableDatasetListItemView : EditableDatasetListItemView
DatasetListItemEdit : DatasetListItemEdit
};
});
static/scripts/mvc/dataset/dataset-list-element.js → static/scripts/mvc/dataset/dataset-li.js
-1
View File
@@ -13,7 +13,6 @@ var DatasetListItemView = _super.extend(
/** @lends DatasetListItemView.prototype */{
/** logger used to record this.log messages, commonly set to console */
// comment this out to suppress log output
//logger : console,
className : _super.prototype.className + " dataset",
static/scripts/mvc/dataset/dataset-model.js
+4 -5
View File
@@ -74,11 +74,10 @@ var DatasetAssociation = Backbone.Model.extend( BASE_MVC.LoggableMixin ).extend(
'meta_download' : 'dataset/get_metadata_file?hda_id=' + id + '&metadata_name='
};
//TODO: global
if( galaxy_config && galaxy_config.root ){
_.each( urls, function( key, value ){
urls[ key ] = galaxy_config.root + value;
});
}
var root = ( galaxy_config && galaxy_config.root )?( galaxy_config.root ):( '/' );
_.each( urls, function( value, key ){
urls[ key ] = root + value;
});
this.urls = urls;
return urls;
},
static/scripts/mvc/dataset/hda-edit.js → static/scripts/mvc/history/hda-li-edit.js
+11 -11
View File
@@ -1,15 +1,15 @@
define([
"mvc/dataset/editable-dataset-list-element",
"mvc/dataset/hda-base",
"mvc/dataset/dataset-li-edit",
"mvc/history/hda-li",
"mvc/base-mvc",
"utils/localization"
], function( DATASET_EDIT, HDA_BASE, BASE_MVC, _l ){
], function( DATASET_LI_EDIT, HDA_LI, BASE_MVC, _l ){
//==============================================================================
var _super = DATASET_EDIT.EditableDatasetListItemView;
var _super = DATASET_LI_EDIT.DatasetListItemEdit;
/** @class Editing view for HistoryDatasetAssociation.
*/
var HDAEditView = _super.extend(
/** @lends HDAEditView.prototype */{
var HDAListItemEdit = _super.extend(
/** @lends HDAListItemEdit.prototype */{
/** logger used to record this.log messages, commonly set to console */
//logger : console,
@@ -26,14 +26,14 @@ var HDAEditView = _super.extend(
/** string rep */
toString : function(){
var modelString = ( this.model )?( this.model + '' ):( '(no model)' );
return 'HDAEditView(' + modelString + ')';
return 'HDAListItemEdit(' + modelString + ')';
}
});
// ............................................................................ TEMPLATES
/** underscore templates */
HDAEditView.prototype.templates = (function(){
HDAListItemEdit.prototype.templates = (function(){
//TODO: move to require text! plugin
var warnings = _.extend( {}, _super.prototype.templates.warnings, {
@@ -49,8 +49,8 @@ HDAEditView.prototype.templates = (function(){
});
return _.extend( {}, _super.prototype.templates, {
//NOTE: *steal* the HDABaseView titleBar
titleBar : HDA_BASE.HDABaseView.prototype.templates.titleBar,
//NOTE: *steal* the HDAListItemView titleBar
titleBar : HDA_LI.HDAListItemView.prototype.templates.titleBar,
warnings : warnings
});
}());
@@ -58,6 +58,6 @@ HDAEditView.prototype.templates = (function(){
//==============================================================================
return {
HDAEditView : HDAEditView
HDAListItemEdit : HDAListItemEdit
};
});
static/scripts/mvc/dataset/hda-base.js → static/scripts/mvc/history/hda-li.js
+6 -6
View File
@@ -1,5 +1,5 @@
define([
"mvc/dataset/dataset-list-element",
"mvc/dataset/dataset-li",
"mvc/base-mvc",
"utils/localization"
], function( DATASET_LI, BASE_MVC, _l ){
@@ -11,8 +11,8 @@ var _super = DATASET_LI.DatasetListItemView;
* the primary thing this class does (currently) is override templates
* to render the HID.
*/
var HDABaseView = _super.extend(
/** @lends HDABaseView.prototype */{
var HDAListItemView = _super.extend(
/** @lends HDAListItemView.prototype */{
/** logger used to record this.log messages, commonly set to console */
//logger : console,
@@ -27,13 +27,13 @@ var HDABaseView = _super.extend(
/** String representation */
toString : function(){
var modelString = ( this.model )?( this.model + '' ):( '(no model)' );
return 'HDABaseView(' + modelString + ')';
return 'HDAListItemView(' + modelString + ')';
}
});
// ............................................................................ TEMPLATES
/** underscore templates */
HDABaseView.prototype.templates = (function(){
HDAListItemView.prototype.templates = (function(){
//TODO: move to require text! plugin
var titleBarTemplate = BASE_MVC.wrapTemplate([
@@ -69,6 +69,6 @@ HDABaseView.prototype.templates = (function(){
//==============================================================================
return {
HDABaseView : HDABaseView
HDAListItemView : HDAListItemView
};
});
static/scripts/mvc/dataset/hda-model.js → static/scripts/mvc/history/hda-model.js
+1 -2
View File
@@ -1,6 +1,6 @@
define([
"mvc/dataset/dataset-model",
"mvc/history/history-content-base",
"mvc/history/history-content-model",
"mvc/base-mvc",
"utils/localization"
], function( DATASET, HISTORY_CONTENT, BASE_MVC, _l ){
@@ -13,7 +13,6 @@ var HistoryDatasetAssociation = _super.extend( BASE_MVC.mixin( hcontentMixin,
/** @lends HistoryDatasetAssociation.prototype */{
/** logger used to record this.log messages, commonly set to console */
// comment this out to suppress log output
//logger : console,
// because all objects have constructors (as this hashmap would even if this next line wasn't present)
static/scripts/mvc/collection/hdca-edit.js → static/scripts/mvc/history/hdca-li-edit.js
+6 -6
View File
@@ -1,13 +1,13 @@
define([
"mvc/dataset/states",
"mvc/collection/hdca-base",
"mvc/history/hdca-li",
"utils/localization"
], function( STATES, HDCA_BASE, _l ){
], function( STATES, HDCA_LI, _l ){
//==============================================================================
var _super = HDCA_BASE.HDCABaseView;
var _super = HDCA_LI.HDCAListItemView;
/** @class Editing view for HistoryDatasetCollectionAssociation.
*/
var HDCAEditView = _super.extend({
var HDCAListItemEdit = _super.extend({
/** logger used to record this.log messages, commonly set to console */
//logger : console,
@@ -44,12 +44,12 @@ var HDCAEditView = _super.extend({
/** string rep */
toString : function(){
var modelString = ( this.model )?( this.model + '' ):( '(no model)' );
return 'HDCAEditView(' + modelString + ')';
return 'HDCAListItemEdit(' + modelString + ')';
}
});
//==============================================================================
return {
HDCAEditView : HDCAEditView
HDCAListItemEdit : HDCAListItemEdit
};
});
static/scripts/mvc/collection/hdca-base.js → static/scripts/mvc/history/hdca-li.js
+7 -7
View File
@@ -1,15 +1,15 @@
define([
"mvc/dataset/states",
"mvc/collection/dataset-collection-base",
"mvc/collection/collection-li",
"mvc/base-mvc",
"utils/localization"
], function( STATES, DC_BASE, BASE_MVC, _l ){
], function( STATES, DC_LI, BASE_MVC, _l ){
/* global Backbone */
//==============================================================================
var _super = DC_BASE.DCBaseView;
var _super = DC_LI.DCListItemView;
/** @class Read only view for HistoryDatasetCollectionAssociation (a dataset collection inside a history).
*/
var HDCABaseView = _super.extend({
var HDCAListItemView = _super.extend({
/** logger used to record this.log messages, commonly set to console */
//logger : console,
@@ -33,12 +33,12 @@ var HDCABaseView = _super.extend({
/** String representation */
toString : function(){
var modelString = ( this.model )?( this.model + '' ):( '(no model)' );
return 'HDCABaseView(' + modelString + ')';
return 'HDCAListItemView(' + modelString + ')';
}
});
/** underscore templates */
HDCABaseView.prototype.templates = (function(){
HDCAListItemView.prototype.templates = (function(){
// could steal this from hda-base (or use mixed content)
var titleBarTemplate = BASE_MVC.wrapTemplate([
@@ -62,6 +62,6 @@ HDCABaseView.prototype.templates = (function(){
//==============================================================================
return {
HDCABaseView : HDCABaseView
HDCAListItemView : HDCAListItemView
};
});
static/scripts/mvc/collection/hdca-model.js → static/scripts/mvc/history/hdca-model.js
+2 -2
View File
@@ -1,8 +1,8 @@
define([
"mvc/history/history-content-base",
"mvc/collection/collection-model",
"mvc/history/history-content-model",
"utils/localization"
], function( HISTORY_CONTENT, DC_MODEL, _l ){
], function( DC_MODEL, HISTORY_CONTENT, _l ){
/*==============================================================================
Models for DatasetCollections contained within a history.
static/scripts/mvc/history/history-content-base-view.js
-44
View File
@@ -1,44 +0,0 @@
define([
"mvc/base-mvc",
"utils/localization"
], function( BASE_MVC, _l ){
/* global Backbone */
//==============================================================================
/** @class Read only view for history content views to mixin/extend.
* Functionality here should be history-centric.
*/
var HistoryContentViewMixin = {
//PRECONDITION: expects to be mixed into an BASE_MVC.ExpandableView
initialize : function( attributes ){
}
//TODO: render title with HID
//TODO: render based on visiblility (HDA only)
};
//NOTE: no templates, they're defined at the leaves of the hierarchy
//TODO:?? you sure about that?
//==============================================================================
/** @class Read only view for history content views to extend.
* @name HistoryContentBaseView
*
* @augments Backbone.View
* @borrows LoggableMixin#logger as #logger
* @borrows LoggableMixin#log as #log
* @constructs
*/
var HistoryContentBaseView = BASE_MVC.ExpandableView.extend(
/** @lends HistoryContentBaseView.prototype */HistoryContentViewMixin );
//TODO: not sure base view class is warranted or even wise
//==============================================================================
return {
HistoryContentViewMixin : HistoryContentViewMixin,
HistoryContentBaseView : HistoryContentBaseView
};
});
static/scripts/mvc/history/history-content-base.js → static/scripts/mvc/history/history-content-model.js
View File
static/scripts/mvc/history/history-contents.js
+3 -3
View File
@@ -1,7 +1,7 @@
define([
"mvc/history/history-content-base",
"mvc/dataset/hda-model",
"mvc/collection/hdca-model",
"mvc/history/history-content-model",
"mvc/history/hda-model",
"mvc/history/hdca-model",
"mvc/base-mvc",
"utils/localization"
], function( HISTORY_CONTENT, HDA_MODEL, HDCA_MODEL, BASE_MVC, _l ){
static/scripts/mvc/history/annotated-history-panel.js → static/scripts/mvc/history/history-panel-annotated.js
+6 -5
View File
@@ -1,13 +1,13 @@
define([
"mvc/dataset/hda-base",
"mvc/history/readonly-history-panel",
"mvc/history/history-panel",
"mvc/history/hda-li",
"utils/localization"
], function( HDA_BASE, READONLY_HPANEL, _l ){
], function( HPANEL, HDA_LI, _l ){
/* =============================================================================
TODO:
============================================================================= */
var _super = READONLY_HPANEL.ReadOnlyHistoryPanel;
var _super = HPANEL.ReadOnlyHistoryPanel;
// used in history/display.mako and history/embed.mako
/** @class View/Controller for a tabular view of the history model.
* @name AnnotatedHistoryPanel
@@ -31,8 +31,9 @@ var AnnotatedHistoryPanel = _super.extend(
className : 'annotated-history-panel',
//TODO:?? possibly into own annotated class
/** class to use for constructing the HDA views */
HDAViewClass : HDA_BASE.HDABaseView,
//HDAViewClass : HDA_LI.HDAListItemView,
// ------------------------------------------------------------------------ panel rendering
/** render with history data
static/scripts/mvc/history/current-history-panel.js → static/scripts/mvc/history/history-panel-edit-current.js
+5 -5
View File
@@ -1,10 +1,9 @@
define([
"mvc/dataset/hda-edit",
"mvc/history/history-panel",
"mvc/history/history-panel-edit",
"mvc/collection/collection-panel",
"mvc/base-mvc",
"utils/localization"
], function( HDA_EDIT, HISTORY_PANEL, DC_PANEL, BASE_MVC, _l ){
], function( HPANEL_EDIT, DC_PANEL, BASE_MVC, _l ){
// ============================================================================
/** session storage for history panel preferences (and to maintain state)
*/
@@ -31,7 +30,7 @@ HistoryPanelPrefs.storageKey = function storageKey(){
TODO:
============================================================================= */
var _super = HISTORY_PANEL.HistoryPanel;
var _super = HPANEL_EDIT.HistoryPanel;
// used in root/index.mako
/** @class View/Controller for the user's current history model as used in the history
* panel (current right hand panel) of the analysis page.
@@ -318,7 +317,8 @@ var CurrentHistoryPanel = _super.extend(
var panel = new ( this._getCollectionPanelClass( collectionModel ) )({
model : collectionModel,
HDAViewClass : this.HDAViewClass,
parentName : this.model.get( 'name' )
parentName : this.model.get( 'name' ),
linkTarget : this.linkTarget
});
historyView.panelStack.push( panel );
static/scripts/mvc/history/history-panel-edit.js
+503
View File
@@ -0,0 +1,503 @@
define([
"mvc/history/history-panel",
"mvc/history/history-contents",
"mvc/dataset/states",
"mvc/history/hda-model",
"mvc/history/hda-li-edit",
"mvc/history/hdca-li-edit",
"mvc/tags",
"mvc/annotations",
"utils/localization"
], function(
HPANEL,
HISTORY_CONTENTS,
STATES,
HDA_MODEL,
HDA_LI_EDIT,
HDCA_LI_EDIT,
TAGS,
ANNOTATIONS,
_l
){
/* =============================================================================
TODO:
============================================================================= */
var _super = HPANEL.ReadOnlyHistoryPanel;
// base class for current-history-panel and used as-is in history/view.mako
/** @class Editable View/Controller for the history model.
* @name HistoryPanel
*
* Allows:
* (everything ReadOnlyHistoryPanel allows)
* changing the name
* displaying and editing tags and annotations
* multi-selection and operations on mulitple hdas
*
* @augments Backbone.View
* @borrows LoggableMixin#logger as #logger
* @borrows LoggableMixin#log as #log
* @constructs
*/
var HistoryPanel = _super.extend(
/** @lends HistoryPanel.prototype */{
/** logger used to record this.log messages, commonly set to console */
//logger : console,
/** class to use for constructing the HistoryDatasetAssociation views */
HDAViewClass : HDA_LI_EDIT.HDAListItemEdit,
/** class to use for constructing the HistoryDatasetCollectionAssociation views */
HDCAViewClass : HDCA_LI_EDIT.HDCAListItemEdit,
// ......................................................................... SET UP
/** Set up the view, set up storage, bind listeners to HistoryContents events
* @param {Object} attributes
*/
initialize : function( attributes ){
attributes = attributes || {};
// ---- set up instance vars
/** selected hda ids */
this.selectedHdaIds = [];
/** last selected hda */
this.lastSelectedViewId = null;
/** editor for tags - sub-view */
this.tagsEditor = null;
/** editor for annotations - sub-view */
this.annotationEditor = null;
/** allow user purge of dataset files? */
this.purgeAllowed = attributes.purgeAllowed || false;
// states/modes the panel can be in
/** is the panel currently showing the dataset selection controls? */
this.selecting = attributes.selecting || false;
this.annotationEditorShown = attributes.annotationEditorShown || false;
this.tagsEditorShown = attributes.tagsEditorShown || false;
_super.prototype.initialize.call( this, attributes );
},
// ------------------------------------------------------------------------ panel rendering
/** listening for history and HDA events */
_setUpModelEventHandlers : function(){
_super.prototype._setUpModelEventHandlers.call( this );
this.model.on( 'change:nice_size', this.updateHistoryDiskSize, this );
this.model.contents.on( 'change:deleted', this._handleHdaDeletionChange, this );
this.model.contents.on( 'change:visible', this._handleHdaVisibleChange, this );
this.model.contents.on( 'change:purged', function( hda ){
// hafta get the new nice-size w/o the purged hda
this.model.fetch();
}, this );
},
// ------------------------------------------------------------------------ panel rendering
/** render with history data
* In this override, add tags, annotations, and multi select
* @returns {jQuery} dom fragment as temporary container to be swapped out later
*/
renderModel : function( ){
//TODO: can't call ReadOnlyHistoryPanel?
var $newRender = $( '<div/>' );
$newRender.append( HistoryPanel.templates.historyPanel( this.model.toJSON() ) );
this.$emptyMessage( $newRender ).text( this.emptyMsg );
if( Galaxy && Galaxy.currUser && Galaxy.currUser.id && Galaxy.currUser.id === this.model.get( 'user_id' ) ){
this._renderTags( $newRender );
this._renderAnnotation( $newRender );
}
// search and select available to both anon/logged-in users
$newRender.find( '.history-secondary-actions' ).prepend( this._renderSelectButton() );
$newRender.find( '.history-dataset-actions' ).toggle( this.selecting );
$newRender.find( '.history-secondary-actions' ).prepend( this._renderSearchButton() );
this._setUpBehaviours( $newRender );
// render hda views (if any and any shown (show_deleted/hidden)
this.renderHdas( $newRender );
return $newRender;
},
/** render the tags sub-view controller */
_renderTags : function( $where ){
var panel = this;
this.tagsEditor = new TAGS.TagsEditor({
model : this.model,
el : $where.find( '.history-controls .tags-display' ),
onshowFirstTime : function(){ this.render(); },
// show hide hda view tag editors when this is shown/hidden
onshow : function(){
panel.toggleHDATagEditors( true, panel.fxSpeed );
},
onhide : function(){
panel.toggleHDATagEditors( false, panel.fxSpeed );
},
$activator : faIconButton({
title : _l( 'Edit history tags' ),
classes : 'history-tag-btn',
faIcon : 'fa-tags'
}).appendTo( $where.find( '.history-secondary-actions' ) )
});
},
/** render the annotation sub-view controller */
_renderAnnotation : function( $where ){
var panel = this;
this.annotationEditor = new ANNOTATIONS.AnnotationEditor({
model : this.model,
el : $where.find( '.history-controls .annotation-display' ),
onshowFirstTime : function(){ this.render(); },
// show hide hda view annotation editors when this is shown/hidden
onshow : function(){
panel.toggleHDAAnnotationEditors( true, panel.fxSpeed );
},
onhide : function(){
panel.toggleHDAAnnotationEditors( false, panel.fxSpeed );
},
$activator : faIconButton({
title : _l( 'Edit history annotation' ),
classes : 'history-annotate-btn',
faIcon : 'fa-comment'
}).appendTo( $where.find( '.history-secondary-actions' ) )
});
},
/** button for starting select mode */
_renderSelectButton : function( $where ){
return faIconButton({
title : _l( 'Operations on multiple datasets' ),
classes : 'history-select-btn',
faIcon : 'fa-check-square-o'
});
},
/** Set up HistoryPanel js/widget behaviours
* In this override, add the multi select popup menu and make the name editable
*/
_setUpBehaviours : function( $where ){
$where = $where || this.$el;
_super.prototype._setUpBehaviours.call( this, $where );
// anon users shouldn't have access to any of the following
if( !this.model ){
return;
}
// set up the pupup for actions available when multi selecting
this._setUpDatasetActionsPopup( $where );
// anon users shouldn't have access to any of the following
if( ( !Galaxy.currUser || Galaxy.currUser.isAnonymous() )
|| ( Galaxy.currUser.id !== this.model.get( 'user_id' ) ) ){
return;
}
var panel = this;
$where.find( '.history-name' )
.attr( 'title', _l( 'Click to rename history' ) ).tooltip({ placement: 'bottom' })
.make_text_editable({
on_finish: function( newName ){
var previousName = panel.model.get( 'name' );
if( newName && newName !== previousName ){
panel.$el.find( '.history-name' ).text( newName );
panel.model.save({ name: newName })
.fail( function(){
panel.$el.find( '.history-name' ).text( panel.model.previous( 'name' ) );
});
} else {
panel.$el.find( '.history-name' ).text( previousName );
}
}
});
},
/** return a new popup menu for choosing a multi selection action
* ajax calls made for multiple datasets are queued
*/
_setUpDatasetActionsPopup : function( $where ){
var panel = this,
actions = [
{ html: _l( 'Hide datasets' ), func: function(){
var action = HDA_MODEL.HistoryDatasetAssociation.prototype.hide;
panel.getSelectedHdaCollection().ajaxQueue( action );
}
},
{ html: _l( 'Unhide datasets' ), func: function(){
var action = HDA_MODEL.HistoryDatasetAssociation.prototype.unhide;
panel.getSelectedHdaCollection().ajaxQueue( action );
}
},
{ html: _l( 'Delete datasets' ), func: function(){
var action = HDA_MODEL.HistoryDatasetAssociation.prototype['delete'];
panel.getSelectedHdaCollection().ajaxQueue( action );
}
},
{ html: _l( 'Undelete datasets' ), func: function(){
var action = HDA_MODEL.HistoryDatasetAssociation.prototype.undelete;
panel.getSelectedHdaCollection().ajaxQueue( action );
}
} ];
if( panel.purgeAllowed ){
actions.push({
html: _l( 'Permanently delete datasets' ), func: function(){
if( confirm( _l( 'This will permanently remove the data in your datasets. Are you sure?' ) ) ){
var action = HDA_MODEL.HistoryDatasetAssociation.prototype.purge;
panel.getSelectedHdaCollection().ajaxQueue( action );
}
}
});
}
actions.push( {
html: _l( 'Build Dataset List (Experimental)' ), func: function() {
panel.getSelectedHdaCollection().promoteToHistoryDatasetCollection( panel.model, "list" );
}
});
actions.push( {
// TODO: Only show quick pair if two things selected.
html: _l( 'Build Dataset Pair (Experimental)' ), func: function() {
panel.getSelectedHdaCollection().promoteToHistoryDatasetCollection( panel.model, "paired" );
}
});
actions.push( {
// TODO: Only show quick pair if two things selected.
html: _l( 'Build List of Dataset Pairs (Experimental)' ),
func: _.bind( panel._showPairedCollectionModal, panel )
});
return new PopupMenu( $where.find( '.history-dataset-action-popup-btn' ), actions );
},
_showPairedCollectionModal : function(){
var panel = this,
datasets = panel.getSelectedHdaCollection().toJSON().filter( function( content ){
return content.history_content_type === 'dataset'
&& content.state === STATES.OK;
});
if( datasets.length ){
require([ 'mvc/collection/paired-collection-creator' ], function( creator ){
window.creator = creator.pairedCollectionCreatorModal( datasets, {
historyId : panel.model.id
});
});
} else {
//Galaxy.modal.show({
// body : _l( 'No valid datasets were selected' ),
// buttons : {
// 'Ok': function(){ Galaxy.modal.hide(); }
// }
//});
}
},
// ------------------------------------------------------------------------ hda sub-views
/** If this hda is deleted and we're not showing deleted hdas, remove the view
* @param {HistoryDataAssociation} the hda to check
*/
_handleHdaDeletionChange : function( hda ){
if( hda.get( 'deleted' ) && !this.storage.get( 'show_deleted' ) ){
this.removeHdaView( this.hdaViews[ hda.id ] );
} // otherwise, the hdaView rendering should handle it
},
/** If this hda is hidden and we're not showing hidden hdas, remove the view
* @param {HistoryDataAssociation} the hda to check
*/
_handleHdaVisibleChange : function( hda ){
if( hda.hidden() && !this.storage.get( 'show_hidden' ) ){
this.removeHdaView( this.hdaViews[ hda.id ] );
} // otherwise, the hdaView rendering should handle it
},
_getContentOptions : function( content ){
var options = _super.prototype._getContentOptions.call( this, content );
_.extend( options, {
selectable : this.selecting,
purgeAllowed : this.purgeAllowed,
tagsEditorShown : ( this.tagsEditor && !this.tagsEditor.hidden ),
annotationEditorShown : ( this.annotationEditor && !this.annotationEditor.hidden )
});
return options;
},
/** Set up HistoryPanel listeners for HDAView events. Currently binds:
* HDAView#body-visible, HDAView#body-hidden to store expanded states
* @param {HDAView} hdaView HDAView (base or edit) to listen to
*/
_setUpHdaListeners : function( hdaView ){
var historyView = this;
_super.prototype._setUpHdaListeners.call( this, hdaView );
// maintain a list of hdas that are selected
hdaView.on( 'selected', function( hdaView, event ){
if( !event ){ return; }
//console.debug( 'selected', event );
var selectedIds = [];
//console.debug( historyView.lastSelectedViewId, historyView.hdaViews[ historyView.lastSelectedViewId ] );
// shift will select a range, but not set lastSelectedViewId
if( ( event.shiftKey )
&& ( historyView.lastSelectedViewId && _.has( historyView.hdaViews, historyView.lastSelectedViewId ) ) ){
var lastSelectedView = historyView.hdaViews[ historyView.lastSelectedViewId ];
selectedIds = historyView.selectDatasetRange( hdaView, lastSelectedView )
.map( function( view ){ return view.model.id; });
// only
} else {
var id = hdaView.model.id;
historyView.lastSelectedViewId = id;
//console.debug( 'lastSelectedViewId:', historyView.lastSelectedViewId );
selectedIds = [ id ];
}
//console.debug( 'selectedIds:', selectedIds );
historyView.selectedHdaIds = _.union( historyView.selectedHdaIds, selectedIds );
//TODO: might want to use getSelectedHdaViews instead managing these lists with ops
//console.debug( 'selected', historyView.selectedHdaIds );
});
hdaView.on( 'de-selected', function( hdaView, event ){
//console.debug( 'de-selected', event );
var id = hdaView.model.id;
historyView.selectedHdaIds = _.without( historyView.selectedHdaIds, id );
//console.debug( 'de-selected', historyView.selectedHdaIds );
});
},
/** toggle the visibility of each hdaView's tagsEditor applying all the args sent to this function */
toggleHDATagEditors : function( showOrHide ){
var args = arguments;
_.each( this.hdaViews, function( hdaView ){
if( hdaView.tagsEditor ){
hdaView.tagsEditor.toggle.apply( hdaView.tagsEditor, args );
}
});
},
/** toggle the visibility of each hdaView's annotationEditor applying all the args sent to this function */
toggleHDAAnnotationEditors : function( showOrHide ){
var args = arguments;
_.each( this.hdaViews, function( hdaView ){
if( hdaView.annotationEditor ){
hdaView.annotationEditor.toggle.apply( hdaView.annotationEditor, args );
}
});
},
/** Remove a view from the panel and if the panel is now empty, re-render
* @param {Int} the id of the hdaView to remove
*/
removeHdaView : function( hdaView ){
if( !hdaView ){ return; }
var panel = this;
hdaView.$el.fadeOut( panel.fxSpeed, function(){
hdaView.off();
hdaView.remove();
delete panel.hdaViews[ hdaView.model.id ];
if( _.isEmpty( panel.hdaViews ) ){
panel.trigger( 'empty-history', panel );
panel._renderEmptyMsg();
}
});
},
// ------------------------------------------------------------------------ panel events
/** event map */
events : _.extend( _.clone( _super.prototype.events ), {
'click .history-select-btn' : 'toggleSelectors',
'click .history-select-all-datasets-btn' : 'selectAllDatasets',
'click .history-deselect-all-datasets-btn' : 'deselectAllDatasets'
}),
/** Update the history size display (curr. upper right of panel).
*/
updateHistoryDiskSize : function(){
this.$el.find( '.history-size' ).text( this.model.get( 'nice_size' ) );
},
// ........................................................................ multi-select of hdas
//TODO: to toggle showOrHide pattern
/** show selectors on all visible hdas and associated controls */
showSelectors : function( speed ){
speed = ( speed !== undefined )?( speed ):( this.fxSpeed );
this.selecting = true;
this.$( '.history-dataset-actions' ).slideDown( speed );
_.each( this.hdaViews, function( view ){
view.showSelector();
});
this.selectedHdaIds = [];
this.lastSelectedViewId = null;
},
/** hide selectors on all visible hdas and associated controls */
hideSelectors : function( speed ){
speed = ( speed !== undefined )?( speed ):( this.fxSpeed );
this.selecting = false;
this.$( '.history-dataset-actions' ).slideUp( speed );
_.each( this.hdaViews, function( view ){
view.hideSelector();
});
this.selectedHdaIds = [];
this.lastSelectedViewId = null;
},
/** show or hide selectors on all visible hdas and associated controls */
toggleSelectors : function(){
if( !this.selecting ){
this.showSelectors();
} else {
this.hideSelectors();
}
},
/** select all visible hdas */
selectAllDatasets : function( event ){
_.each( this.hdaViews, function( view ){
view.select( event );
});
},
/** deselect all visible hdas */
deselectAllDatasets : function( event ){
this.lastSelectedViewId = null;
_.each( this.hdaViews, function( view ){
view.deselect( event );
});
},
/** select a range of datasets between A and B */
selectDatasetRange : function( viewA, viewB ){
var range = this.hdaViewRange( viewA, viewB );
_.each( range, function( view ){
view.select();
});
return range;
},
/** return an array of all currently selected hdas */
getSelectedHdaViews : function(){
return _.filter( this.hdaViews, function( v ){
return v.selected;
});
},
/** return an HdaCollection of the models of all currenly selected hdas */
getSelectedHdaCollection : function(){
return new HISTORY_CONTENTS.HistoryContents( _.map( this.getSelectedHdaViews(), function( hdaView ){
return hdaView.model;
}), { historyId: this.model.id });
},
// ........................................................................ misc
/** Return a string rep of the history */
toString : function(){
return 'HistoryPanel(' + (( this.model )?( this.model.get( 'name' )):( '' )) + ')';
}
});
//==============================================================================
return {
HistoryPanel : HistoryPanel
};
});
static/scripts/mvc/history/history-panel.js
+1002 -404
View File
File diff suppressed because it is too large Load Diff
static/scripts/mvc/history/readonly-history-panel.js
-1122
View File
File diff suppressed because it is too large Load Diff
static/scripts/packed/mvc/collection/collection-li-edit.js
+1
View File
@@ -0,0 +1 @@
define(["mvc/collection/collection-li","utils/localization"],function(b,a){var c=b.DCListItemView;var d=c.extend({toString:function(){var e=(this.model)?(this.model+""):("(no model)");return"DCEListItemEdit("+e+")"}});return{DCEListItemEdit:d}});
static/scripts/packed/mvc/collection/collection-li.js
+1
View File
@@ -0,0 +1 @@
define(["mvc/dataset/dataset-li","mvc/base-mvc","utils/localization"],function(h,d,f){var c=d.ListItemView;var a=c.extend({className:c.prototype.className+" dataset-collection",fxSpeed:"fast",initialize:function(i){if(i.logger){this.logger=this.model.logger=i.logger}this.log(this+"(DCListItemView).initialize:",i);c.prototype.initialize.call(this,i)},expand:function(){var i=this;return i._fetchModelDetails().always(function(){i.trigger("expanded",i)})},_renderSubtitle:function(){var i=$('<div class="subtitle"></div>');switch(this.model.get("collection_type")){case"list":return i.text(f("a list of datasets"));case"paired":return i.text(f("a pair of datasets"));case"list:paired":return i.text(f("a list of paired datasets"))}return i},toString:function(){var i=(this.model)?(this.model+""):("(no model)");return"DCListItemView("+i+")"}});a.prototype.templates=(function(){var i=d.wrapTemplate(['<div class="title-bar clear" tabindex="0">','<div class="title">','<span class="name"><%- collection.element_identifier || collection.name %></span>',"</div>",'<div class="subtitle"></div>',"</div>"],"collection");return _.extend({},c.prototype.templates,{titleBar:i})}());var b=c.extend({logger:console,className:c.prototype.className+" dataset-collection-element",fxSpeed:"fast",initialize:function(i){if(i.logger){this.logger=this.model.logger=i.logger}this.log("DCEListItemView.initialize:",i);c.prototype.initialize.call(this,i)},toString:function(){var i=(this.model)?(this.model+""):("(no model)");return"DCEListItemView("+i+")"}});b.prototype.templates=(function(){var i=d.wrapTemplate(['<div class="title-bar clear" tabindex="0">','<div class="title">','<span class="name"><%- element.element_identifier %></span>',"</div>",'<div class="subtitle"></div>',"</div>"],"element");return _.extend({},c.prototype.templates,{titleBar:i})}());var e=h.DatasetListItemView.extend({className:h.DatasetListItemView.prototype.className+" dataset-collection-element",initialize:function(i){if(i.logger){this.logger=this.model.logger=i.logger}this.log("DatasetDCEListItemView.initialize:",i);h.DatasetListItemView.prototype.initialize.call(this,i)},toString:function(){var i=(this.model)?(this.model+""):("(no model)");return"DatasetDCEListItemView("+i+")"}});e.prototype.templates=(function(){var i=d.wrapTemplate(['<div class="title-bar clear" tabindex="0">','<span class="state-icon"></span>','<div class="title">','<span class="name"><%- element.element_identifier %></span>',"</div>","</div>"],"element");return _.extend({},h.DatasetListItemView.prototype.templates,{titleBar:i})}());var g=a.extend({className:a.prototype.className+" dataset-collection-element",_swapNewRender:function(i){a.prototype._swapNewRender.call(this,i);var j=this.model.get("state")||"ok";this.$el.addClass("state-"+j);return this.$el},toString:function(){var i=(this.model)?(this.model+""):("(no model)");return"NestedDCDCEListItemView("+i+")"}});return{DCListItemView:a,DCEListItemView:b,DatasetDCEListItemView:e,NestedDCDCEListItemView:g}});
static/scripts/packed/mvc/collection/collection-model.js
+1 -1
View File
@@ -1 +1 @@
define(["mvc/dataset/dataset-model","mvc/base-mvc","utils/localization"],function(b,o,e){var f={defaults:{model_class:"DatasetCollectionElement",element_identifier:null,element_index:null,element_type:null},_mergeObject:function(q){_.extend(q,q.object);delete q.object;return q},constructor:function(q,r){this.debug("\t DatasetCollectionElement.constructor:",q,r);q=this._mergeObject(q);Backbone.Model.apply(this,arguments)},parse:function(r,s){var q=r;q=this._mergeObject(q);return q}};var p=Backbone.Model.extend(o.LoggableMixin).extend(f);var m=Backbone.Collection.extend(o.LoggableMixin).extend({model:p,initialize:function(q,r){this.debug(this+"(DCECollection).initialize:",q,r);r=r||{}},toString:function(){return(["DatasetCollectionElementCollection(",this.length,")"].join(""))}});var g=b.DatasetAssociation.extend(o.mixin(f,{defaults:_.extend({},b.DatasetAssociation.prototype.defaults,f.defaults),constructor:function(q,r){this.debug("\t DatasetDCE.constructor:",q,r);f.constructor.call(this,q,r)},initialize:function(q,r){this.debug(this+"(DatasetDCE).initialize:",q,r);b.DatasetAssociation.prototype.initialize.call(this,q,r)},toString:function(){var q=this.get("element_identifier");return(["DatasetDCE(",q,")"].join(""))}}));var l=m.extend({model:g,initialize:function(q,r){this.debug(this+"(DatasetDCECollection).initialize:",q,r);m.prototype.initialize.call(this,q,r)},toString:function(){return(["DatasetDCECollection(",this.length,")"].join(""))}});var i=Backbone.Model.extend(o.LoggableMixin).extend(o.SearchableModelMixin).extend({defaults:{collection_type:null,deleted:false},collectionClass:m,initialize:function(r,q){this.debug(this+"(DatasetCollection).initialize:",r,q,this);this.elements=this._createElementsModel();this.on("change:elements",function(){this.log("change:elements");this.elements=this._createElementsModel()})},_createElementsModel:function(){this.debug(this+"._createElementsModel",this.collectionClass,this.get("elements"),this.elements);var q=this.get("elements")||[];this.unset("elements",{silent:true});this.elements=new this.collectionClass(q);return this.elements},toJSON:function(){var q=Backbone.Model.prototype.toJSON.call(this);if(this.elements){q.elements=this.elements.toJSON()}return q},inReadyState:function(){return true},hasDetails:function(){this.debug("hasDetails:",this.elements.length);return this.elements.length!==0},getVisibleContents:function(q){return this.elements},"delete":function(q){if(this.get("deleted")){return jQuery.when()}return this.save({deleted:true},q)},undelete:function(q){if(!this.get("deleted")||this.get("purged")){return jQuery.when()}return this.save({deleted:false},q)},searchAttributes:["name"],toString:function(){var q=[this.get("id"),this.get("name")||this.get("element_identifier")];return"DatasetCollection("+(q.join(","))+")"}});var h=i.extend({collectionClass:l,initialize:function(r,q){this.debug(this+"(ListDatasetCollection).initialize:",r,q);i.prototype.initialize.call(this,r,q)},toString:function(){return(["ListDatasetCollection(",this.get("name"),")"].join(""))}});var d=h.extend({initialize:function(r,q){this.debug(this+"(PairDatasetCollection).initialize:",r,q);h.prototype.initialize.call(this,r,q)},toString:function(){return(["PairDatasetCollection(",this.get("name"),")"].join(""))}});var j=i.extend(o.mixin(f,{constructor:function(q,r){this.debug("\t NestedDCDCE.constructor:",q,r);f.constructor.call(this,q,r)},toString:function(){var q=(this.object)?(""+this.object):(this.get("element_identifier"));return(["NestedDCDCE(",q,")"].join(""))}}));var n=m.extend({model:j,initialize:function(r,q){this.debug(this+"(NestedDCDCECollection).initialize:",r,q);m.prototype.initialize.call(this,r,q)},toString:function(){return(["NestedDCDCECollection(",this.length,")"].join(""))}});var a=d.extend(o.mixin(f,{constructor:function(q,r){this.debug("\t NestedPairDCDCE.constructor:",q,r);f.constructor.call(this,q,r)},toString:function(){var q=(this.object)?(""+this.object):(this.get("element_identifier"));return(["NestedPairDCDCE(",q,")"].join(""))}}));var k=n.extend({model:a,initialize:function(r,q){this.debug(this+"(NestedPairDCDCECollection).initialize:",r,q);n.prototype.initialize.call(this,r,q)},toString:function(){return(["NestedPairDCDCECollection(",this.length,")"].join(""))}});var c=i.extend({collectionClass:k,initialize:function(q,r){this.debug(this+"(ListPairedDatasetCollection).initialize:",q,r);i.prototype.initialize.call(this,q,r)},toString:function(){return(["ListPairedDatasetCollection(",this.get("name"),")"].join(""))}});return{ListDatasetCollection:h,PairDatasetCollection:d,ListPairedDatasetCollection:c}});
define(["mvc/dataset/dataset-model","mvc/base-mvc","utils/localization"],function(l,o,d){var e={defaults:{model_class:"DatasetCollectionElement",element_identifier:null,element_index:null,element_type:null},_mergeObject:function(q){_.extend(q,q.object);delete q.object;return q},constructor:function(q,r){this.debug("\t DatasetCollectionElement.constructor:",q,r);q=this._mergeObject(q);Backbone.Model.apply(this,arguments)},parse:function(r,s){var q=r;q=this._mergeObject(q);return q}};var p=Backbone.Model.extend(o.LoggableMixin).extend(e);var m=Backbone.Collection.extend(o.LoggableMixin).extend({model:p,initialize:function(q,r){this.debug(this+"(DCECollection).initialize:",q,r);r=r||{}},toString:function(){return(["DatasetCollectionElementCollection(",this.length,")"].join(""))}});var f=l.DatasetAssociation.extend(o.mixin(e,{defaults:_.extend({},l.DatasetAssociation.prototype.defaults,e.defaults),constructor:function(q,r){this.debug("\t DatasetDCE.constructor:",q,r);e.constructor.call(this,q,r)},initialize:function(q,r){this.debug(this+"(DatasetDCE).initialize:",q,r);l.DatasetAssociation.prototype.initialize.call(this,q,r)},toString:function(){var q=this.get("element_identifier");return(["DatasetDCE(",q,")"].join(""))}}));var k=m.extend({model:f,initialize:function(q,r){this.debug(this+"(DatasetDCECollection).initialize:",q,r);m.prototype.initialize.call(this,q,r)},toString:function(){return(["DatasetDCECollection(",this.length,")"].join(""))}});var h=Backbone.Model.extend(o.LoggableMixin).extend(o.SearchableModelMixin).extend({defaults:{collection_type:null,deleted:false},collectionClass:m,initialize:function(r,q){this.debug(this+"(DatasetCollection).initialize:",r,q,this);this.elements=this._createElementsModel();this.on("change:elements",function(){this.log("change:elements");this.elements=this._createElementsModel()})},_createElementsModel:function(){this.debug(this+"._createElementsModel",this.collectionClass,this.get("elements"),this.elements);var q=this.get("elements")||[];this.unset("elements",{silent:true});this.elements=new this.collectionClass(q);return this.elements},toJSON:function(){var q=Backbone.Model.prototype.toJSON.call(this);if(this.elements){q.elements=this.elements.toJSON()}return q},inReadyState:function(){return true},hasDetails:function(){this.debug("hasDetails:",this.elements.length);return this.elements.length!==0},getVisibleContents:function(q){return this.elements},"delete":function(q){if(this.get("deleted")){return jQuery.when()}return this.save({deleted:true},q)},undelete:function(q){if(!this.get("deleted")||this.get("purged")){return jQuery.when()}return this.save({deleted:false},q)},searchAttributes:["name"],toString:function(){var q=[this.get("id"),this.get("name")||this.get("element_identifier")];return"DatasetCollection("+(q.join(","))+")"}});var g=h.extend({collectionClass:k,initialize:function(r,q){this.debug(this+"(ListDatasetCollection).initialize:",r,q);h.prototype.initialize.call(this,r,q)},toString:function(){return(["ListDatasetCollection(",this.get("name"),")"].join(""))}});var c=g.extend({initialize:function(r,q){this.debug(this+"(PairDatasetCollection).initialize:",r,q);g.prototype.initialize.call(this,r,q)},toString:function(){return(["PairDatasetCollection(",this.get("name"),")"].join(""))}});var i=h.extend(o.mixin(e,{constructor:function(q,r){this.debug("\t NestedDCDCE.constructor:",q,r);e.constructor.call(this,q,r)},toString:function(){var q=(this.object)?(""+this.object):(this.get("element_identifier"));return(["NestedDCDCE(",q,")"].join(""))}}));var n=m.extend({model:i,initialize:function(r,q){this.debug(this+"(NestedDCDCECollection).initialize:",r,q);m.prototype.initialize.call(this,r,q)},toString:function(){return(["NestedDCDCECollection(",this.length,")"].join(""))}});var a=c.extend(o.mixin(e,{constructor:function(q,r){this.debug("\t NestedPairDCDCE.constructor:",q,r);e.constructor.call(this,q,r)},toString:function(){var q=(this.object)?(""+this.object):(this.get("element_identifier"));return(["NestedPairDCDCE(",q,")"].join(""))}}));var j=n.extend({model:a,initialize:function(r,q){this.debug(this+"(NestedPairDCDCECollection).initialize:",r,q);n.prototype.initialize.call(this,r,q)},toString:function(){return(["NestedPairDCDCECollection(",this.length,")"].join(""))}});var b=h.extend({collectionClass:j,initialize:function(q,r){this.debug(this+"(ListPairedDatasetCollection).initialize:",q,r);h.prototype.initialize.call(this,q,r)},toString:function(){return(["ListPairedDatasetCollection(",this.get("name"),")"].join(""))}});return{ListDatasetCollection:g,PairDatasetCollection:c,ListPairedDatasetCollection:b}});
static/scripts/packed/mvc/collection/collection-panel.js
+1 -1
View File
@@ -1 +1 @@
define(["mvc/collection/dataset-collection-base","mvc/base-mvc","utils/localization"],function(f,a,e){var d=Backbone.View.extend(a.LoggableMixin).extend({tagName:"div",className:"dataset-collection-panel",fxSpeed:"fast",DatasetDCEViewClass:f.DatasetDCEBaseView,NestedDCEViewClass:f.NestedDCEBaseView,initialize:function(h){h=h||{};if(h.logger){this.logger=h.logger}this.log(this+".initialize:",h);this.hasUser=h.hasUser;this.panelStack=[];this.parentName=h.parentName},_setUpListeners:function(){this.on("all",function(h){this.log(this+"",arguments)},this);return this},_setUpModelEventHandlers:function(){return this},render:function(j,k){this.log("render:",j,k);j=(j===undefined)?(this.fxSpeed):(j);var h=this,i;if(!this.model){return this}i=this.renderModel();$(h).queue("fx",[function(l){if(j&&h.$el.is(":visible")){h.$el.fadeOut(j,l)}else{l()}},function(l){h.$el.empty();if(i){h.$el.append(i.children())}l()},function(l){if(j&&!h.$el.is(":visible")){h.$el.fadeIn(j,l)}else{l()}},function(l){if(k){k.call(this)}h.trigger("rendered",this);l()}]);return this},renderModel:function(){var j=this.model.get("collection_type")||this.model.object.get("collection_type"),i=_.extend(this.model.toJSON(),{parentName:this.parentName,type:j}),h=$("<div/>").append(this.templates.panel(i));this._setUpBehaviours(h);this.renderContents(h);return h},_setUpBehaviours:function(h){h=h||this.$el;h.find("[title]").tooltip({placement:"bottom"});return this},$container:function(){return(this.findContainerFn)?(this.findContainerFn.call(this)):(this.$el.parent())},$datasetsList:function(h){return(h||this.$el).find(".datasets-list")},renderContents:function(i){i=i||this.$el;this.warn(this+".renderContents:, model:",this.model);var h=this,k={},j=this.model.getVisibleContents();this.log("renderContents, visibleContents:",j,i);this.$datasetsList(i).empty();if(j&&j.length){j.each(function(m){var n=m.id,l=h._createContentView(m);k[n]=l;h._attachContentView(l.render(),i)})}this.contentViews=k;return this.contentViews},_createContentView:function(j){var i=null,h=this._getContentClass(j);this.debug("ContentClass:",h);this.debug("content:",j);i=new h({model:j,linkTarget:this.linkTarget,hasUser:this.hasUser,logger:this.logger});this.debug("contentView:",i);this._setUpContentListeners(i);return i},_getContentClass:function(h){this.debug(this+"._getContentClass:",h);this.debug("DCEViewClass:",this.DCEViewClass);switch(h.get("element_type")){case"hda":return this.DCEViewClass;case"dataset_collection":return this.DCEViewClass}throw new TypeError("Unknown element type:",h.get("element_type"))},_setUpContentListeners:function(i){var h=this;if(i.model.get("element_type")==="dataset_collection"){i.on("expanded",function(j){h.info("expanded",j);h._addCollectionPanel(j)})}},_addCollectionPanel:function(j){var k=this,h=j.model;this.debug("collection panel (stack), collectionView:",j);this.debug("collection panel (stack), collectionModel:",h);var i=new c({model:h,parentName:this.model.get("name")});k.panelStack.push(i);k.$(".controls").add(".datasets-list").hide();k.$el.append(i.$el);i.on("close",function(){k.render();j.collapse();k.panelStack.pop()});if(!i.model.hasDetails()){var l=i.model.fetch();l.done(function(){i.render()})}else{i.render()}},_attachContentView:function(j,i){i=i||this.$el;var h=this.$datasetsList(i);h.append(j.$el);return this},events:{"click .navigation .back":"close"},close:function(h){this.$el.remove();this.trigger("close")},toString:function(){return"CollectionPanel("+((this.model)?(this.model.get("name")):(""))+")"}});d.templates=d.prototype.templates=(function(){var h=_.template(['<div class="controls">','<div class="navigation">','<a class="back" href="javascript:void(0)">','<span class="fa fa-icon fa-angle-left"></span>',e("Back to "),"<%- collection.parentName %>","</a>","</div>",'<div class="title">','<div class="name"><%- collection.name || collection.element_identifier %></div>','<div class="subtitle">','<% if( collection.type === "list" ){ %>',e("a list of datasets"),'<% } else if( collection.type === "paired" ){ %>',e("a pair of datasets"),'<% } else if( collection.type === "list:paired" ){ %>',e("a list of paired datasets"),"<% } %>","</div>","</div>","</div>",'<div class="datasets-list"></div>'].join(""));return{panel:function(i){return h({_l:e,collection:i})}}}());var b=d.extend({DCEViewClass:f.DatasetDCEBaseView,toString:function(){return"ListCollectionPanel("+((this.model)?(this.model.get("name")):(""))+")"}});var c=b.extend({toString:function(){return"PairCollectionPanel("+((this.model)?(this.model.get("name")):(""))+")"}});var g=d.extend({DCEViewClass:f.NestedDCDCEBaseView,toString:function(){return"ListOfPairsCollectionPanel("+((this.model)?(this.model.get("name")):(""))+")"}});return{CollectionPanel:d,ListCollectionPanel:b,PairCollectionPanel:c,ListOfPairsCollectionPanel:g}});
define(["mvc/collection/collection-model","mvc/collection/collection-li","mvc/base-mvc","utils/localization"],function(h,f,a,e){var d=Backbone.View.extend(a.LoggableMixin).extend({tagName:"div",className:"dataset-collection-panel",fxSpeed:"fast",DatasetDCEViewClass:f.DatasetDCEListItemView,NestedDCDCEViewClass:f.NestedDCDCEListItemView,initialize:function(i){i=i||{};if(i.logger){this.logger=i.logger}this.log(this+".initialize:",i);this.linkTarget=i.linkTarget||"_blank";this.hasUser=i.hasUser;this.panelStack=[];this.parentName=i.parentName;window.collectionPanel=this},_setUpListeners:function(){this.on("all",function(i){this.log(this+"",arguments)},this);return this},_setUpModelEventHandlers:function(){return this},render:function(k,l){this.log("render:",k,l);k=(k===undefined)?(this.fxSpeed):(k);var i=this,j;if(!this.model){return this}j=this.renderModel();$(i).queue("fx",[function(m){if(k&&i.$el.is(":visible")){i.$el.fadeOut(k,m)}else{m()}},function(m){i.$el.empty();if(j){i.$el.append(j.children())}m()},function(m){if(k&&!i.$el.is(":visible")){i.$el.fadeIn(k,m)}else{m()}},function(m){if(l){l.call(this)}i.trigger("rendered",this);m()}]);return this},renderModel:function(){var k=this.model.get("collection_type")||this.model.object.get("collection_type"),j=_.extend(this.model.toJSON(),{parentName:this.parentName,type:k}),i=$("<div/>").append(this.templates.panel(j));this._setUpBehaviours(i);this.renderContents(i);return i},_setUpBehaviours:function(i){i=i||this.$el;i.find("[title]").tooltip({placement:"bottom"});return this},$container:function(){return(this.findContainerFn)?(this.findContainerFn.call(this)):(this.$el.parent())},$datasetsList:function(i){return(i||this.$el).find(".datasets-list")},renderContents:function(j){j=j||this.$el;this.warn(this+".renderContents:, model:",this.model);var i=this,l={},k=this.model.getVisibleContents();this.$datasetsList(j).empty();if(k&&k.length){k.each(function(n){var o=n.id,m=i._createContentView(n);l[o]=m;i._attachContentView(m.render(),j)})}this.contentViews=l;return this.contentViews},_createContentView:function(k){var j=null,i=this._getContentClass(k);j=new i({model:k,linkTarget:this.linkTarget,hasUser:this.hasUser,logger:this.logger});this._setUpContentListeners(j);return j},_getContentClass:function(i){switch(i.get("element_type")){case"hda":return this.DatasetDCEViewClass;case"dataset_collection":return this.NestedDCDCEViewClass}throw new TypeError("Unknown element type:",i.get("element_type"))},_setUpContentListeners:function(j){var i=this;if(j.model.get("element_type")==="dataset_collection"){j.on("expanded",function(k){i.info("expanded",k);i._addCollectionPanel(k)})}},_addCollectionPanel:function(k){var l=this,i=k.model;var j=new c({model:i,parentName:this.model.get("name"),linkTarget:this.linkTarget});l.panelStack.push(j);l.$(".controls").add(".datasets-list").hide();l.$el.append(j.$el);j.on("close",function(){l.render();k.collapse();l.panelStack.pop()});if(!j.model.hasDetails()){var m=j.model.fetch();m.done(function(){j.render()})}else{j.render()}},_attachContentView:function(k,j){j=j||this.$el;var i=this.$datasetsList(j);i.append(k.$el);return this},events:{"click .navigation .back":"close"},close:function(i){this.$el.remove();this.trigger("close")},toString:function(){return"CollectionPanel("+((this.model)?(this.model.get("name")):(""))+")"}});d.templates=d.prototype.templates=(function(){var i=_.template(['<div class="controls">','<div class="navigation">','<a class="back" href="javascript:void(0)">','<span class="fa fa-icon fa-angle-left"></span>',e("Back to "),"<%- collection.parentName %>","</a>","</div>",'<div class="title">','<div class="name"><%- collection.name || collection.element_identifier %></div>','<div class="subtitle">','<% if( collection.type === "list" ){ %>',e("a list of datasets"),'<% } else if( collection.type === "paired" ){ %>',e("a pair of datasets"),'<% } else if( collection.type === "list:paired" ){ %>',e("a list of paired datasets"),"<% } %>","</div>","</div>","</div>",'<div class="datasets-list"></div>'].join(""));return{panel:function(j){return i({_l:e,collection:j})}}}());var b=d.extend({DatasetDCEViewClass:f.DatasetDCEListItemView,toString:function(){return"ListCollectionPanel("+((this.model)?(this.model.get("name")):(""))+")"}});var c=b.extend({toString:function(){return"PairCollectionPanel("+((this.model)?(this.model.get("name")):(""))+")"}});var g=d.extend({NestedDCDCEViewClass:f.NestedDCDCEListItemView,toString:function(){return"ListOfPairsCollectionPanel("+((this.model)?(this.model.get("name")):(""))+")"}});return{CollectionPanel:d,ListCollectionPanel:b,PairCollectionPanel:c,ListOfPairsCollectionPanel:g}});
static/scripts/packed/mvc/collection/dataset-collection-base.js
-1
View File
@@ -1 +0,0 @@
define(["mvc/dataset/dataset-list-element","mvc/base-mvc","utils/localization"],function(g,c,d){var b=c.ListItemView;var a=b.extend({className:b.prototype.className+" dataset-collection",fxSpeed:"fast",initialize:function(i){if(i.logger){this.logger=this.model.logger=i.logger}this.log("DCBaseView.initialize:",i);b.prototype.initialize.call(this,i)},expand:function(){var i=this;return i._fetchModelDetails().always(function(){i.trigger("expanded",i)})},_renderSubtitle:function(){var i=$('<div class="subtitle"></div>');switch(this.model.get("collection_type")){case"list":return i.text(d("a list of datasets"));case"paired":return i.text(d("a pair of datasets"));case"list:paired":return i.text(d("a list of paired datasets"))}return i},toString:function(){var i=(this.model)?(this.model+""):("(no model)");return"DCBaseView("+i+")"}});a.prototype.templates=(function(){var i=c.wrapTemplate(['<div class="title-bar clear" tabindex="0">','<div class="title">','<span class="name"><%- collection.element_identifier || collection.name %></span>',"</div>",'<div class="subtitle"></div>',"</div>"],"collection");return _.extend({},b.prototype.templates,{titleBar:i})}());var f=b.extend({logger:console,className:b.prototype.className+" dataset-collection-element",fxSpeed:"fast",initialize:function(i){if(i.logger){this.logger=this.model.logger=i.logger}this.log("DCEBaseView.initialize:",i);b.prototype.initialize.call(this,i)},toString:function(){var i=(this.model)?(this.model+""):("(no model)");return"DCEBaseView("+i+")"}});f.prototype.templates=(function(){var i=c.wrapTemplate(['<div class="title-bar clear" tabindex="0">','<div class="title">','<span class="name"><%- element.element_identifier %></span>',"</div>",'<div class="subtitle"></div>',"</div>"],"element");return _.extend({},b.prototype.templates,{titleBar:i})}());var h=g.DatasetListItemView.extend({className:g.DatasetListItemView.prototype.className+" dataset-collection-element",initialize:function(i){if(i.logger){this.logger=this.model.logger=i.logger}this.log("DatasetDCEBaseView.initialize:",i);g.DatasetListItemView.prototype.initialize.call(this,i)},toString:function(){var i=(this.model)?(this.model+""):("(no model)");return"DatasetDCEBaseView("+i+")"}});h.prototype.templates=(function(){var i=c.wrapTemplate(['<div class="title-bar clear" tabindex="0">','<span class="state-icon"></span>','<div class="title">','<span class="name"><%- element.element_identifier %></span>',"</div>","</div>"],"element");return _.extend({},g.DatasetListItemView.prototype.templates,{titleBar:i})}());var e=a.extend({className:a.prototype.className+" dataset-collection-element",_swapNewRender:function(i){g.DatasetListItemView.prototype._swapNewRender.call(this,i);var j=this.model.get("state")||"ok";this.$el.addClass("state-"+j);return this.$el},toString:function(){var i=(this.model)?(this.model+""):("(no model)");return"NestedDCDCEBaseView("+i+")"}});return{DCBaseView:a,DCEBaseView:f,DatasetDCEBaseView:h,NestedDCDCEBaseView:e}});
static/scripts/packed/mvc/collection/dataset-collection-edit.js
-1
View File
@@ -1 +0,0 @@
define(["mvc/dataset/states","mvc/collection/dataset-collection-base","utils/localization"],function(b,e,c){var d=e.DCBaseView;var a=d.extend({toString:function(){var f=(this.model)?(this.model+""):("(no model)");return"DCEditView("+f+")"}});return{DCEditView:a}});
static/scripts/packed/mvc/collection/hdca-base.js
-1
View File
@@ -1 +0,0 @@
define(["mvc/dataset/states","mvc/collection/dataset-collection-base","mvc/base-mvc","utils/localization"],function(a,d,b,c){var e=d.DCBaseView;var f=e.extend({className:e.prototype.className+" history-content",_swapNewRender:function(g){e.prototype._swapNewRender.call(this,g);var h=this.model.get("state")||a.OK;this.$el.addClass("state-"+h);return this.$el},toString:function(){var g=(this.model)?(this.model+""):("(no model)");return"HDCABaseView("+g+")"}});f.prototype.templates=(function(){var g=b.wrapTemplate(['<div class="title-bar clear" tabindex="0">','<span class="state-icon"></span>','<div class="title">','<span class="hid"><%- collection.hid %></span> ','<span class="name"><%- collection.name %></span>',"</div>",'<div class="subtitle"></div>',"</div>"],"collection");return _.extend({},e.prototype.templates,{titleBar:g})}());return{HDCABaseView:f}});
static/scripts/packed/mvc/collection/hdca-edit.js
-1
View File
@@ -1 +0,0 @@
define(["mvc/dataset/states","mvc/collection/hdca-base","utils/localization"],function(a,e,b){var d=e.HDCABaseView;var c=d.extend({_renderPrimaryActions:function(){this.log(this+"._renderPrimaryActions");return d.prototype._renderPrimaryActions.call(this).concat([this._renderDeleteButton()])},_renderDeleteButton:function(){var g=this,f=this.model.get("deleted");return faIconButton({title:f?b("Dataset collection is already deleted"):b("Delete"),classes:"delete-btn",faIcon:"fa-times",disabled:f,onclick:function(){g.$el.find(".icon-btn.delete-btn").trigger("mouseout");g.model["delete"]()}})},toString:function(){var f=(this.model)?(this.model+""):("(no model)");return"HDCAEditView("+f+")"}});return{HDCAEditView:c}});
static/scripts/packed/mvc/collection/hdca-model.js
-1
View File
@@ -1 +0,0 @@
define(["mvc/history/history-content-base","mvc/collection/collection-model","utils/localization"],function(i,c,a){var g=i.HistoryContentMixin,h=c.ListDatasetCollection,j=c.PairDatasetCollection,f=c.ListPairedDatasetCollection;var d=h.extend(g).extend({initialize:function(l,k){h.prototype.initialize.call(this,l,k);g.initialize.call(this,l,k)},toString:function(){return(["HistoryListDatasetCollection(",this.get("name"),")"].join(""))}});var e=j.extend(g).extend({initialize:function(l,k){j.prototype.initialize.call(this,l,k);g.initialize.call(this,l,k)},toString:function(){return(["HistoryPairDatasetCollection(",this.get("name"),")"].join(""))}});var b=f.extend(g).extend({initialize:function(l,k){f.prototype.initialize.call(this,l,k);g.initialize.call(this,l,k)},toString:function(){return(["HistoryListPairedDatasetCollection(",this.get("name"),")"].join(""))}});return{HistoryListDatasetCollection:d,HistoryPairDatasetCollection:e,HistoryListPairedDatasetCollection:b}});
static/scripts/packed/mvc/dataset/dataset-li-edit.js
+1
View File
File diff suppressed because one or more lines are too long
static/scripts/packed/mvc/dataset/dataset-list-element.js → static/scripts/packed/mvc/dataset/dataset-li.js
View File
static/scripts/packed/mvc/dataset/dataset-model.js
+1 -1
View File
@@ -1 +1 @@
define(["mvc/dataset/states","mvc/base-mvc","utils/localization"],function(a,b,c){var f=b.SearchableModelMixin;var e=Backbone.Model.extend(b.LoggableMixin).extend(b.mixin(f,{defaults:{state:a.NEW,deleted:false,purged:false,name:"(unnamed dataset)",accessible:true,data_type:"",file_ext:"",file_size:0,meta_files:[],misc_blurb:"",misc_info:"",tags:[]},initialize:function(h,g){this.debug("Dataset.initialize",h,g);if(!this.get("accessible")){this.set("state",a.NOT_VIEWABLE)}this.urls=this._generateUrls();this._setUpListeners()},_generateUrls:function(){var h=this.get("id");if(!h){return{}}var g={purge:"datasets/"+h+"/purge_async",display:"datasets/"+h+"/display/?preview=True",edit:"datasets/"+h+"/edit",download:"datasets/"+h+"/display?to_ext="+this.get("file_ext"),report_error:"dataset/errors?id="+h,rerun:"tool_runner/rerun?id="+h,show_params:"datasets/"+h+"/show_params",visualization:"visualization",meta_download:"dataset/get_metadata_file?hda_id="+h+"&metadata_name="};if(galaxy_config&&galaxy_config.root){_.each(g,function(i,j){g[i]=galaxy_config.root+j})}this.urls=g;return g},_setUpListeners:function(){this.on("change:state",function(h,g){this.log(this+" has changed state:",h,g);if(this.inReadyState()){this.trigger("state:ready",h,g,this.previous("state"))}});this.on("change:id change:file_ext",function(g){this._generateUrls()})},toJSON:function(){var g=Backbone.Model.prototype.toJSON.call(this);return _.extend(g,{urls:this.urls})},isDeletedOrPurged:function(){return(this.get("deleted")||this.get("purged"))},inReadyState:function(){var g=_.contains(a.READY_STATES,this.get("state"));return(this.isDeletedOrPurged()||g)},hasDetails:function(){return _.has(this.attributes,"genome_build")},hasData:function(){return(this.get("file_size")>0)},"delete":function(g){if(this.get("deleted")){return jQuery.when()}return this.save({deleted:true},g)},undelete:function(g){if(!this.get("deleted")||this.get("purged")){return jQuery.when()}return this.save({deleted:false},g)},purge:function d(g){if(this.get("purged")){return jQuery.when()}g=g||{};g.url=this.urls.purge;var h=this,i=jQuery.ajax(g);i.done(function(l,j,k){h.set({deleted:true,purged:true})});i.fail(function(n,j,m){var k=c("Unable to purge dataset");var l=("Removal of datasets by users is not allowed in this Galaxy instance");if(n.responseJSON&&n.responseJSON.error){k=n.responseJSON.error}else{if(n.responseText.indexOf(l)!==-1){k=l}}n.responseText=k;h.trigger("error",h,n,g,c(k),{error:k})});return i},searchAttributes:["name","file_ext","genome_build","misc_blurb","misc_info","annotation","tags"],searchAliases:{title:"name",format:"file_ext",database:"genome_build",blurb:"misc_blurb",description:"misc_blurb",info:"misc_info",tag:"tags"},toString:function(){var g=this.get("id")||"";if(this.get("name")){g='"'+this.get("name")+'",'+g}return"Dataset("+g+")"}}));return{DatasetAssociation:e}});
define(["mvc/dataset/states","mvc/base-mvc","utils/localization"],function(a,b,c){var f=b.SearchableModelMixin;var e=Backbone.Model.extend(b.LoggableMixin).extend(b.mixin(f,{defaults:{state:a.NEW,deleted:false,purged:false,name:"(unnamed dataset)",accessible:true,data_type:"",file_ext:"",file_size:0,meta_files:[],misc_blurb:"",misc_info:"",tags:[]},initialize:function(h,g){this.debug("Dataset.initialize",h,g);if(!this.get("accessible")){this.set("state",a.NOT_VIEWABLE)}this.urls=this._generateUrls();this._setUpListeners()},_generateUrls:function(){var i=this.get("id");if(!i){return{}}var h={purge:"datasets/"+i+"/purge_async",display:"datasets/"+i+"/display/?preview=True",edit:"datasets/"+i+"/edit",download:"datasets/"+i+"/display?to_ext="+this.get("file_ext"),report_error:"dataset/errors?id="+i,rerun:"tool_runner/rerun?id="+i,show_params:"datasets/"+i+"/show_params",visualization:"visualization",meta_download:"dataset/get_metadata_file?hda_id="+i+"&metadata_name="};var g=(galaxy_config&&galaxy_config.root)?(galaxy_config.root):("/");_.each(h,function(k,j){h[j]=g+k});this.urls=h;return h},_setUpListeners:function(){this.on("change:state",function(h,g){this.log(this+" has changed state:",h,g);if(this.inReadyState()){this.trigger("state:ready",h,g,this.previous("state"))}});this.on("change:id change:file_ext",function(g){this._generateUrls()})},toJSON:function(){var g=Backbone.Model.prototype.toJSON.call(this);return _.extend(g,{urls:this.urls})},isDeletedOrPurged:function(){return(this.get("deleted")||this.get("purged"))},inReadyState:function(){var g=_.contains(a.READY_STATES,this.get("state"));return(this.isDeletedOrPurged()||g)},hasDetails:function(){return _.has(this.attributes,"genome_build")},hasData:function(){return(this.get("file_size")>0)},"delete":function(g){if(this.get("deleted")){return jQuery.when()}return this.save({deleted:true},g)},undelete:function(g){if(!this.get("deleted")||this.get("purged")){return jQuery.when()}return this.save({deleted:false},g)},purge:function d(g){if(this.get("purged")){return jQuery.when()}g=g||{};g.url=this.urls.purge;var h=this,i=jQuery.ajax(g);i.done(function(l,j,k){h.set({deleted:true,purged:true})});i.fail(function(n,j,m){var k=c("Unable to purge dataset");var l=("Removal of datasets by users is not allowed in this Galaxy instance");if(n.responseJSON&&n.responseJSON.error){k=n.responseJSON.error}else{if(n.responseText.indexOf(l)!==-1){k=l}}n.responseText=k;h.trigger("error",h,n,g,c(k),{error:k})});return i},searchAttributes:["name","file_ext","genome_build","misc_blurb","misc_info","annotation","tags"],searchAliases:{title:"name",format:"file_ext",database:"genome_build",blurb:"misc_blurb",description:"misc_blurb",info:"misc_info",tag:"tags"},toString:function(){var g=this.get("id")||"";if(this.get("name")){g='"'+this.get("name")+'",'+g}return"Dataset("+g+")"}}));return{DatasetAssociation:e}});
static/scripts/packed/mvc/dataset/editable-dataset-list-element.js
-1
View File
File diff suppressed because one or more lines are too long
static/scripts/packed/mvc/dataset/hda-base.js
-1
View File
@@ -1 +0,0 @@
define(["mvc/dataset/dataset-list-element","mvc/base-mvc","utils/localization"],function(e,b,c){var d=e.DatasetListItemView;var a=d.extend({initialize:function(f,g){d.prototype.initialize.call(this,f,g)},className:d.prototype.className+" history-content",toString:function(){var f=(this.model)?(this.model+""):("(no model)");return"HDABaseView("+f+")"}});a.prototype.templates=(function(){var g=b.wrapTemplate(['<div class="title-bar clear" tabindex="0">','<span class="state-icon"></span>','<div class="title">','<span class="hid"><%- dataset.hid %></span> ','<span class="name"><%- dataset.name %></span>',"</div>","</div>"],"dataset");var f=_.extend({},d.prototype.templates.warnings,{hidden:b.wrapTemplate(["<% if( !dataset.visible ){ %>",'<div class="hidden-msg warningmessagesmall">',c("This dataset has been hidden"),"</div>","<% } %>"],"dataset")});return _.extend({},d.prototype.templates,{titleBar:g,warnings:f})}());return{HDABaseView:a}});
static/scripts/packed/mvc/dataset/hda-edit.js
-1
View File
@@ -1 +0,0 @@
define(["mvc/dataset/editable-dataset-list-element","mvc/dataset/hda-base","mvc/base-mvc","utils/localization"],function(e,a,b,c){var d=e.EditableDatasetListItemView;var f=d.extend({className:d.prototype.className+" history-content",events:_.extend(_.clone(d.prototype.events),{"click .unhide-link":function(g){this.model.unhide();return false}}),toString:function(){var g=(this.model)?(this.model+""):("(no model)");return"HDAEditView("+g+")"}});f.prototype.templates=(function(){var g=_.extend({},d.prototype.templates.warnings,{hidden:b.wrapTemplate(["<% if( !dataset.visible ){ %>",'<div class="hidden-msg warningmessagesmall">',c("This dataset has been hidden"),'<br /><a class="unhide-link" a href="javascript:void(0);">',c("Unhide it"),"</a>","</div>","<% } %>"],"dataset")});return _.extend({},d.prototype.templates,{titleBar:a.HDABaseView.prototype.templates.titleBar,warnings:g})}());return{HDAEditView:f}});
static/scripts/packed/mvc/dataset/hda-model.js
-1
View File
@@ -1 +0,0 @@
define(["mvc/dataset/dataset-model","mvc/history/history-content-base","mvc/base-mvc","utils/localization"],function(e,g,b,c){var f=e.DatasetAssociation,d=g.HistoryContentMixin;var a=f.extend(b.mixin(d,{constructor:function(i,h){d.constructor.call(this,i,h)},defaults:_.extend({},f.prototype.defaults,d.defaults,{model_class:"HistoryDatasetAssociation"}),initialize:function(h,i){f.prototype.initialize.call(this,h,i);d.initialize.call(this,h,i)},toString:function(){var h=this.get("id")||"";if(this.get("name")){h=this.get("hid")+' :"'+this.get("name")+'",'+h}return"HDA("+h+")"}}));return{HistoryDatasetAssociation:a}});
static/scripts/packed/mvc/history/annotated-history-panel.js
-1
View File
@@ -1 +0,0 @@
define(["mvc/dataset/hda-base","mvc/history/readonly-history-panel","utils/localization"],function(a,c,b){var e=c.ReadOnlyHistoryPanel;var d=e.extend({className:"annotated-history-panel",HDAViewClass:a.HDABaseView,renderModel:function(){this.$el.addClass(this.className);var h=e.prototype.renderModel.call(this),f=this.$datasetsList(h),g=$("<table/>").addClass("datasets-list datasets-table");g.append(f.children());f.replaceWith(g);h.find(".history-subtitle").after(this.renderHistoryAnnotation());h.find(".history-search-btn").hide();h.find(".history-controls").after(h.find(".history-search-controls").show());return h},renderHistoryAnnotation:function(){var f=this.model.get("annotation");if(!f){return null}return $(['<div class="history-annotation">',f,"</div>"].join(""))},renderHdas:function(g){g=g||this.$el;var f=e.prototype.renderHdas.call(this,g);this.$datasetsList(g).prepend($("<tr/>").addClass("headers").append([$("<th/>").text(b("Dataset")),$("<th/>").text(b("Annotation"))]));return f},attachContentView:function(i,g){g=g||this.$el;var j=_.find(i.el.classList,function(k){return(/^state\-/).test(k)}),f=i.model.get("annotation")||"",h=$("<tr/>").addClass("dataset-row").append([$("<td/>").addClass("dataset-container").append(i.$el).addClass(j?j.replace("-","-color-"):""),$("<td/>").addClass("additional-info").text(f)]);this.$datasetsList(g).append(h)},events:_.extend(_.clone(e.prototype.events),{"click tr":function(f){$(f.currentTarget).find(".dataset-title-bar").click()},"click .icon-btn":function(f){f.stopPropagation()}}),toString:function(){return"AnnotatedHistoryPanel("+((this.model)?(this.model.get("name")):(""))+")"}});return{AnnotatedHistoryPanel:d}});
static/scripts/packed/mvc/history/current-history-panel.js
-1
View File
File diff suppressed because one or more lines are too long
static/scripts/packed/mvc/history/hda-li-edit.js
+1
View File
@@ -0,0 +1 @@
define(["mvc/dataset/dataset-li-edit","mvc/history/hda-li","mvc/base-mvc","utils/localization"],function(b,d,a,c){var e=b.DatasetListItemEdit;var f=e.extend({className:e.prototype.className+" history-content",events:_.extend(_.clone(e.prototype.events),{"click .unhide-link":function(g){this.model.unhide();return false}}),toString:function(){var g=(this.model)?(this.model+""):("(no model)");return"HDAListItemEdit("+g+")"}});f.prototype.templates=(function(){var g=_.extend({},e.prototype.templates.warnings,{hidden:a.wrapTemplate(["<% if( !dataset.visible ){ %>",'<div class="hidden-msg warningmessagesmall">',c("This dataset has been hidden"),'<br /><a class="unhide-link" a href="javascript:void(0);">',c("Unhide it"),"</a>","</div>","<% } %>"],"dataset")});return _.extend({},e.prototype.templates,{titleBar:d.HDAListItemView.prototype.templates.titleBar,warnings:g})}());return{HDAListItemEdit:f}});
static/scripts/packed/mvc/history/hda-li.js
+1
View File
@@ -0,0 +1 @@
define(["mvc/dataset/dataset-li","mvc/base-mvc","utils/localization"],function(e,a,c){var d=e.DatasetListItemView;var b=d.extend({initialize:function(f,g){d.prototype.initialize.call(this,f,g)},className:d.prototype.className+" history-content",toString:function(){var f=(this.model)?(this.model+""):("(no model)");return"HDAListItemView("+f+")"}});b.prototype.templates=(function(){var g=a.wrapTemplate(['<div class="title-bar clear" tabindex="0">','<span class="state-icon"></span>','<div class="title">','<span class="hid"><%- dataset.hid %></span> ','<span class="name"><%- dataset.name %></span>',"</div>","</div>"],"dataset");var f=_.extend({},d.prototype.templates.warnings,{hidden:a.wrapTemplate(["<% if( !dataset.visible ){ %>",'<div class="hidden-msg warningmessagesmall">',c("This dataset has been hidden"),"</div>","<% } %>"],"dataset")});return _.extend({},d.prototype.templates,{titleBar:g,warnings:f})}());return{HDAListItemView:b}});
static/scripts/packed/mvc/history/hda-model.js
+1
View File
@@ -0,0 +1 @@
define(["mvc/dataset/dataset-model","mvc/history/history-content-model","mvc/base-mvc","utils/localization"],function(e,g,b,c){var f=e.DatasetAssociation,d=g.HistoryContentMixin;var a=f.extend(b.mixin(d,{constructor:function(i,h){d.constructor.call(this,i,h)},defaults:_.extend({},f.prototype.defaults,d.defaults,{model_class:"HistoryDatasetAssociation"}),initialize:function(h,i){f.prototype.initialize.call(this,h,i);d.initialize.call(this,h,i)},toString:function(){var h=this.get("id")||"";if(this.get("name")){h=this.get("hid")+' :"'+this.get("name")+'",'+h}return"HDA("+h+")"}}));return{HistoryDatasetAssociation:a}});
static/scripts/packed/mvc/history/hdca-li-edit.js
+1
View File
@@ -0,0 +1 @@
define(["mvc/dataset/states","mvc/history/hdca-li","utils/localization"],function(a,e,b){var c=e.HDCAListItemView;var d=c.extend({_renderPrimaryActions:function(){this.log(this+"._renderPrimaryActions");return c.prototype._renderPrimaryActions.call(this).concat([this._renderDeleteButton()])},_renderDeleteButton:function(){var g=this,f=this.model.get("deleted");return faIconButton({title:f?b("Dataset collection is already deleted"):b("Delete"),classes:"delete-btn",faIcon:"fa-times",disabled:f,onclick:function(){g.$el.find(".icon-btn.delete-btn").trigger("mouseout");g.model["delete"]()}})},toString:function(){var f=(this.model)?(this.model+""):("(no model)");return"HDCAListItemEdit("+f+")"}});return{HDCAListItemEdit:d}});
static/scripts/packed/mvc/history/hdca-li.js
+1
View File
@@ -0,0 +1 @@
define(["mvc/dataset/states","mvc/collection/collection-li","mvc/base-mvc","utils/localization"],function(a,e,c,d){var f=e.DCListItemView;var b=f.extend({className:f.prototype.className+" history-content",_swapNewRender:function(g){f.prototype._swapNewRender.call(this,g);var h=this.model.get("state")||a.OK;this.$el.addClass("state-"+h);return this.$el},toString:function(){var g=(this.model)?(this.model+""):("(no model)");return"HDCAListItemView("+g+")"}});b.prototype.templates=(function(){var g=c.wrapTemplate(['<div class="title-bar clear" tabindex="0">','<span class="state-icon"></span>','<div class="title">','<span class="hid"><%- collection.hid %></span> ','<span class="name"><%- collection.name %></span>',"</div>",'<div class="subtitle"></div>',"</div>"],"collection");return _.extend({},f.prototype.templates,{titleBar:g})}());return{HDCAListItemView:b}});
static/scripts/packed/mvc/history/hdca-model.js
+1
View File
@@ -0,0 +1 @@
define(["mvc/collection/collection-model","mvc/history/history-content-model","utils/localization"],function(c,i,a){var g=i.HistoryContentMixin,h=c.ListDatasetCollection,j=c.PairDatasetCollection,f=c.ListPairedDatasetCollection;var d=h.extend(g).extend({initialize:function(l,k){h.prototype.initialize.call(this,l,k);g.initialize.call(this,l,k)},toString:function(){return(["HistoryListDatasetCollection(",this.get("name"),")"].join(""))}});var e=j.extend(g).extend({initialize:function(l,k){j.prototype.initialize.call(this,l,k);g.initialize.call(this,l,k)},toString:function(){return(["HistoryPairDatasetCollection(",this.get("name"),")"].join(""))}});var b=f.extend(g).extend({initialize:function(l,k){f.prototype.initialize.call(this,l,k);g.initialize.call(this,l,k)},toString:function(){return(["HistoryListPairedDatasetCollection(",this.get("name"),")"].join(""))}});return{HistoryListDatasetCollection:d,HistoryPairDatasetCollection:e,HistoryListPairedDatasetCollection:b}});
static/scripts/packed/mvc/history/history-content-base-view.js
-1
View File
@@ -1 +0,0 @@
define(["mvc/base-mvc","utils/localization"],function(a,b){var d={initialize:function(e){}};var c=a.ExpandableView.extend(d);return{HistoryContentViewMixin:d,HistoryContentBaseView:c}});
static/scripts/packed/mvc/history/history-content-base.js → static/scripts/packed/mvc/history/history-content-model.js
View File
static/scripts/packed/mvc/history/history-contents.js
+1 -1
View File
@@ -1 +1 @@
define(["mvc/history/history-content-base","mvc/dataset/hda-model","mvc/collection/hdca-model","mvc/base-mvc","utils/localization"],function(g,e,b,a,c){var f=Backbone.Collection.extend(a.LoggableMixin).extend({model:function(i,h){if(i.history_content_type==="dataset"){return new e.HistoryDatasetAssociation(i,h)}else{if(i.history_content_type==="dataset_collection"){switch(i.collection_type){case"list":return new b.HistoryListDatasetCollection(i,h);case"paired":return new b.HistoryPairDatasetCollection(i,h);case"list:paired":return new b.HistoryListPairedDatasetCollection(i,h)}throw new TypeError("Unknown collection_type: "+i.collection_type)}}throw new TypeError("Unknown history_content_type: "+i.history_content_type)},initialize:function(i,h){h=h||{};this.historyId=h.historyId;this.on("all",function(){this.debug(this+".event:",arguments)})},urlRoot:galaxy_config.root+"api/histories",url:function(){return this.urlRoot+"/"+this.historyId+"/contents"},ids:function(){return this.map(function(h){return h.get("id")})},notReady:function(){return this.filter(function(h){return !h.inReadyState()})},running:function(){var h=[];this.each(function(j){var i=!j.inReadyState();if(i){h.push(j.get("id"))}});return h},getByHid:function(h){return _.first(this.filter(function(i){return i.get("hid")===h}))},getVisible:function(h,k,j){j=j||[];this.debug("checking isVisible");var i=new f(this.filter(function(l){return l.isVisible(h,k)}));_.each(j,function(l){if(!_.isFunction(l)){return}i=new f(i.filter(l))});return i},haveDetails:function(){return this.all(function(h){return h.hasDetails()})},fetchAllDetails:function(i){i=i||{};var h={details:"all"};i.data=(i.data)?(_.extend(i.data,h)):(h);return this.fetch(i)},ajaxQueue:function(k,j){var i=jQuery.Deferred(),h=this.length,m=[];if(!h){i.resolve([]);return i}var l=this.chain().reverse().map(function(o,n){return function(){var p=k.call(o,j);p.done(function(q){i.notify({curr:n,total:h,response:q,model:o})});p.always(function(q){m.push(q);if(l.length){l.shift()()}else{i.resolve(m)}})}}).value();l.shift()();return i},matches:function(h){return this.filter(function(i){return i.matches(h)})},set:function(j,h){var i=this;j=_.map(j,function(m){var l=m.attributes||m,n=g.typeIdStr(l.history_content_type,l.id),o=i.get(n);if(!o){return m}var k=o.toJSON();_.extend(k,m);return k});Backbone.Collection.prototype.set.call(this,j,h)},promoteToHistoryDatasetCollection:function d(m,k,i){i=i||{};i.url=this.url();i.type="POST";var o=k;var l=[],h=null;if(k==="list"){this.chain().each(function(r){var p=r.attributes.name;var s=r.get("id");var q=r.attributes.history_content_type;if(q==="dataset"){if(o!=="list"){this.log("Invalid collection type")}l.push({name:p,src:"hda",id:s})}else{if(o==="list"){o="list:"+r.attributes.collection_type}else{if(o!=="list:"+r.attributes.collection_type){this.log("Invalid collection type")}}l.push({name:p,src:"hdca",id:s})}});h="New Dataset List"}else{if(k==="paired"){var j=this.ids();if(j.length!==2){}l.push({name:"forward",src:"hda",id:j[0]});l.push({name:"reverse",src:"hda",id:j[1]});h="New Dataset Pair"}}i.data={type:"dataset_collection",name:h,collection_type:o,element_identifiers:JSON.stringify(l)};var n=jQuery.ajax(i);n.done(function(r,p,q){m.refresh()});n.fail(function(r,p,q){if(r.responseJSON&&r.responseJSON.error){error=r.responseJSON.error}else{error=r.responseJSON}r.responseText=error});return n},print:function(){var h=this;h.each(function(i){h.debug(i);if(i.elements){h.debug("\t elements:",i.elements)}})},toString:function(){return(["HistoryContents(",[this.historyId,this.length].join(),")"].join(""))}});return{HistoryContents:f}});
define(["mvc/history/history-content-model","mvc/history/hda-model","mvc/history/hdca-model","mvc/base-mvc","utils/localization"],function(g,e,b,a,c){var f=Backbone.Collection.extend(a.LoggableMixin).extend({model:function(i,h){if(i.history_content_type==="dataset"){return new e.HistoryDatasetAssociation(i,h)}else{if(i.history_content_type==="dataset_collection"){switch(i.collection_type){case"list":return new b.HistoryListDatasetCollection(i,h);case"paired":return new b.HistoryPairDatasetCollection(i,h);case"list:paired":return new b.HistoryListPairedDatasetCollection(i,h)}throw new TypeError("Unknown collection_type: "+i.collection_type)}}throw new TypeError("Unknown history_content_type: "+i.history_content_type)},initialize:function(i,h){h=h||{};this.historyId=h.historyId;this.on("all",function(){this.debug(this+".event:",arguments)})},urlRoot:galaxy_config.root+"api/histories",url:function(){return this.urlRoot+"/"+this.historyId+"/contents"},ids:function(){return this.map(function(h){return h.get("id")})},notReady:function(){return this.filter(function(h){return !h.inReadyState()})},running:function(){var h=[];this.each(function(j){var i=!j.inReadyState();if(i){h.push(j.get("id"))}});return h},getByHid:function(h){return _.first(this.filter(function(i){return i.get("hid")===h}))},getVisible:function(h,k,j){j=j||[];this.debug("checking isVisible");var i=new f(this.filter(function(l){return l.isVisible(h,k)}));_.each(j,function(l){if(!_.isFunction(l)){return}i=new f(i.filter(l))});return i},haveDetails:function(){return this.all(function(h){return h.hasDetails()})},fetchAllDetails:function(i){i=i||{};var h={details:"all"};i.data=(i.data)?(_.extend(i.data,h)):(h);return this.fetch(i)},ajaxQueue:function(k,j){var i=jQuery.Deferred(),h=this.length,m=[];if(!h){i.resolve([]);return i}var l=this.chain().reverse().map(function(o,n){return function(){var p=k.call(o,j);p.done(function(q){i.notify({curr:n,total:h,response:q,model:o})});p.always(function(q){m.push(q);if(l.length){l.shift()()}else{i.resolve(m)}})}}).value();l.shift()();return i},matches:function(h){return this.filter(function(i){return i.matches(h)})},set:function(j,h){var i=this;j=_.map(j,function(m){var l=m.attributes||m,n=g.typeIdStr(l.history_content_type,l.id),o=i.get(n);if(!o){return m}var k=o.toJSON();_.extend(k,m);return k});Backbone.Collection.prototype.set.call(this,j,h)},promoteToHistoryDatasetCollection:function d(m,k,i){i=i||{};i.url=this.url();i.type="POST";var o=k;var l=[],h=null;if(k==="list"){this.chain().each(function(r){var p=r.attributes.name;var s=r.get("id");var q=r.attributes.history_content_type;if(q==="dataset"){if(o!=="list"){this.log("Invalid collection type")}l.push({name:p,src:"hda",id:s})}else{if(o==="list"){o="list:"+r.attributes.collection_type}else{if(o!=="list:"+r.attributes.collection_type){this.log("Invalid collection type")}}l.push({name:p,src:"hdca",id:s})}});h="New Dataset List"}else{if(k==="paired"){var j=this.ids();if(j.length!==2){}l.push({name:"forward",src:"hda",id:j[0]});l.push({name:"reverse",src:"hda",id:j[1]});h="New Dataset Pair"}}i.data={type:"dataset_collection",name:h,collection_type:o,element_identifiers:JSON.stringify(l)};var n=jQuery.ajax(i);n.done(function(r,p,q){m.refresh()});n.fail(function(r,p,q){if(r.responseJSON&&r.responseJSON.error){error=r.responseJSON.error}else{error=r.responseJSON}r.responseText=error});return n},print:function(){var h=this;h.each(function(i){h.debug(i);if(i.elements){h.debug("\t elements:",i.elements)}})},toString:function(){return(["HistoryContents(",[this.historyId,this.length].join(),")"].join(""))}});return{HistoryContents:f}});
static/scripts/packed/mvc/history/history-panel-annotated.js
+1
View File
@@ -0,0 +1 @@
define(["mvc/history/history-panel","mvc/history/hda-li","utils/localization"],function(e,b,a){var d=e.ReadOnlyHistoryPanel;var c=d.extend({className:"annotated-history-panel",HDAViewClass:b.HDAReadonlyListItemView,renderModel:function(){this.$el.addClass(this.className);var h=d.prototype.renderModel.call(this),f=this.$datasetsList(h),g=$("<table/>").addClass("datasets-list datasets-table");g.append(f.children());f.replaceWith(g);h.find(".history-subtitle").after(this.renderHistoryAnnotation());h.find(".history-search-btn").hide();h.find(".history-controls").after(h.find(".history-search-controls").show());return h},renderHistoryAnnotation:function(){var f=this.model.get("annotation");if(!f){return null}return $(['<div class="history-annotation">',f,"</div>"].join(""))},renderHdas:function(g){g=g||this.$el;var f=d.prototype.renderHdas.call(this,g);this.$datasetsList(g).prepend($("<tr/>").addClass("headers").append([$("<th/>").text(a("Dataset")),$("<th/>").text(a("Annotation"))]));return f},attachContentView:function(i,g){g=g||this.$el;var j=_.find(i.el.classList,function(k){return(/^state\-/).test(k)}),f=i.model.get("annotation")||"",h=$("<tr/>").addClass("dataset-row").append([$("<td/>").addClass("dataset-container").append(i.$el).addClass(j?j.replace("-","-color-"):""),$("<td/>").addClass("additional-info").text(f)]);this.$datasetsList(g).append(h)},events:_.extend(_.clone(d.prototype.events),{"click tr":function(f){$(f.currentTarget).find(".dataset-title-bar").click()},"click .icon-btn":function(f){f.stopPropagation()}}),toString:function(){return"AnnotatedHistoryPanel("+((this.model)?(this.model.get("name")):(""))+")"}});return{AnnotatedHistoryPanel:c}});
static/scripts/packed/mvc/history/history-panel-edit-current.js
+1
View File
File diff suppressed because one or more lines are too long
static/scripts/packed/mvc/history/history-panel-edit.js
+1
View File
File diff suppressed because one or more lines are too long
static/scripts/packed/mvc/history/history-panel.js
+1 -1
View File
File diff suppressed because one or more lines are too long
static/scripts/packed/mvc/history/readonly-history-panel.js
-1
View File
File diff suppressed because one or more lines are too long
templates/webapps/galaxy/history/display.mako
+1 -1
View File
@@ -53,7 +53,7 @@
require.config({
baseUrl : "${h.url_for( '/static/scripts' )}"
})([ 'mvc/history/annotated-history-panel' ], function( panelMod ){
})([ 'mvc/history/history-panel-annotated' ], function( panelMod ){
// history module is already in the dpn chain from the panel. We can re-scope it here.
var historyModel = require( 'mvc/history/history-model' ),
history = new historyModel.History( historyJSON, hdaJSON, {
templates/webapps/galaxy/history/display_structured.mako
+3 -4
View File
@@ -143,12 +143,11 @@
## load edit views for each of the hdas
<script type="text/javascript">
define( 'display-structured', function(){
require([ 'mvc/dataset/hda-edit' ], function( hdaEdit ){
var hdaModel = require( 'mvc/dataset/hda-model' ),
hdaJSON = ${ h.to_json_string( hda_dicts, indent=( 2 if trans.debug else 0 ) ) };
require([ 'mvc/history/hda-li-edit', 'mvc/history/hda-model' ], function( hdaEdit, hdaModel ){
var hdaJSON = ${ h.to_json_string( hda_dicts, indent=( 2 if trans.debug else 0 ) ) };
window.hdas = hdaJSON.map( function( hda ){
return new hdaEdit.HDAEditView({
return new hdaEdit.HDAListItemEdit({
model : new hdaModel.HistoryDatasetAssociation( hda ),
el : $( '#hda-' + hda.id ),
linkTarget : '_self',
templates/webapps/galaxy/history/embed.mako
+1 -1
View File
@@ -50,7 +50,7 @@
require.config({
baseUrl : "${h.url_for( '/static/scripts' )}"
});
require([ 'mvc/history/annotated-history-panel' ], function( panelMod ){
require([ 'mvc/history/history-panel-annotated' ], function( panelMod ){
function toggleExpanded( ev ){
var $embeddedHistory = $( thisScript ).prev();
templates/webapps/galaxy/history/view.mako
+3 -2
View File
@@ -167,8 +167,9 @@ ${parent.javascripts()}
historyJSON = ${h.to_json_string( history )},
hdaJSON = ${h.to_json_string( hdas )};
panelToUse = ( userIsOwner )?
({ location: 'mvc/history/history-panel', className: 'HistoryPanel' }):
({ location: 'mvc/history/readonly-history-panel', className: 'ReadOnlyHistoryPanel' });
//TODO: change class names
({ location: 'mvc/history/history-panel-edit', className: 'HistoryPanel' }):
({ location: 'mvc/history/history-panel', className: 'ReadOnlyHistoryPanel' });
require.config({
baseUrl : "${h.url_for( '/static/scripts' )}"
templates/webapps/galaxy/root/history.mako
+1 -1
View File
@@ -20,7 +20,7 @@ $(function(){
<script type="text/javascript">
define( 'app', function(){
require([
'mvc/history/current-history-panel'
'mvc/history/history-panel-edit-current'
], function( historyPanel ){
$(function(){
// history module is already in the dpn chain from the panel. We can re-scope it here.
templates/webapps/galaxy/root/index.mako
+1 -1
View File
@@ -208,7 +208,7 @@
<div id="current-history-panel" class="history-panel"></div>
## Don't bootstrap data here - confuses the browser history: load via API
<script type="text/javascript">
require([ "mvc/history/current-history-panel" ], function( historyPanel ){
require([ "mvc/history/history-panel-edit-current" ], function( historyPanel ){
$(function(){
var currPanel = new historyPanel.CurrentHistoryPanel({
el : $( "#current-history-panel" ),