diff --git a/client/galaxy/scripts/mvc/collection/list-collection-creator.js b/client/galaxy/scripts/mvc/collection/list-collection-creator.js
index af2b795223c..48f849bb83c 100644
--- a/client/galaxy/scripts/mvc/collection/list-collection-creator.js
+++ b/client/galaxy/scripts/mvc/collection/list-collection-creator.js
@@ -1,52 +1,1055 @@
+
 define([
+    "mvc/history/hdca-model",
     "mvc/dataset/states",
-    "mvc/ui/error-modal",
-    "utils/localization"
-], function( STATES, errorModal, _l ){
+    "mvc/base-mvc",
+    "mvc/ui/ui-modal",
+    "utils/natural-sort",
+    "utils/localization",
+    "ui/hoverhighlight"
+], function( HDCA, STATES, BASE_MVC, UI_MODAL, naturalSort, _l ){
 /*==============================================================================
+TODO:
+    use proper Element model and not just json
+    straighten out createFn, collection.createHDCA
+    possibly stop using modals for this
+    It would be neat to do a drag and drop
 
 ==============================================================================*/
-function validElements( collection ){
-    var elements = collection.toJSON().filter( function( content ){
-        return content.history_content_type === 'dataset'
-            && content.state === STATES.OK;
-    });
-    return elements;
-}
+/** A view for both DatasetDCEs and NestedDCDCEs
+ *  (things that implement collection-model:DatasetCollectionElementMixin)
+ */
+var DatasetCollectionElementView = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend({
+//TODO: use proper class (DatasetDCE or NestedDCDCE (or the union of both))
+    tagName     : 'li',
+    className   : 'collection-element',
 
-var noValidElementsMessage = 'No valid datasets were selected';
+    initialize : function( attributes ){
+        this.element = attributes.element || {};
+        this.selected = attributes.selected || false;
+    },
 
-function noValidElementsErrorModal(){
-    errorModal(
-        'Use the checkboxes at the left of the dataset names to select them. ' +
-        'Selected datasets should be error-free and should have completed running.',
-        noValidElementsMessage
-    );
-}
+    render : function(){
+        this.$el
+            .attr( 'data-element-id', this.element.id )
+            .attr( 'draggable', true )
+            .html( this.template({ element: this.element }) );
+        if( this.selected ){
+            this.$el.addClass( 'selected' );
+        }
+        return this;
+    },
 
-function createListHDCA( collection ){
-    var name = 'New Dataset List',
-        elementIdentifiers = validElements( collection ).map( function( element ){
-            // TODO: Handle duplicate names.
-            return {
-                id      : element.id,
-                name    : element.name,
-                //TODO: this allows for list:list even if the filter above does not - reconcile
-                src     : ( element.history_content_type === 'dataset'? 'hda' : 'hdca' )
+    //TODO: lots of unused space in the element - possibly load details and display them horiz.
+    template : _.template([
+        '<a class="name" title="', _l( 'Click to rename' ), '" href="javascript:void(0)">',
+            '<%= element.name %>',
+        '</a>',
+        '<button class="discard btn btn-sm" title="', _l( 'Remove this dataset from the list' ), '">',
+            _l( 'Discard' ),
+        '</button>',
+    ].join('')),
+
+    /** select this element and pub */
+    select : function( toggle ){
+        this.$el.toggleClass( 'selected', toggle );
+        this.trigger( 'select', {
+            source   : this,
+            selected : this.$el.hasClass( 'selected' )
+        });
+    },
+
+    /** animate the removal of this element and pub */
+    discard : function(){
+        var view = this,
+            parentWidth = this.$el.parent().width();
+        this.$el.animate({ 'margin-right' : parentWidth }, 'fast', function(){
+            view.trigger( 'discard', {
+                source : view
+            });
+            view.destroy();
+        });
+    },
+
+    /** remove the DOM and any listeners */
+    destroy : function(){
+        this.off();
+        this.$el.remove();
+    },
+
+    events : {
+        'click'         : '_click',
+        'click .name'   : '_clickName',
+        'click .discard': '_clickDiscard',
+
+        'dragstart'     : '_dragstart',
+        'dragend'       : '_dragend',
+        'dragover'      : '_sendToParent',
+        'drop'          : '_sendToParent'
+    },
+
+    /** select when the li is clicked */
+    _click : function( ev ){
+        ev.stopPropagation();
+        this.select( ev );
+    },
+
+    /** rename a pair when the name is clicked */
+    _clickName : function( ev ){
+        ev.stopPropagation();
+        ev.preventDefault();
+        var promptString = [ _l( 'Enter a new name for the element' ), ':\n(',
+                             _l( 'Note that changing the name here will not rename the dataset' ), ')' ].join( '' ),
+            response = prompt( _l( 'Enter a new name for the element' ) + ':', this.element.name );
+        if( response ){
+            this.element.name = response;
+            this.render();
+        }
+        //TODO: cancelling with ESC leads to closure of the creator...
+    },
+
+    /** discard when the discard button is clicked */
+    _clickDiscard : function( ev ){
+        ev.stopPropagation();
+        this.discard();
+    },
+
+    /** dragging pairs for re-ordering */
+    _dragstart : function( ev ){
+        if( ev.originalEvent ){ ev = ev.originalEvent; }
+        ev.dataTransfer.effectAllowed = 'move';
+        ev.dataTransfer.setData( 'text/plain', JSON.stringify( this.element ) );
+
+        this.$el.addClass( 'dragging' );
+        this.$el.parent().trigger( 'collection-element.dragstart', [ this ] );
+    },
+
+    /** dragging for re-ordering */
+    _dragend : function( ev ){
+        this.$el.removeClass( 'dragging' );
+        this.$el.parent().trigger( 'collection-element.dragend', [ this ] );
+    },
+
+    /** manually bubble up an event to the parent/container */
+    _sendToParent : function( ev ){
+        this.$el.parent().trigger( ev );
+    },
+
+    /** string rep */
+    toString : function(){
+        return 'DatasetCollectionElementView()';
+    }
+});
+
+
+// ============================================================================
+/** An interface for building collections.
+ */
+var ListCollectionCreator = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend({
+
+    /** the class used to display individual elements */
+    elementViewClass : DatasetCollectionElementView,
+    /** the class this creator will create and save */
+    collectionClass  : HDCA.HistoryListDatasetCollection,
+    className        : 'list-collection-creator collection-creator flex-row-container',
+
+    /** minimum number of valid elements to start with in order to build a collection of this type */
+    minElements      : 1,
+
+    defaultAttributes : {
+//TODO: remove - use new collectionClass().save()
+        /** takes elements and creates the proper collection - returns a promise */
+        creationFn : function(){ throw new TypeError( 'no creation fn for creator' ); },
+        /** fn to call when the collection is created (scoped to this) */
+        oncreate   : function(){},
+        /** fn to call when the cancel button is clicked (scoped to this) - if falsy, no btn is displayed */
+        oncancel   : function(){},
+        /** distance from list edge to begin autoscrolling list */
+        autoscrollDist  : 24,
+        /** Color passed to hoverhighlight */
+        highlightClr    : 'rgba( 64, 255, 255, 1.0 )'
+    },
+
+    /** set up initial options, instance vars, behaviors */
+    initialize : function( attributes ){
+        this.metric( 'ListCollectionCreator.initialize', attributes );
+        var creator = this;
+        _.each( this.defaultAttributes, function( value, key ){
+            value = attributes[ key ] || value;
+            creator[ key ] = value;
+        });
+
+        /** unordered, original list - cache to allow reversal */
+        creator.initialElements = attributes.elements || [];
+
+        this._instanceSetUp();
+        this._elementsSetUp();
+        this._setUpBehaviors();
+    },
+
+    /** set up instance vars */
+    _instanceSetUp : function(){
+        /** Ids of elements that have been selected by the user - to preserve over renders */
+        this.selectedIds = {};
+        /** DOM elements currently being dragged */
+        this.$dragging = null;
+        /** Used for blocking UI events during ajax/operations (don't post twice) */
+        this.blocking = false;
+    },
+
+    // ------------------------------------------------------------------------ process raw list
+    /** set up main data */
+    _elementsSetUp : function(){
+        //this.debug( '-- _dataSetUp' );
+        /** a list of invalid elements and the reasons they aren't valid */
+        this.invalidElements = [];
+//TODO: handle fundamental problem of syncing DOM, views, and list here
+        /** data for list in progress */
+        this.workingElements = [];
+        /** views for workingElements */
+        this.elementViews = [];
+
+        // copy initial list, sort, add ids if needed
+        this.workingElements = this.initialElements.slice( 0 );
+        this._ensureElementIds();
+        this._validateElements();
+        this._mangleDuplicateNames();
+        this._sortElements();
+    },
+
+    /** add ids to dataset objs in initial list if none */
+    _ensureElementIds : function(){
+        this.workingElements.forEach( function( element ){
+            if( !element.hasOwnProperty( 'id' ) ){
+                element.id = _.uniqueId();
             }
         });
-    if( !elementIdentifiers.length ){
-        noValidElementsErrorModal();
-        return jQuery.Deferred().reject( noValidElementsMessage );
-    }
-    return collection.createHDCA( elementIdentifiers, 'list', name );
+        return this.workingElements;
+    },
+
+    /** separate working list into valid and invalid elements for this collection */
+    _validateElements : function(){
+        var creator = this,
+            existingNames = {};
+        creator.invalidElements = [];
+
+        this.workingElements = this.workingElements.filter( function( element ){
+            var problem = creator._isElementInvalid( element );
+            if( problem ){
+                creator.invalidElements.push({
+                    element : element,
+                    text    : problem
+                });
+            }
+            return !problem;
+        });
+        return this.workingElements;
+    },
+
+    /** describe what is wrong with a particular element if anything */
+    _isElementInvalid : function( element ){
+        if( element.history_content_type !== 'dataset' ){
+            return _l( "is not a dataset" );
+        }
+        if( element.state !== STATES.OK ){
+            if( _.contains( STATES.NOT_READY_STATES, element.state ) ){
+                return _l( "hasn't finished running yet" );
+            }
+            return _l( "has errored, is paused, or is not accessible" );
+        }
+        if( element.deleted || element.purged ){
+            return _l( "has been deleted or purged" );
+        }
+        return null;
+    },
+
+    /** mangle duplicate names using a mac-like '(counter)' addition to any duplicates */
+    _mangleDuplicateNames : function(){
+        var SAFETY = 900,
+            counter = 1,
+            existingNames = {};
+        this.workingElements.forEach( function( element ){
+            var currName = element.name;
+            while( existingNames.hasOwnProperty( currName ) ){
+                currName = element.name + ' (' + counter + ')';
+                counter += 1;
+                if( counter >= SAFETY ){
+                    throw new Error( 'Safety hit in while loop - thats impressive' );
+                }
+            }
+            element.name = currName;
+            existingNames[ element.name ] = true;
+        });
+    },
+
+    /** sort a list of elements */
+    _sortElements : function( list ){
+        // // currently only natural sort by name
+        // this.workingElements.sort( function( a, b ){ return naturalSort( a.name, b.name ); });
+        // return this.workingElements;
+    },
+
+    // ------------------------------------------------------------------------ rendering
+    // templates : ListCollectionCreator.templates,
+    /** render the entire interface */
+    render : function( speed, callback ){
+        //this.debug( '-- _render' );
+        if( this.workingElements.length < this.minElements ){
+            return this._renderInvalid( speed, callback );
+        }
+
+        this.$el.empty().html( this.templates.main() );
+        this._renderHeader( speed );
+        this._renderMiddle( speed );
+        this._renderFooter( speed );
+        this._addPluginComponents();
+        this.$( '.collection-name' ).focus();
+        this.trigger( 'rendered', this );
+        return this;
+    },
+
+
+    /** render a simplified interface aimed at telling the user why they can't move forward */
+    _renderInvalid : function( speed, callback ){
+        //this.debug( '-- _render' );
+        this.$el.empty().html( this.templates.invalidInitial({
+            problems: this.invalidElements,
+            elements: this.workingElements,
+        }));
+        if( typeof this.oncancel === 'function' ){
+            this.$( '.cancel-create.btn' ).show();
+        }
+        this.trigger( 'rendered', this );
+        return this;
+    },
+
+    /** render the header section */
+    _renderHeader : function( speed, callback ){
+        var $header = this.$( '.header' ).empty().html( this.templates.header() )
+            .find( '.help-content' ).prepend( $( this.templates.helpContent() ) );
+        //TODO: should only show once despite calling _renderHeader again
+        if( this.invalidElements.length ){
+            this._invalidElementsAlert();
+        }
+        return $header;
+    },
+
+    /** render the middle including the elements */
+    _renderMiddle : function( speed, callback ){
+        var $middle = this.$( '.middle' ).empty().html( this.templates.middle() );
+        this._renderList( speed );
+        return $middle;
+    },
+
+    /** render the footer, completion controls, and cancel controls */
+    _renderFooter : function( speed, callback ){
+        var $footer = this.$( '.footer' ).empty().html( this.templates.footer() );
+        if( typeof this.oncancel === 'function' ){
+            this.$( '.cancel-create.btn' ).show();
+        }
+        return $footer;
+    },
+
+    /** add any jQuery/bootstrap/custom plugins to elements rendered */
+    _addPluginComponents : function(){
+        this.$( '.help-content i' ).hoverhighlight( '.collection-creator', this.highlightClr );
+    },
+
+    /** build and show an alert describing any elements that could not be included due to problems */
+    _invalidElementsAlert : function(){
+        this._showAlert( this.templates.invalidElements({ problems: this.invalidElements }), 'alert-warning' );
+    },
+
+    /** add (or clear if clear is truthy) a validation warning to the DOM element described in what */
+    _validationWarning : function( what, clear ){
+        var VALIDATION_CLASS = 'validation-warning';
+        if( what === 'name' ){
+            what = this.$( '.collection-name' ).add( this.$( '.collection-name-prompt' ) );
+            this.$( '.collection-name' ).focus().select();
+        }
+        if( clear ){
+            what = what || this.$( '.' + VALIDATION_CLASS );
+            what.removeClass( VALIDATION_CLASS );
+        } else {
+            what.addClass( VALIDATION_CLASS );
+        }
+    },
+
+    _disableNameAndCreate : function( disable ){
+        disable = !_.isUndefined( disable )? disable : true;
+        if( disable ){
+            this.$( '.collection-name' ).prop( 'disabled', true );
+            this.$( '.create-collection' ).toggleClass( 'disabled', true );
+        // } else {
+        //     this.$( '.collection-name' ).prop( 'disabled', false );
+        //     this.$( '.create-collection' ).removeClass( 'disable' );
+        }
+    },
+
+    // ------------------------------------------------------------------------ rendering elements
+    /** conv. to the main list display DOM */
+    $list : function(){
+        return this.$( '.collection-elements' );
+    },
+
+    /** show or hide the clear selected control based on the num of selected elements */
+    _renderClearSelected : function(){
+        if( _.size( this.selectedIds ) ){
+            this.$( '.collection-elements-controls > .clear-selected' ).show();
+        } else {
+            this.$( '.collection-elements-controls > .clear-selected' ).hide();
+        }
+    },
+
+    /** render the elements in order (or a warning if no elements found) */
+    _renderList : function( speed, callback ){
+        //this.debug( '-- _renderList' );
+        var creator = this,
+            $tmp = jQuery( '<div/>' ),
+            $list = creator.$list();
+
+        _.each( this.elementViews, function( view ){
+            view.destroy();
+            creator.removeElementView( view );
+        });
+
+        // if( !this.workingElements.length ){
+        //     this._renderNoValidElements();
+        //     return;
+        // }
+
+        creator.workingElements.forEach( function( element ){
+            var elementView = creator._createElementView( element );
+            $tmp.append( elementView.$el );
+        });
+
+        creator._renderClearSelected();
+        $list.empty().append( $tmp.children() );
+        _.invoke( creator.elementViews, 'render' );
+
+        if( $list.height() > $list.css( 'max-height' ) ){
+            $list.css( 'border-width', '1px 0px 1px 0px' );
+        } else {
+            $list.css( 'border-width', '0px' );
+        }
+    },
+
+    /** create an element view, cache in elementViews, set up listeners, and return */
+    _createElementView : function( element ){
+        var elementView = new this.elementViewClass({
+//TODO: use non-generic class or not all
+            // model : COLLECTION.DatasetDCE( element )
+            element : element,
+            selected: _.has( this.selectedIds, element.id )
+        });
+        this.elementViews.push( elementView );
+        this._listenToElementView( elementView );
+        return elementView;
+    },
+
+    /** listen to any element events */
+    _listenToElementView : function( view ){
+        var creator = this;
+        creator.listenTo( view, {
+            select : function( data ){
+                var element = data.source.element;
+                if( data.selected ){
+                    creator.selectedIds[ element.id ] = true;
+                } else {
+                    delete creator.selectedIds[ element.id ];
+                }
+                creator.trigger( 'elements:select', data );
+            },
+            discard : function( data ){
+                creator.trigger( 'elements:discard', data );
+            }
+        });
+    },
+
+    /** add a new element view based on the json in element */
+    addElementView : function( element ){
+//TODO: workingElements is sorted, add element in appropo index
+        // add element, sort elements, find element index
+        // var view = this._createElementView( element );
+        // return view;
+    },
+
+    /** stop listening to view and remove from caches */
+    removeElementView : function( view ){
+        delete this.selectedIds[ view.element.id ];
+        this._renderClearSelected();
+
+        this.elementViews = _.without( this.elementViews, view );
+        this.stopListening( view );
+    },
+
+    /** render a message in the list that no elements remain to create a collection */
+    _renderNoElementsLeft : function(){
+        this._disableNameAndCreate( true );
+        this.$( '.collection-elements' ).append( this.templates.noElementsLeft() );
+    },
+
+    // /** render a message in the list that no valid elements were found to create a collection */
+    // _renderNoValidElements : function(){
+    //     this._disableNameAndCreate( true );
+    //     this.$( '.collection-elements' ).append( this.templates.noValidElements() );
+    // },
+
+    // ------------------------------------------------------------------------ API
+    /** convert element into JSON compatible with the collections API */
+    _elementToJSON : function( element ){
+        // return element.toJSON();
+        return element;
+    },
+
+    /** create the collection via the API
+     *  @returns {jQuery.xhr Object} the jquery ajax request
+     */
+    createList : function( name ){
+        if( !this.workingElements.length ){
+            var message = _l( 'No valid elements for final list' ) + '. ';
+            message += '<a class="cancel-create" href="javascript:void(0);">' + _l( 'Cancel' ) + '</a> ';
+            message += _l( 'or' );
+            message += ' <a class="reset" href="javascript:void(0);">' + _l( 'start over' ) + '</a>.';
+            this._showAlert( message );
+            return;
+        }
+
+        var creator = this,
+            elements = this.workingElements.map( function( element ){
+                return creator._elementToJSON( element );
+            });
+
+        creator.blocking = true;
+        return creator.creationFn( elements, name )
+            .always( function(){
+                creator.blocking = false;
+            })
+            .fail( function( xhr, status, message ){
+                creator.trigger( 'error', {
+                    xhr     : xhr,
+                    status  : status,
+                    message : _l( 'An error occurred while creating this collection' )
+                });
+            })
+            .done( function( response, message, xhr ){
+                creator.trigger( 'collection:created', response, message, xhr );
+                creator.metric( 'collection:created', response );
+                if( typeof creator.oncreate === 'function' ){
+                    creator.oncreate.call( this, response, message, xhr );
+                }
+            });
+    },
+
+    // ------------------------------------------------------------------------ events
+    /** set up event handlers on self */
+    _setUpBehaviors : function(){
+        this.on( 'error', this._errorHandler );
+
+        this.once( 'rendered', function(){
+            this.trigger( 'rendered:initial', this );
+        });
+
+        this.on( 'elements:select', function( data ){
+            this._renderClearSelected();
+        });
+
+        this.on( 'elements:discard', function( data ){
+            var element = data.source.element;
+            this.removeElementView( data.source );
+
+            this.workingElements = _.without( this.workingElements, element );
+            if( !this.workingElements.length ){
+                this._renderNoElementsLeft();
+            }
+        });
+
+        //this.on( 'all', function(){
+        //    this.info( arguments );
+        //});
+        return this;
+    },
+
+    /** handle errors with feedback and details to the user (if available) */
+    _errorHandler : function( data ){
+        this.error( data );
+
+        var creator = this;
+            content = data.message || _l( 'An error occurred' );
+        if( data.xhr ){
+            var xhr = data.xhr,
+                message = data.message;
+            if( xhr.readyState === 0 && xhr.status === 0 ){
+                content += ': ' + _l( 'Galaxy could not be reached and may be updating.' ) +
+                    _l( ' Try again in a few minutes.' );
+            } else if( xhr.responseJSON ){
+                content += ':<br /><pre>' + JSON.stringify( xhr.responseJSON ) + '</pre>';
+            } else {
+                content += ': ' + message;
+            }
+        }
+        creator._showAlert( content, 'alert-danger' );
+    },
+
+    events : {
+        // header
+        'click .more-help'              : '_clickMoreHelp',
+        'click .less-help'              : '_clickLessHelp',
+        'click .main-help'              : '_toggleHelp',
+        'click .header .alert button'   : '_hideAlert',
+
+        'click .reset'                  : 'reset',
+        'click .clear-selected'         : 'clearSelectedElements',
+
+        // elements - selection
+        'click .collection-elements'    : 'clearSelectedElements',
+
+        // elements - drop target
+        // 'dragenter .collection-elements': '_dragenterElements',
+        // 'dragleave .collection-elements': '_dragleaveElements',
+        'dragover .collection-elements' : '_dragoverElements',
+        'drop .collection-elements'     : '_dropElements',
+
+        // these bubble up from the elements as custom events
+        'collection-element.dragstart .collection-elements' : '_elementDragstart',
+        'collection-element.dragend   .collection-elements' : '_elementDragend',
+
+        // footer
+        'change .collection-name'       : '_changeName',
+        'keydown .collection-name'      : '_nameCheckForEnter',
+        'click .cancel-create'          : function( ev ){
+            if( typeof this.oncancel === 'function' ){
+                this.oncancel.call( this );
+            }
+        },
+        'click .create-collection'      : '_clickCreate'//,
+    },
+
+    // ........................................................................ header
+    /** expand help */
+    _clickMoreHelp : function( ev ){
+        ev.stopPropagation();
+        this.$( '.main-help' ).addClass( 'expanded' );
+        this.$( '.more-help' ).hide();
+    },
+    /** collapse help */
+    _clickLessHelp : function( ev ){
+        ev.stopPropagation();
+        this.$( '.main-help' ).removeClass( 'expanded' );
+        this.$( '.more-help' ).show();
+    },
+    /** toggle help */
+    _toggleHelp : function( ev ){
+        ev.stopPropagation();
+        this.$( '.main-help' ).toggleClass( 'expanded' );
+        this.$( '.more-help' ).toggle();
+    },
+
+    /** show an alert on the top of the interface containing message (alertClass is bootstrap's alert-*) */
+    _showAlert : function( message, alertClass ){
+        alertClass = alertClass || 'alert-danger';
+        this.$( '.main-help' ).hide();
+        this.$( '.header .alert' )
+            .attr( 'class', 'alert alert-dismissable' ).addClass( alertClass ).show()
+            .find( '.alert-message' ).html( message );
+    },
+    /** hide the alerts at the top */
+    _hideAlert : function( message ){
+        this.$( '.main-help' ).show();
+        this.$( '.header .alert' ).hide();
+    },
+
+    // ........................................................................ elements
+    /** reset all data to the initial state */
+    reset : function(){
+        this._instanceSetUp();
+        this._elementsSetUp();
+        this.render();
+    },
+
+    /** deselect all elements */
+    clearSelectedElements : function( ev ){
+        this.$( '.collection-elements .collection-element' ).removeClass( 'selected' );
+        this.$( '.collection-elements-controls > .clear-selected' ).hide();
+    },
+
+    //_dragenterElements : function( ev ){
+    //    //this.debug( '_dragenterElements:', ev );
+    //},
+//TODO: if selected are dragged out of the list area - remove the placeholder - cuz it won't work anyway
+    // _dragleaveElements : function( ev ){
+    //    //this.debug( '_dragleaveElements:', ev );
+    // },
+
+    /** track the mouse drag over the list adding a placeholder to show where the drop would occur */
+    _dragoverElements : function( ev ){
+        //this.debug( '_dragoverElements:', ev );
+        ev.preventDefault();
+
+        var $list = this.$list();
+        this._checkForAutoscroll( $list, ev.originalEvent.clientY );
+        var $nearest = this._getNearestElement( ev.originalEvent.clientY );
+
+        //TODO: no need to re-create - move instead
+        this.$( '.element-drop-placeholder' ).remove();
+        var $placeholder = $( '<div class="element-drop-placeholder"></div>' );
+        if( !$nearest.size() ){
+            $list.append( $placeholder );
+        } else {
+            $nearest.before( $placeholder );
+        }
+    },
+
+    /** If the mouse is near enough to the list's top or bottom, scroll the list */
+    _checkForAutoscroll : function( $element, y ){
+        var AUTOSCROLL_SPEED = 2,
+            offset = $element.offset(),
+            scrollTop = $element.scrollTop(),
+            upperDist = y - offset.top,
+            lowerDist = ( offset.top + $element.outerHeight() ) - y;
+        if( upperDist >= 0 && upperDist < this.autoscrollDist ){
+            $element.scrollTop( scrollTop - AUTOSCROLL_SPEED );
+        } else if( lowerDist >= 0 && lowerDist < this.autoscrollDist ){
+            $element.scrollTop( scrollTop + AUTOSCROLL_SPEED );
+        }
+    },
+
+    /** get the nearest element based on the mouse's Y coordinate.
+     *  If the y is at the end of the list, return an empty jQuery object.
+     */
+    _getNearestElement : function( y ){
+        var WIGGLE = 4,
+            lis = this.$( '.collection-elements li.collection-element' ).toArray();
+        for( var i=0; i<lis.length; i++ ){
+            var $li = $( lis[i] ),
+                top = $li.offset().top,
+                halfHeight = Math.floor( $li.outerHeight() / 2 ) + WIGGLE;
+            if( top + halfHeight > y && top - halfHeight < y ){
+                return $li;
+            }
+        }
+        return $();
+    },
+
+    /** drop (dragged/selected elements) onto the list, re-ordering the internal list */
+    _dropElements : function( ev ){
+        if( ev.originalEvent ){ ev = ev.originalEvent; }
+        // both required for firefox
+        ev.preventDefault();
+        ev.dataTransfer.dropEffect = 'move';
+
+        // insert before the nearest element or after the last.
+        var $nearest = this._getNearestElement( ev.clientY );
+        if( $nearest.size() ){
+            this.$dragging.insertBefore( $nearest );
+        } else {
+            // no nearest before - insert after last element
+            this.$dragging.insertAfter( this.$( '.collection-elements .collection-element' ).last() );
+        }
+        // resync the creator's list based on the new DOM order
+        this._syncOrderToDom();
+        return false;
+    },
+
+    /** resync the creator's list of elements based on the DOM order */
+    _syncOrderToDom : function(){
+        var creator = this,
+            newElements = [];
+        //TODO: doesn't seem wise to use the dom to store these - can't we sync another way?
+        this.$( '.collection-elements .collection-element' ).each( function(){
+            var id = $( this ).attr( 'data-element-id' ),
+                element = _.findWhere( creator.workingElements, { id: id });
+            if( element ){
+                newElements.push( element );
+            } else {
+                console.error( 'missing element: ', id );
+            }
+        });
+        this.workingElements = newElements;
+        this._renderList();
+    },
+
+    /** drag communication with element sub-views: dragstart */
+    _elementDragstart : function( ev, element ){
+        // auto select the element causing the event and move all selected
+        element.select( true );
+        this.$dragging = this.$( '.collection-elements .collection-element.selected' );
+    },
+
+    /** drag communication with element sub-views: dragend - remove the placeholder */
+    _elementDragend : function( ev, element ){
+        $( '.element-drop-placeholder' ).remove();
+        this.$dragging = null;
+    },
+
+    // ........................................................................ footer
+    /** handle a collection name change */
+    _changeName : function( ev ){
+        this._validationWarning( 'name', !!this._getName() );
+    },
+
+    /** check for enter key press when in the collection name and submit */
+    _nameCheckForEnter : function( ev ){
+        if( ev.keyCode === 13 && !this.blocking ){
+            this._clickCreate();
+        }
+    },
+
+    /** get the current collection name */
+    _getName : function(){
+        return _.escape( this.$( '.collection-name' ).val() );
+    },
+
+    /** attempt to create the current collection */
+    _clickCreate : function( ev ){
+        var name = this._getName();
+        if( !name ){
+            this._validationWarning( 'name' );
+        } else if( !this.blocking ){
+            this.createList( name );
+        }
+    },
+
+    // ------------------------------------------------------------------------ templates
+    //TODO: move to require text plugin and load these as text
+    //TODO: underscore currently unnecc. bc no vars are used
+    //TODO: better way of localizing text-nodes in long strings
+    /** underscore template fns attached to class */
+    templates : {
+        /** the skeleton */
+        main : _.template([
+            '<div class="header flex-row no-flex"></div>',
+            '<div class="middle flex-row flex-row-container"></div>',
+            '<div class="footer flex-row no-flex"></div>'
+        ].join('')),
+
+        /** the header (not including help text) */
+        header : _.template([
+            '<div class="main-help well clear">',
+                '<a class="more-help" href="javascript:void(0);">', _l( 'More help' ), '</a>',
+                '<div class="help-content">',
+                    '<a class="less-help" href="javascript:void(0);">', _l( 'Less' ), '</a>',
+                '</div>',
+            '</div>',
+            '<div class="alert alert-dismissable">',
+                '<button type="button" class="close" data-dismiss="alert" ',
+                    'title="', _l( 'Close and show more help' ), '" aria-hidden="true">&times;</button>',
+                '<span class="alert-message"></span>',
+            '</div>',
+        ].join('')),
+
+        /** the middle: element list */
+        middle : _.template([
+            '<div class="collection-elements-controls">',
+                '<a class="reset" href="javascript:void(0);" ',
+                    'title="', _l( 'Undo all reordering and discards' ), '">',
+                    _l( 'Start over' ),
+                '</a>',
+                '<a class="clear-selected" href="javascript:void(0);" ',
+                    'title="', _l( 'De-select all selected datasets' ), '">',
+                    _l( 'Clear selected' ),
+                '</a>',
+            '</div>',
+            '<div class="collection-elements scroll-container flex-row">',
+            '</div>'
+        ].join('')),
+
+        /** creation and cancel controls */
+        footer : _.template([
+            '<div class="attributes clear">',
+                '<div class="clear">',
+                    '<input class="collection-name form-control pull-right" ',
+                        'placeholder="', _l( 'Enter a name for your new collection' ), '" />',
+                    '<div class="collection-name-prompt pull-right">', _l( 'Name' ), ':</div>',
+                '</div>',
+            '</div>',
+
+            '<div class="actions clear vertically-spaced">',
+                '<div class="other-options pull-left">',
+                    '<button class="cancel-create btn" tabindex="-1">', _l( 'Cancel' ), '</button>',
+                    '<div class="create-other btn-group dropup">',
+                        '<button class="btn btn-default dropdown-toggle" data-toggle="dropdown">',
+                              _l( 'Create a different kind of collection' ),
+                              ' <span class="caret"></span>',
+                        '</button>',
+                        '<ul class="dropdown-menu" role="menu">',
+                              '<li><a href="#">', _l( 'Create a <i>single</i> pair' ), '</a></li>',
+                              '<li><a href="#">', _l( 'Create a list of <i>unpaired</i> datasets' ), '</a></li>',
+                        '</ul>',
+                    '</div>',
+                '</div>',
+
+                '<div class="main-options pull-right">',
+                    '<button class="create-collection btn btn-primary">', _l( 'Create list' ), '</button>',
+                '</div>',
+            '</div>'
+        ].join('')),
+
+        /** help content */
+        helpContent : _.template([
+            '<p>', _l([
+                'Collections of datasets are permanent, ordered lists of datasets that can be passed to tools and ',
+                'workflows in order to have analyses done on each member of the entire group. This interface allows ',
+                'you to create a collection and re-order the final collection.'
+            ].join( '' )), '</p>',
+            '<ul>',
+                '<li>', _l([
+                    'Rename elements in the list by clicking on ',
+                    '<i data-target=".collection-element .name">the existing name</i>.'
+                ].join( '' )), '</li>',
+                '<li>', _l([
+                    'Discard elements from the final created list by clicking on the ',
+                    '<i data-target=".collection-element .discard">"Discard"</i> button.'
+                ].join( '' )), '</li>',
+                '<li>', _l([
+                    'Reorder the list by clicking and dragging elements. Select multiple elements by clicking on ',
+                    '<i data-target=".collection-element">them</i> and you can then move those selected by dragging the ',
+                    'entire group. Deselect them by clicking them again or by clicking the ',
+                    'the <i data-target=".clear-selected">"Clear selected"</i> link.'
+                ].join( '' )), '</li>',
+                '<li>', _l([
+                    'Click the <i data-target=".reset">"Start over"</i> link to begin again as if you had just opened ',
+                    'the interface.'
+                ].join( '' )), '</li>',
+                '<li>', _l([
+                    'Click the <i data-target=".cancel-create">"Cancel"</i> button to exit the interface.'
+                ].join( '' )), '</li>',
+            '</ul><br />',
+            '<p>', _l([
+                'Once your collection is complete, enter a <i data-target=".collection-name">name</i> and ',
+                'click <i data-target=".create-collection">"Create list"</i>.'
+            ].join( '' )), '</p>'
+        ].join('')),
+
+        /** shown in list when all elements are discarded */
+        invalidElements : _.template([
+            _l( 'The following selections could not be included due to problems:' ),
+            '<ul><% _.each( problems, function( problem ){ %>',
+                '<li><b><%= problem.element.name %></b>: <%= problem.text %></li>',
+            '<% }); %></ul>'
+        ].join('')),
+
+        /** shown in list when all elements are discarded */
+        noElementsLeft : _.template([
+            '<li class="no-elements-left-message">',
+                _l( 'No elements left! ' ),
+                _l( 'Would you like to ' ), '<a class="reset" href="javascript:void(0)">', _l( 'start over' ), '</a>?',
+            '</li>'
+        ].join('')),
+
+        /** a simplified page communicating what went wrong and why the user needs to reselect something else */
+        invalidInitial : _.template([
+            '<div class="header flex-row no-flex">',
+                '<div class="alert alert-warning" style="display: block">',
+                    '<span class="alert-message">',
+                        '<% if( _.size( problems ) ){ %>',
+                            _l( 'The following selections could not be included due to problems' ), ':',
+                            '<ul><% _.each( problems, function( problem ){ %>',
+                                '<li><b><%= problem.element.name %></b>: <%= problem.text %></li>',
+                            '<% }); %></ul>',
+                        '<% } else if( _.size( elements ) < 1 ){ %>',
+                            _l( 'No datasets were selected' ), '.',
+                        '<% } %>',
+                        '<br />',
+                        _l( 'At least one element is needed for the collection' ), '. ',
+                        _l( 'You may need to ' ),
+                        '<a class="cancel-create" href="javascript:void(0)">', _l( 'cancel' ), '</a> ',
+                        _l( 'and reselect new elements' ), '.',
+                    '</span>',
+                '</div>',
+            '</div>',
+            '<div class="footer flex-row no-flex">',
+                '<div class="actions clear vertically-spaced">',
+                    '<div class="other-options pull-left">',
+                        '<button class="cancel-create btn" tabindex="-1">', _l( 'Cancel' ), '</button>',
+                        // _l( 'Create a different kind of collection' ),
+                    '</div>',
+                '</div>',
+            '</div>'
+        ].join('')),
+    },
+
+    // ------------------------------------------------------------------------ misc
+    /** string rep */
+    toString : function(){ return 'ListCollectionCreator'; }
+});
+
+
+
+//=============================================================================
+/** Create a modal and load its body with the given CreatorClass creator type
+ *  @returns {Deferred} resolved when creator has built a collection.
+ */
+var collectionCreatorModal = function _collectionCreatorModal( elements, options, CreatorClass ){
+
+    var deferred = jQuery.Deferred(),
+        modal = Galaxy.modal || ( new UI_MODAL.View() ),
+        creator;
+
+    options = _.defaults( options || {}, {
+        elements    : elements,
+        oncancel    : function(){
+            modal.hide();
+            deferred.reject( 'cancelled' );
+        },
+        oncreate    : function( creator, response ){
+            modal.hide();
+            deferred.resolve( response );
+        }
+    });
+
+    creator = new CreatorClass( options );
+    modal.show({
+        title   : options.title || _l( 'Create a collection' ),
+        body    : creator.$el,
+        width   : '80%',
+        height  : 'min-content',
+        closing_events: true
+    });
+    creator.render();
+    window._collectionCreator = creator;
+
+    //TODO: remove modal header
+    return deferred;
+};
+
+/** List collection flavor of collectionCreatorModal. */
+var listCollectionCreatorModal = function _listCollectionCreatorModal( elements, options ){
+    options = options || {};
+    options.title = _l( 'Create a collection from a list of datasets' );
+    return collectionCreatorModal( elements, options, ListCollectionCreator );
+};
+
+
+//==============================================================================
+/** Use a modal to create a list collection, then add it to the given history contents.
+ *  @returns {Deferred} resolved when the collection is added to the history.
+ */
+function createListCollection( contents ){
+    var elements = contents.toJSON(),
+        promise = listCollectionCreatorModal( elements, {
+            creationFn : function( elements, name ){
+                elements = elements.map( function( element ){
+                    return {
+                        id      : element.id,
+                        name    : element.name,
+                        //TODO: this allows for list:list even if the filter above does not - reconcile
+                        src     : ( element.history_content_type === 'dataset'? 'hda' : 'hdca' )
+                    };
+                });
+                return contents.createHDCA( elements, 'list', name );
+            }
+        });
+    return promise;
 }
 
 //==============================================================================
     return {
-        validElements               : validElements,
-        noValidElementsMessage      : noValidElementsMessage,
-        noValidElementsErrorModal   : noValidElementsErrorModal,
-        createListHDCA              : createListHDCA
+        DatasetCollectionElementView: DatasetCollectionElementView,
+        ListCollectionCreator       : ListCollectionCreator,
+
+        collectionCreatorModal      : collectionCreatorModal,
+        listCollectionCreatorModal  : listCollectionCreatorModal,
+        createListCollection        : createListCollection
     };
 });
diff --git a/client/galaxy/scripts/mvc/collection/list-of-pairs-collection-creator.js b/client/galaxy/scripts/mvc/collection/list-of-pairs-collection-creator.js
index b5ac964eb02..269650b427b 100644
--- a/client/galaxy/scripts/mvc/collection/list-of-pairs-collection-creator.js
+++ b/client/galaxy/scripts/mvc/collection/list-of-pairs-collection-creator.js
@@ -3,7 +3,8 @@ define([
     "utils/natural-sort",
     "mvc/collection/list-collection-creator",
     "mvc/base-mvc",
-    "utils/localization"
+    "utils/localization",
+    "ui/hoverhighlight"
 ], function( levenshteinDistance, naturalSort, LIST_COLLECTION_CREATOR, baseMVC, _l ){
 /* ============================================================================
 TODO:
@@ -185,7 +186,7 @@ function autoPairFnBuilder( options ){
  */
 var PairedCollectionCreator = Backbone.View.extend( baseMVC.LoggableMixin ).extend({
 
-    className: 'collection-creator flex-row-container',
+    className: 'list-of-pairs-collection-creator collection-creator flex-row-container',
 
     /** set up initial options, instance vars, behaviors, and autopair (if set to do so) */
     initialize : function( attributes ){
@@ -1307,8 +1308,8 @@ var PairedCollectionCreator = Backbone.View.extend( baseMVC.LoggableMixin ).exte
         //this.debug( ev.originalEvent.clientX, ev.originalEvent.clientY );
         var $nearest = this._getNearestPairedDatasetLi( ev.originalEvent.clientY );
 
-        $( '.paired-drop-placeholder' ).remove();
-        var $placeholder = $( '<div class="paired-drop-placeholder"></div>' );
+        $( '.element-drop-placeholder' ).remove();
+        var $placeholder = $( '<div class="element-drop-placeholder"></div>' );
         if( !$nearest.size() ){
             $list.append( $placeholder );
         } else {
@@ -1388,7 +1389,7 @@ var PairedCollectionCreator = Backbone.View.extend( baseMVC.LoggableMixin ).exte
     /** drag communication with pair sub-views: dragend - remove the placeholder */
     _pairDragend : function( ev, pair ){
         //this.debug( '_pairDragend', ev, pair )
-        $( '.paired-drop-placeholder' ).remove();
+        $( '.element-drop-placeholder' ).remove();
         this.$dragging = null;
     },
 
@@ -1656,37 +1657,6 @@ PairedCollectionCreator.templates = PairedCollectionCreator.templates || {
 };
 
 
-//=============================================================================
-(function(){
-    /** plugin that will highlight an element when this element is hovered over */
-    jQuery.fn.extend({
-        hoverhighlight : function $hoverhighlight( scope, color ){
-            scope = scope || 'body';
-            if( !this.size() ){ return this; }
-
-            $( this ).each( function(){
-                var $this = $( this ),
-                    targetSelector = $this.data( 'target' );
-
-                if( targetSelector ){
-                    $this.mouseover( function( ev ){
-                        $( targetSelector, scope ).css({
-                            background: color
-                        });
-                    })
-                    .mouseout( function( ev ){
-                        $( targetSelector ).css({
-                            background: ''
-                        });
-                    });
-                }
-            });
-            return this;
-        }
-    });
-}());
-
-
 //=============================================================================
 /** a modal version of the paired collection creator */
 var pairedCollectionCreatorModal = function _pairedCollectionCreatorModal( datasets, options ){
@@ -1728,12 +1698,8 @@ var pairedCollectionCreatorModal = function _pairedCollectionCreatorModal( datas
 
 //=============================================================================
 function createListOfPairsCollection( collection ){
-    var elements = LIST_COLLECTION_CREATOR.validElements( collection );
-    if( !elements.length ){
-        LIST_COLLECTION_CREATOR.noValidElementsErrorModal();
-        return jQuery.Deferred().reject( LIST_COLLECTION_CREATOR.noValidElementsMessage );
-    }
-
+    var elements = collection.toJSON();
+//TODO: validate elements
     return pairedCollectionCreatorModal( elements, {
         historyId : collection.historyId
     });
diff --git a/client/galaxy/scripts/mvc/collection/pair-collection-creator.js b/client/galaxy/scripts/mvc/collection/pair-collection-creator.js
index 99185221382..2424e11a442 100644
--- a/client/galaxy/scripts/mvc/collection/pair-collection-creator.js
+++ b/client/galaxy/scripts/mvc/collection/pair-collection-creator.js
@@ -1,33 +1,247 @@
 define([
     "mvc/collection/list-collection-creator",
-    "mvc/ui/error-modal",
+    "mvc/history/hdca-model",
+    "mvc/base-mvc",
     "utils/localization"
-], function( LIST_COLLECTION_CREATOR, errorModal, _l ){
+], function( LIST_CREATOR, HDCA, BASE_MVC, _l ){
+/*==============================================================================
+TODO:
+    the paired creator doesn't really mesh with the list creator as parent
+        it may be better to make an abstract super class for both
+    composites may inherit from this (or vis-versa)
+    PairedDatasetCollectionElementView doesn't make a lot of sense
 
-    function createPairHDCA( collection ){
-        // currently: datasets in the ok state
-        var elementsJSON = LIST_COLLECTION_CREATOR.validElements( collection );
-        if( !elementsJSON.length ){
-            LIST_COLLECTION_CREATOR.noValidElementsErrorModal();
-            return jQuery.Deferred().reject( LIST_COLLECTION_CREATOR.noValidElementsMessage );
-        }
-        if( elementsJSON.length !== 2 ){
-            errorModal(
-                'When pairing datasets, select only two datasets: one forward and one reverse.',
-                'Not a valid pair'
-            );
-            return jQuery.Deferred().reject( LIST_COLLECTION_CREATOR.noValidElementsMessage );
-        }
+==============================================================================*/
+/**  */
+var PairedDatasetCollectionElementView = Backbone.View.extend( BASE_MVC.LoggableMixin ).extend({
+//TODO: use proper class (DatasetDCE or NestedDCDCE (or the union of both))
+    tagName     : 'li',
+    className   : 'collection-element',
 
-        var name = 'New Dataset Pair',
-            elementIdentifiers = [
-                { name: "forward", src: "hda", id: elementsJSON[0].id },
-                { name: "reverse", src: "hda", id: elementsJSON[1].id }
-            ];
-        return collection.createHDCA( elementIdentifiers, 'paired', name );
+    initialize : function( attributes ){
+        this.element = attributes.element || {};
+        this.identifier = attributes.identifier;
+    },
+
+    render : function(){
+        this.$el
+            .attr( 'data-element-id', this.element.id )
+            .html( this.template({ identifier: this.identifier, element: this.element }) );
+        return this;
+    },
+
+    //TODO: lots of unused space in the element - possibly load details and display them horiz.
+    template : _.template([
+        '<span class="identifier"><%= identifier %></span>',
+        '<span class="name"><%= element.name %></span>',
+    ].join('')),
+
+    /** remove the DOM and any listeners */
+    destroy : function(){
+        this.off();
+        this.$el.remove();
+    },
+
+    /** string rep */
+    toString : function(){
+        return 'DatasetCollectionElementView()';
     }
+});
 
+
+// ============================================================================
+var _super = LIST_CREATOR.ListCollectionCreator;
+
+/** An interface for building collections.
+ */
+var PairCollectionCreator = _super.extend({
+
+    /** the class used to display individual elements */
+    elementViewClass : PairedDatasetCollectionElementView,
+    /** the class this creator will create and save */
+    collectionClass : HDCA.HistoryPairDatasetCollection,
+    className : 'pair-collection-creator collection-creator flex-row-container',
+
+    /** override to no-op */
+    _mangleDuplicateNames : function(){},
+
+    // TODO: this whole pattern sucks. There needs to be two classes of problem area:
+    //      bad inital choices and
+    //      when the user has painted his/her self into a corner during creation/use-of-the-creator
+    /** render the entire interface */
+    render : function( speed, callback ){
+        if( this.workingElements.length === 2 ){
+            return _super.prototype.render.call( this, speed, callback );
+        }
+        return this._renderInvalid( speed, callback );
+    },
+
+    // ------------------------------------------------------------------------ rendering elements
+    /** render forward/reverse */
+    _renderList : function( speed, callback ){
+        //this.debug( '-- _renderList' );
+        //precondition: there are two valid elements in workingElements
+        var creator = this,
+            $tmp = jQuery( '<div/>' ),
+            $list = creator.$list();
+
+        // lose the original views, create the new, append all at once, then call their renders
+        _.each( this.elementViews, function( view ){
+            view.destroy();
+            creator.removeElementView( view );
+        });
+        $tmp.append( creator._createForwardElementView().$el );
+        $tmp.append( creator._createReverseElementView().$el );
+        $list.empty().append( $tmp.children() );
+        _.invoke( creator.elementViews, 'render' );
+    },
+
+    /** create the forward element view */
+    _createForwardElementView : function(){
+        return this._createElementView( this.workingElements[0], { identifier: 'forward' } );
+    },
+
+    /** create the forward element view */
+    _createReverseElementView : function(){
+        return this._createElementView( this.workingElements[1], { identifier: 'reverse' } );
+    },
+
+    /** create an element view, cache in elementViews, and return */
+    _createElementView : function( element, options ){
+        var elementView = new this.elementViewClass( _.extend( options, {
+            element : element,
+        }));
+        this.elementViews.push( elementView );
+        return elementView;
+    },
+
+    /** swap the forward, reverse elements and re-render */
+    swap : function(){
+        this.workingElements = [
+            this.workingElements[1],
+            this.workingElements[0],
+        ];
+        this._renderList();
+    },
+
+    events : _.extend( _.clone( _super.prototype.events ), {
+        'click .swap' : 'swap',
+    }),
+
+    // ------------------------------------------------------------------------ templates
+    //TODO: move to require text plugin and load these as text
+    //TODO: underscore currently unnecc. bc no vars are used
+    //TODO: better way of localizing text-nodes in long strings
+    /** underscore template fns attached to class */
+    templates : _.extend( _.clone( _super.prototype.templates ), {
+        /** the middle: element list */
+        middle : _.template([
+            '<div class="collection-elements-controls">',
+                '<a class="swap" href="javascript:void(0);" title="', _l( 'Swap forward and reverse datasets' ), '">',
+                    _l( 'Swap' ),
+                '</a>',
+            '</div>',
+            '<div class="collection-elements scroll-container flex-row">',
+            '</div>'
+        ].join('')),
+
+        /** help content */
+        helpContent : _.template([
+            '<p>', _l([
+                'Pair collections are permanent collections containing two datasets: one forward and one reverse. ',
+                'Often these are forward and reverse reads. The pair collections can be passed to tools and ',
+                'workflows in order to have analyses done on both datasets. This interface allows ',
+                'you to create a pair, name it, and swap which is forward and which reverse.'
+            ].join( '' )), '</p>',
+            '<ul>',
+                '<li>', _l([
+                    'Click the <i data-target=".swap">"Swap"</i> link to make your forward dataset the reverse ',
+                    'and the reverse dataset forward.'
+                ].join( '' )), '</li>',
+                '<li>', _l([
+                    'Click the <i data-target=".cancel-create">"Cancel"</i> button to exit the interface.'
+                ].join( '' )), '</li>',
+            '</ul><br />',
+            '<p>', _l([
+                'Once your collection is complete, enter a <i data-target=".collection-name">name</i> and ',
+                'click <i data-target=".create-collection">"Create list"</i>.'
+            ].join( '' )), '</p>'
+        ].join('')),
+
+        /** a simplified page communicating what went wrong and why the user needs to reselect something else */
+        invalidInitial : _.template([
+            '<div class="header flex-row no-flex">',
+                '<div class="alert alert-warning" style="display: block">',
+                    '<span class="alert-message">',
+                        '<% if( _.size( problems ) ){ %>',
+                            _l( 'The following selections could not be included due to problems' ),
+                            '<ul><% _.each( problems, function( problem ){ %>',
+                                '<li><b><%= problem.element.name %></b>: <%= problem.text %></li>',
+                            '<% }); %></ul>',
+                        '<% } else if( _.size( elements ) === 0 ){ %>',
+                            _l( 'No datasets were selected' ), '.',
+                        '<% } else if( _.size( elements ) === 1 ){ %>',
+                            _l( 'Only one dataset was selected' ), ': <%= elements[0].name %>',
+                        '<% } else if( _.size( elements ) > 2 ){ %>',
+                            _l( 'Too many datasets were selected' ),
+                            ': <%= _.pluck( elements, "name" ).join( ", ") %>',
+                        '<% } %>',
+                        '<br />',
+                        _l( 'Two (and only two) elements are needed for the pair' ), '. ',
+                        _l( 'You may need to ' ),
+                        '<a class="cancel-create" href="javascript:void(0)">', _l( 'cancel' ), '</a> ',
+                        _l( 'and reselect new elements' ), '.',
+                    '</span>',
+                '</div>',
+            '</div>',
+            '<div class="footer flex-row no-flex">',
+                '<div class="actions clear vertically-spaced">',
+                    '<div class="other-options pull-left">',
+                        '<button class="cancel-create btn" tabindex="-1">', _l( 'Cancel' ), '</button>',
+                        // _l( 'Create a different kind of collection' ),
+                    '</div>',
+                '</div>',
+            '</div>'
+        ].join('')),
+    }),
+
+    // ------------------------------------------------------------------------ misc
+    /** string rep */
+    toString : function(){ return 'PairCollectionCreator'; }
+});
+
+
+//==============================================================================
+/** List collection flavor of collectionCreatorModal. */
+var pairCollectionCreatorModal = function _pairCollectionCreatorModal( elements, options ){
+    options = options || {};
+    options.title = _l( 'Create a collection from a pair of datasets' );
+    return LIST_CREATOR.collectionCreatorModal( elements, options, PairCollectionCreator );
+};
+
+
+//==============================================================================
+/** Use a modal to create a pair collection, then add it to the given history contents.
+ *  @returns {Deferred} resolved when the collection is added to the history.
+ */
+function createPairCollection( contents ){
+    var elements = contents.toJSON(),
+        promise = pairCollectionCreatorModal( elements, {
+            creationFn : function( elements, name ){
+                elements = [
+                    { name: "forward", src: "hda", id: elements[0].id },
+                    { name: "reverse", src: "hda", id: elements[1].id }
+                ];
+                return contents.createHDCA( elements, 'paired', name );
+            }
+        });
+    return promise;
+}
+
+//==============================================================================
     return {
-        createPairHDCA : createPairHDCA
+        PairCollectionCreator       : PairCollectionCreator,
+        pairCollectionCreatorModal  : pairCollectionCreatorModal,
+        createPairCollection        : createPairCollection,
     };
 });
diff --git a/client/galaxy/scripts/mvc/history/history-panel-edit.js b/client/galaxy/scripts/mvc/history/history-panel-edit.js
index 7f68f324287..22c21adb651 100644
--- a/client/galaxy/scripts/mvc/history/history-panel-edit.js
+++ b/client/galaxy/scripts/mvc/history/history-panel-edit.js
@@ -287,13 +287,13 @@ var HistoryPanelEdit = _super.extend(
         var panel = this;
         return [
             {   html: _l( 'Build Dataset List' ), func: function() {
-                    LIST_COLLECTION_CREATOR.createListHDCA( panel.getSelectedModels() )
+                    LIST_COLLECTION_CREATOR.createListCollection( panel.getSelectedModels() )
                         .done( function(){ panel.model.refresh() });
                 }
             },
             // TODO: Only show quick pair if two things selected.
             {   html: _l( 'Build Dataset Pair' ), func: function() {
-                    PAIR_COLLECTION_CREATOR.createPairHDCA( panel.getSelectedModels() )
+                    PAIR_COLLECTION_CREATOR.createPairCollection( panel.getSelectedModels() )
                         .done( function(){ panel.model.refresh() });
                 }
             },
@@ -458,7 +458,6 @@ var HistoryPanelEdit = _super.extend(
         var dropTarget = this.$( '.history-drop-target' ).get(0);
         for( var evName in this._dropHandlers ){
             if( this._dropHandlers.hasOwnProperty( evName ) ){
-                console.debug( evName, this._dropHandlers[ evName ] );
                 dropTarget.off( evName, this._dropHandlers[ evName ] );
             }
         }
diff --git a/client/galaxy/scripts/ui/hoverhighlight.js b/client/galaxy/scripts/ui/hoverhighlight.js
new file mode 100644
index 00000000000..d5e1a949cf5
--- /dev/null
+++ b/client/galaxy/scripts/ui/hoverhighlight.js
@@ -0,0 +1,37 @@
+(function (factory) {
+    if (typeof define === 'function' && define.amd) {
+        define([], factory);
+    } else {
+        // Browser globals
+        factory(jQuery);
+    }
+
+}(function () {
+//=============================================================================
+
+    jQuery.fn.extend({
+        hoverhighlight : function $hoverhighlight( scope, color ){
+            scope = scope || 'body';
+            if( !this.size() ){ return this; }
+
+            $( this ).each( function(){
+                var $this = $( this ),
+                    targetSelector = $this.data( 'target' );
+
+                if( targetSelector ){
+                    $this.mouseover( function( ev ){
+                        $( targetSelector, scope ).css({
+                            background: color
+                        });
+                    })
+                    .mouseout( function( ev ){
+                        $( targetSelector ).css({
+                            background: ''
+                        });
+                    });
+                }
+            });
+            return this;
+        }
+    });
+}));
diff --git a/static/maps/mvc/collection/list-collection-creator.js.map b/static/maps/mvc/collection/list-collection-creator.js.map
index f4ca81f06d8..1a85bfe38a3 100644
--- a/static/maps/mvc/collection/list-collection-creator.js.map
+++ b/static/maps/mvc/collection/list-collection-creator.js.map
@@ -1 +1 @@
-{"version":3,"file":"list-collection-creator.js","sources":["../../../src/mvc/collection/list-collection-creator.js"],"names":["define","STATES","errorModal","validElements","collection","elements","toJSON","filter","content","history_content_type","state","OK","noValidElementsErrorModal","noValidElementsMessage","createListHDCA","name","elementIdentifiers","map","element","id","src","length","createHDCA","jQuery","Deferred","reject"],"mappings":"AAAAA,QACI,qBACA,qBACA,sBACD,SAAUC,EAAQC,GAIrB,QAASC,GAAeC,GACpB,GAAIC,GAAWD,EAAWE,SAASC,OAAQ,SAAUC,GACjD,MAAwC,YAAjCA,EAAQC,sBACRD,EAAQE,QAAUT,EAAOU,IAEpC,OAAON,GAKX,QAASO,KACLV,EACI,gJAEAW,GAIR,QAASC,GAAgBV,GACrB,GAAIW,GAAO,mBACPC,EAAqBb,EAAeC,GAAaa,IAAK,SAAUC,GAE5D,OACIC,GAAUD,EAAQC,GAClBJ,KAAUG,EAAQH,KAElBK,IAA6C,YAAjCF,EAAQT,qBAAoC,MAAQ,SAG5E,OAAKO,GAAmBK,OAIjBjB,EAAWkB,WAAYN,EAAoB,OAAQD,IAHtDH,IACOW,OAAOC,WAAWC,OAAQZ,IAvBzC,GAAIA,GAAyB,iCA6BzB,QACIV,cAA8BA,EAC9BU,uBAA8BA,EAC9BD,0BAA8BA,EAC9BE,eAA8BA"}
\ No newline at end of file
+{"version":3,"file":"list-collection-creator.js","sources":["../../../src/mvc/collection/list-collection-creator.js"],"names":["define","HDCA","STATES","BASE_MVC","UI_MODAL","naturalSort","_l","createListCollection","contents","elements","toJSON","promise","listCollectionCreatorModal","creationFn","name","map","element","id","src","history_content_type","createHDCA","DatasetCollectionElementView","Backbone","View","extend","LoggableMixin","tagName","className","initialize","attributes","this","selected","render","$el","attr","html","template","addClass","_","join","select","toggle","toggleClass","trigger","source","hasClass","discard","view","parentWidth","parent","width","animate","margin-right","destroy","off","remove","events","click","click .name","click 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\ No newline at end of file
diff --git a/static/maps/mvc/collection/list-of-pairs-collection-creator.js.map b/static/maps/mvc/collection/list-of-pairs-collection-creator.js.map
index 2ac61225a5a..710d4449038 100644
--- a/static/maps/mvc/collection/list-of-pairs-collection-creator.js.map
+++ b/static/maps/mvc/collection/list-of-pairs-collection-creator.js.map
@@ -1 +1 @@
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\ No newline at end of file
diff --git a/static/maps/mvc/collection/pair-collection-creator.js.map b/static/maps/mvc/collection/pair-collection-creator.js.map
index f5f16aea6fa..acaf101d90e 100644
--- a/static/maps/mvc/collection/pair-collection-creator.js.map
+++ b/static/maps/mvc/collection/pair-collection-creator.js.map
@@ -1 +1 @@
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diff --git a/static/maps/mvc/history/history-panel-edit.js.map b/static/maps/mvc/history/history-panel-edit.js.map
index 4f27cc377ab..f41be6bf8e2 100644
--- a/static/maps/mvc/history/history-panel-edit.js.map
+++ b/static/maps/mvc/history/history-panel-edit.js.map
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\ No newline at end of file
diff --git a/static/maps/ui/hoverhighlight.js.map b/static/maps/ui/hoverhighlight.js.map
new file mode 100644
index 00000000000..38f74523758
--- /dev/null
+++ b/static/maps/ui/hoverhighlight.js.map
@@ -0,0 +1 @@
+{"version":3,"file":"hoverhighlight.js","sources":["../../src/ui/hoverhighlight.js"],"names":["factory","define","amd","jQuery","fn","extend","hoverhighlight","scope","color","this","size","$","each","$this","targetSelector","data","mouseover","css","background","mouseout"],"mappings":"CAAC,SAAUA,GACe,kBAAXC,SAAyBA,OAAOC,IACvCD,UAAWD,GAGXA,EAAQG,SAGd,WAGEA,OAAOC,GAAGC,QACNC,eAAiB,SAA0BC,EAAOC,GAE9C,MADAD,GAAQA,GAAS,OACZE,KAAKC,QAEVC,EAAGF,MAAOG,KAAM,WACZ,GAAIC,GAAQF,EAAGF,MACXK,EAAiBD,EAAME,KAAM,SAE7BD,IACAD,EAAMG,UAAW,WACbL,EAAGG,EAAgBP,GAAQU,KACvBC,WAAYV,MAGnBW,SAAU,WACPR,EAAGG,GAAiBG,KAChBC,WAAY,SAKrBT,MAnBoBA"}
\ No newline at end of file
diff --git a/static/scripts/mvc/collection/list-collection-creator.js b/static/scripts/mvc/collection/list-collection-creator.js
index db14a262eee..6a211d3740f 100644
--- a/static/scripts/mvc/collection/list-collection-creator.js
+++ b/static/scripts/mvc/collection/list-collection-creator.js
@@ -1,2 +1,2 @@
-define(["mvc/dataset/states","mvc/ui/error-modal","utils/localization"],function(a,b){function c(b){var c=b.toJSON().filter(function(b){return"dataset"===b.history_content_type&&b.state===a.OK});return c}function d(){b("Use the checkboxes at the left of the dataset names to select them. Selected datasets should be error-free and should have completed running.",f)}function e(a){var b="New Dataset List",e=c(a).map(function(a){return{id:a.id,name:a.name,src:"dataset"===a.history_content_type?"hda":"hdca"}});return e.length?a.createHDCA(e,"list",b):(d(),jQuery.Deferred().reject(f))}var f="No valid datasets were selected";return{validElements:c,noValidElementsMessage:f,noValidElementsErrorModal:d,createListHDCA:e}});
+define(["mvc/history/hdca-model","mvc/dataset/states","mvc/base-mvc","mvc/ui/ui-modal","utils/natural-sort","utils/localization","ui/hoverhighlight"],function(a,b,c,d,e,f){function g(a){var b=a.toJSON(),c=k(b,{creationFn:function(b,c){return b=b.map(function(a){return{id:a.id,name:a.name,src:"dataset"===a.history_content_type?"hda":"hdca"}}),a.createHDCA(b,"list",c)}});return c}var h=Backbone.View.extend(c.LoggableMixin).extend({tagName:"li",className:"collection-element",initialize:function(a){this.element=a.element||{},this.selected=a.selected||!1},render:function(){return this.$el.attr("data-element-id",this.element.id).attr("draggable",!0).html(this.template({element:this.element})),this.selected&&this.$el.addClass("selected"),this},template:_.template(['<a class="name" title="',f("Click to rename"),'" href="javascript:void(0)">',"<%= element.name %>","</a>",'<button class="discard btn btn-sm" title="',f("Remove this dataset from the list"),'">',f("Discard"),"</button>"].join("")),select:function(a){this.$el.toggleClass("selected",a),this.trigger("select",{source:this,selected:this.$el.hasClass("selected")})},discard:function(){var a=this,b=this.$el.parent().width();this.$el.animate({"margin-right":b},"fast",function(){a.trigger("discard",{source:a}),a.destroy()})},destroy:function(){this.off(),this.$el.remove()},events:{click:"_click","click .name":"_clickName","click .discard":"_clickDiscard",dragstart:"_dragstart",dragend:"_dragend",dragover:"_sendToParent",drop:"_sendToParent"},_click:function(a){a.stopPropagation(),this.select(a)},_clickName:function(a){a.stopPropagation(),a.preventDefault();var b=([f("Enter a new name for the element"),":\n(",f("Note that changing the name here will not rename the dataset"),")"].join(""),prompt(f("Enter a new name for the element")+":",this.element.name));b&&(this.element.name=b,this.render())},_clickDiscard:function(a){a.stopPropagation(),this.discard()},_dragstart:function(a){a.originalEvent&&(a=a.originalEvent),a.dataTransfer.effectAllowed="move",a.dataTransfer.setData("text/plain",JSON.stringify(this.element)),this.$el.addClass("dragging"),this.$el.parent().trigger("collection-element.dragstart",[this])},_dragend:function(){this.$el.removeClass("dragging"),this.$el.parent().trigger("collection-element.dragend",[this])},_sendToParent:function(a){this.$el.parent().trigger(a)},toString:function(){return"DatasetCollectionElementView()"}}),i=Backbone.View.extend(c.LoggableMixin).extend({elementViewClass:h,collectionClass:a.HistoryListDatasetCollection,className:"list-collection-creator collection-creator flex-row-container",minElements:1,defaultAttributes:{creationFn:function(){throw new TypeError("no creation fn for creator")},oncreate:function(){},oncancel:function(){},autoscrollDist:24,highlightClr:"rgba( 64, 255, 255, 1.0 )"},initialize:function(a){this.metric("ListCollectionCreator.initialize",a);var b=this;_.each(this.defaultAttributes,function(c,d){c=a[d]||c,b[d]=c}),b.initialElements=a.elements||[],this._instanceSetUp(),this._elementsSetUp(),this._setUpBehaviors()},_instanceSetUp:function(){this.selectedIds={},this.$dragging=null,this.blocking=!1},_elementsSetUp:function(){this.invalidElements=[],this.workingElements=[],this.elementViews=[],this.workingElements=this.initialElements.slice(0),this._ensureElementIds(),this._validateElements(),this._mangleDuplicateNames(),this._sortElements()},_ensureElementIds:function(){return this.workingElements.forEach(function(a){a.hasOwnProperty("id")||(a.id=_.uniqueId())}),this.workingElements},_validateElements:function(){var a=this;return a.invalidElements=[],this.workingElements=this.workingElements.filter(function(b){var c=a._isElementInvalid(b);return c&&a.invalidElements.push({element:b,text:c}),!c}),this.workingElements},_isElementInvalid:function(a){return"dataset"!==a.history_content_type?f("is not a dataset"):a.state!==b.OK?f(_.contains(b.NOT_READY_STATES,a.state)?"hasn't finished running yet":"has errored, is paused, or is not accessible"):a.deleted||a.purged?f("has been deleted or purged"):null},_mangleDuplicateNames:function(){var a=900,b=1,c={};this.workingElements.forEach(function(d){for(var e=d.name;c.hasOwnProperty(e);)if(e=d.name+" ("+b+")",b+=1,b>=a)throw new Error("Safety hit in while loop - thats impressive");d.name=e,c[d.name]=!0})},_sortElements:function(){},render:function(a,b){return this.workingElements.length<this.minElements?this._renderInvalid(a,b):(this.$el.empty().html(this.templates.main()),this._renderHeader(a),this._renderMiddle(a),this._renderFooter(a),this._addPluginComponents(),this.$(".collection-name").focus(),this.trigger("rendered",this),this)},_renderInvalid:function(){return this.$el.empty().html(this.templates.invalidInitial({problems:this.invalidElements,elements:this.workingElements})),"function"==typeof this.oncancel&&this.$(".cancel-create.btn").show(),this.trigger("rendered",this),this},_renderHeader:function(){var a=this.$(".header").empty().html(this.templates.header()).find(".help-content").prepend($(this.templates.helpContent()));return this.invalidElements.length&&this._invalidElementsAlert(),a},_renderMiddle:function(a){var b=this.$(".middle").empty().html(this.templates.middle());return this._renderList(a),b},_renderFooter:function(){var a=this.$(".footer").empty().html(this.templates.footer());return"function"==typeof this.oncancel&&this.$(".cancel-create.btn").show(),a},_addPluginComponents:function(){this.$(".help-content i").hoverhighlight(".collection-creator",this.highlightClr)},_invalidElementsAlert:function(){this._showAlert(this.templates.invalidElements({problems:this.invalidElements}),"alert-warning")},_validationWarning:function(a,b){var c="validation-warning";"name"===a&&(a=this.$(".collection-name").add(this.$(".collection-name-prompt")),this.$(".collection-name").focus().select()),b?(a=a||this.$("."+c),a.removeClass(c)):a.addClass(c)},_disableNameAndCreate:function(a){a=_.isUndefined(a)?!0:a,a&&(this.$(".collection-name").prop("disabled",!0),this.$(".create-collection").toggleClass("disabled",!0))},$list:function(){return this.$(".collection-elements")},_renderClearSelected:function(){_.size(this.selectedIds)?this.$(".collection-elements-controls > .clear-selected").show():this.$(".collection-elements-controls > .clear-selected").hide()},_renderList:function(){var a=this,b=jQuery("<div/>"),c=a.$list();_.each(this.elementViews,function(b){b.destroy(),a.removeElementView(b)}),a.workingElements.forEach(function(c){var d=a._createElementView(c);b.append(d.$el)}),a._renderClearSelected(),c.empty().append(b.children()),_.invoke(a.elementViews,"render"),c.height()>c.css("max-height")?c.css("border-width","1px 0px 1px 0px"):c.css("border-width","0px")},_createElementView:function(a){var b=new this.elementViewClass({element:a,selected:_.has(this.selectedIds,a.id)});return this.elementViews.push(b),this._listenToElementView(b),b},_listenToElementView:function(a){var b=this;b.listenTo(a,{select:function(a){var c=a.source.element;a.selected?b.selectedIds[c.id]=!0:delete b.selectedIds[c.id],b.trigger("elements:select",a)},discard:function(a){b.trigger("elements:discard",a)}})},addElementView:function(){},removeElementView:function(a){delete this.selectedIds[a.element.id],this._renderClearSelected(),this.elementViews=_.without(this.elementViews,a),this.stopListening(a)},_renderNoElementsLeft:function(){this._disableNameAndCreate(!0),this.$(".collection-elements").append(this.templates.noElementsLeft())},_elementToJSON:function(a){return a},createList:function(a){if(!this.workingElements.length){var b=f("No valid elements for final list")+". ";return b+='<a class="cancel-create" href="javascript:void(0);">'+f("Cancel")+"</a> ",b+=f("or"),b+=' <a class="reset" href="javascript:void(0);">'+f("start over")+"</a>.",void this._showAlert(b)}var c=this,d=this.workingElements.map(function(a){return c._elementToJSON(a)});return c.blocking=!0,c.creationFn(d,a).always(function(){c.blocking=!1}).fail(function(a,b){c.trigger("error",{xhr:a,status:b,message:f("An error occurred while creating this collection")})}).done(function(a,b,d){c.trigger("collection:created",a,b,d),c.metric("collection:created",a),"function"==typeof c.oncreate&&c.oncreate.call(this,a,b,d)})},_setUpBehaviors:function(){return this.on("error",this._errorHandler),this.once("rendered",function(){this.trigger("rendered:initial",this)}),this.on("elements:select",function(){this._renderClearSelected()}),this.on("elements:discard",function(a){var b=a.source.element;this.removeElementView(a.source),this.workingElements=_.without(this.workingElements,b),this.workingElements.length||this._renderNoElementsLeft()}),this},_errorHandler:function(a){this.error(a);var b=this;if(content=a.message||f("An error occurred"),a.xhr){var c=a.xhr,d=a.message;content+=0===c.readyState&&0===c.status?": "+f("Galaxy could not be reached and may be updating.")+f(" Try again in a few minutes."):c.responseJSON?":<br /><pre>"+JSON.stringify(c.responseJSON)+"</pre>":": "+d}b._showAlert(content,"alert-danger")},events:{"click .more-help":"_clickMoreHelp","click .less-help":"_clickLessHelp","click .main-help":"_toggleHelp","click .header .alert button":"_hideAlert","click .reset":"reset","click .clear-selected":"clearSelectedElements","click .collection-elements":"clearSelectedElements","dragover .collection-elements":"_dragoverElements","drop .collection-elements":"_dropElements","collection-element.dragstart .collection-elements":"_elementDragstart","collection-element.dragend   .collection-elements":"_elementDragend","change .collection-name":"_changeName","keydown .collection-name":"_nameCheckForEnter","click .cancel-create":function(){"function"==typeof this.oncancel&&this.oncancel.call(this)},"click .create-collection":"_clickCreate"},_clickMoreHelp:function(a){a.stopPropagation(),this.$(".main-help").addClass("expanded"),this.$(".more-help").hide()},_clickLessHelp:function(a){a.stopPropagation(),this.$(".main-help").removeClass("expanded"),this.$(".more-help").show()},_toggleHelp:function(a){a.stopPropagation(),this.$(".main-help").toggleClass("expanded"),this.$(".more-help").toggle()},_showAlert:function(a,b){b=b||"alert-danger",this.$(".main-help").hide(),this.$(".header .alert").attr("class","alert alert-dismissable").addClass(b).show().find(".alert-message").html(a)},_hideAlert:function(){this.$(".main-help").show(),this.$(".header .alert").hide()},reset:function(){this._instanceSetUp(),this._elementsSetUp(),this.render()},clearSelectedElements:function(){this.$(".collection-elements .collection-element").removeClass("selected"),this.$(".collection-elements-controls > .clear-selected").hide()},_dragoverElements:function(a){a.preventDefault();var b=this.$list();this._checkForAutoscroll(b,a.originalEvent.clientY);var c=this._getNearestElement(a.originalEvent.clientY);this.$(".element-drop-placeholder").remove();var d=$('<div class="element-drop-placeholder"></div>');c.size()?c.before(d):b.append(d)},_checkForAutoscroll:function(a,b){var c=2,d=a.offset(),e=a.scrollTop(),f=b-d.top,g=d.top+a.outerHeight()-b;f>=0&&f<this.autoscrollDist?a.scrollTop(e-c):g>=0&&g<this.autoscrollDist&&a.scrollTop(e+c)},_getNearestElement:function(a){for(var b=4,c=this.$(".collection-elements li.collection-element").toArray(),d=0;d<c.length;d++){var e=$(c[d]),f=e.offset().top,g=Math.floor(e.outerHeight()/2)+b;if(f+g>a&&a>f-g)return e}return $()},_dropElements:function(a){a.originalEvent&&(a=a.originalEvent),a.preventDefault(),a.dataTransfer.dropEffect="move";var b=this._getNearestElement(a.clientY);return b.size()?this.$dragging.insertBefore(b):this.$dragging.insertAfter(this.$(".collection-elements .collection-element").last()),this._syncOrderToDom(),!1},_syncOrderToDom:function(){var a=this,b=[];this.$(".collection-elements .collection-element").each(function(){var c=$(this).attr("data-element-id"),d=_.findWhere(a.workingElements,{id:c});d?b.push(d):console.error("missing element: ",c)}),this.workingElements=b,this._renderList()},_elementDragstart:function(a,b){b.select(!0),this.$dragging=this.$(".collection-elements .collection-element.selected")},_elementDragend:function(){$(".element-drop-placeholder").remove(),this.$dragging=null},_changeName:function(){this._validationWarning("name",!!this._getName())},_nameCheckForEnter:function(a){13!==a.keyCode||this.blocking||this._clickCreate()},_getName:function(){return _.escape(this.$(".collection-name").val())},_clickCreate:function(){var a=this._getName();a?this.blocking||this.createList(a):this._validationWarning("name")},templates:{main:_.template(['<div class="header flex-row no-flex"></div>','<div class="middle flex-row flex-row-container"></div>','<div class="footer flex-row no-flex"></div>'].join("")),header:_.template(['<div class="main-help well clear">','<a class="more-help" href="javascript:void(0);">',f("More help"),"</a>",'<div class="help-content">','<a class="less-help" href="javascript:void(0);">',f("Less"),"</a>","</div>","</div>",'<div class="alert alert-dismissable">','<button type="button" class="close" data-dismiss="alert" ','title="',f("Close and show more help"),'" aria-hidden="true">&times;</button>','<span class="alert-message"></span>',"</div>"].join("")),middle:_.template(['<div class="collection-elements-controls">','<a class="reset" href="javascript:void(0);" ','title="',f("Undo all reordering and discards"),'">',f("Start over"),"</a>",'<a class="clear-selected" href="javascript:void(0);" ','title="',f("De-select all selected datasets"),'">',f("Clear selected"),"</a>","</div>",'<div class="collection-elements scroll-container flex-row">',"</div>"].join("")),footer:_.template(['<div class="attributes clear">','<div class="clear">','<input class="collection-name form-control pull-right" ','placeholder="',f("Enter a name for your new collection"),'" />','<div class="collection-name-prompt pull-right">',f("Name"),":</div>","</div>","</div>",'<div class="actions clear vertically-spaced">','<div class="other-options pull-left">','<button class="cancel-create btn" tabindex="-1">',f("Cancel"),"</button>",'<div class="create-other btn-group dropup">','<button class="btn btn-default dropdown-toggle" data-toggle="dropdown">',f("Create a different kind of collection"),' <span class="caret"></span>',"</button>",'<ul class="dropdown-menu" role="menu">','<li><a href="#">',f("Create a <i>single</i> pair"),"</a></li>",'<li><a href="#">',f("Create a list of <i>unpaired</i> datasets"),"</a></li>","</ul>","</div>","</div>",'<div class="main-options pull-right">','<button class="create-collection btn btn-primary">',f("Create list"),"</button>","</div>","</div>"].join("")),helpContent:_.template(["<p>",f(["Collections of datasets are permanent, ordered lists of datasets that can be passed to tools and ","workflows in order to have analyses done on each member of the entire group. This interface allows ","you to create a collection and re-order the final collection."].join("")),"</p>","<ul>","<li>",f(["Rename elements in the list by clicking on ",'<i data-target=".collection-element .name">the existing name</i>.'].join("")),"</li>","<li>",f(["Discard elements from the final created list by clicking on the ",'<i data-target=".collection-element .discard">"Discard"</i> button.'].join("")),"</li>","<li>",f(["Reorder the list by clicking and dragging elements. Select multiple elements by clicking on ",'<i data-target=".collection-element">them</i> and you can then move those selected by dragging the ',"entire group. Deselect them by clicking them again or by clicking the ",'the <i data-target=".clear-selected">"Clear selected"</i> link.'].join("")),"</li>","<li>",f(['Click the <i data-target=".reset">"Start over"</i> link to begin again as if you had just opened ',"the interface."].join("")),"</li>","<li>",f(['Click the <i data-target=".cancel-create">"Cancel"</i> button to exit the interface.'].join("")),"</li>","</ul><br />","<p>",f(['Once your collection is complete, enter a <i data-target=".collection-name">name</i> and ','click <i data-target=".create-collection">"Create list"</i>.'].join("")),"</p>"].join("")),invalidElements:_.template([f("The following selections could not be included due to problems:"),"<ul><% _.each( problems, function( problem ){ %>","<li><b><%= problem.element.name %></b>: <%= problem.text %></li>","<% }); %></ul>"].join("")),noElementsLeft:_.template(['<li class="no-elements-left-message">',f("No elements left! "),f("Would you like to "),'<a class="reset" href="javascript:void(0)">',f("start over"),"</a>?","</li>"].join("")),invalidInitial:_.template(['<div class="header flex-row no-flex">','<div class="alert alert-warning" style="display: block">','<span class="alert-message">',"<% if( _.size( problems ) ){ %>",f("The following selections could not be included due to problems"),":","<ul><% _.each( problems, function( problem ){ %>","<li><b><%= problem.element.name %></b>: <%= problem.text %></li>","<% }); %></ul>","<% } else if( _.size( elements ) < 1 ){ %>",f("No datasets were selected"),".","<% } %>","<br />",f("At least one element is needed for the collection"),". ",f("You may need to "),'<a class="cancel-create" href="javascript:void(0)">',f("cancel"),"</a> ",f("and reselect new elements"),".","</span>","</div>","</div>",'<div class="footer flex-row no-flex">','<div class="actions clear vertically-spaced">','<div class="other-options pull-left">','<button class="cancel-create btn" tabindex="-1">',f("Cancel"),"</button>","</div>","</div>","</div>"].join(""))},toString:function(){return"ListCollectionCreator"}}),j=function(a,b,c){var e,g=jQuery.Deferred(),h=Galaxy.modal||new d.View;return b=_.defaults(b||{},{elements:a,oncancel:function(){h.hide(),g.reject("cancelled")},oncreate:function(a,b){h.hide(),g.resolve(b)}}),e=new c(b),h.show({title:b.title||f("Create a collection"),body:e.$el,width:"80%",height:"min-content",closing_events:!0}),e.render(),window._collectionCreator=e,g},k=function(a,b){return b=b||{},b.title=f("Create a collection from a list of datasets"),j(a,b,i)};return{DatasetCollectionElementView:h,ListCollectionCreator:i,collectionCreatorModal:j,listCollectionCreatorModal:k,createListCollection:g}});
 //# sourceMappingURL=../../../maps/mvc/collection/list-collection-creator.js.map
\ No newline at end of file
diff --git a/static/scripts/mvc/collection/list-of-pairs-collection-creator.js b/static/scripts/mvc/collection/list-of-pairs-collection-creator.js
index 33f1c0d2907..5ed501e2a84 100644
--- a/static/scripts/mvc/collection/list-of-pairs-collection-creator.js
+++ b/static/scripts/mvc/collection/list-of-pairs-collection-creator.js
@@ -1,2 +1,2 @@
-define(["utils/levenshtein","utils/natural-sort","mvc/collection/list-collection-creator","mvc/base-mvc","utils/localization"],function(a,b,c,d,e){function f(a){function b(){return c.length||(c=[new RegExp(this.filters[0]),new RegExp(this.filters[1])]),c}a=a||{},a.createPair=a.createPair||function(a){return this.debug("creating pair:",a.listA[a.indexA].name,a.listB[a.indexB].name),a=a||{},this._pair(a.listA.splice(a.indexA,1)[0],a.listB.splice(a.indexB,1)[0],{silent:!0})};var c=[];return a.preprocessMatch=a.preprocessMatch||function(a){var c=b.call(this);return _.extend(a,{matchTo:a.matchTo.name.replace(c[0],""),possible:a.possible.name.replace(c[1],"")})},function(b){this.debug("autopair _strategy ---------------------------"),b=b||{};var c,d=b.listA,e=b.listB,f=0,g={score:0,index:null},h=[];for(this.debug("starting list lens:",d.length,e.length),this.debug("bestMatch (starting):",JSON.stringify(g,null,"  "));f<d.length;){var i=d[f];for(g.score=0,c=0;c<e.length;c++){var j=e[c];if(this.debug(f+":"+i.name),this.debug(c+":"+j.name),d[f]!==e[c]&&(g=a.match.call(this,a.preprocessMatch.call(this,{matchTo:i,possible:j,index:c,bestMatch:g})),this.debug("bestMatch:",JSON.stringify(g,null,"  ")),1===g.score)){this.debug("breaking early due to perfect match");break}}var k=a.scoreThreshold.call(this);if(this.debug("scoreThreshold:",k),this.debug("bestMatch.score:",g.score),g.score>=k?(this.debug("creating pair"),h.push(a.createPair.call(this,{listA:d,indexA:f,listB:e,indexB:g.index})),this.debug("list lens now:",d.length,e.length)):f+=1,!d.length||!e.length)return h}return this.debug("paired:",JSON.stringify(h,null,"  ")),this.debug("autopair _strategy ---------------------------"),h}}function g(a){var b=c.validElements(a);return b.length?j(b,{historyId:a.historyId}):(c.noValidElementsErrorModal(),jQuery.Deferred().reject(c.noValidElementsMessage))}var h=Backbone.View.extend(d.LoggableMixin).extend({tagName:"li",className:"dataset paired",initialize:function(a){this.pair=a.pair||{}},template:_.template(['<span class="forward-dataset-name flex-column"><%= pair.forward.name %></span>','<span class="pair-name-column flex-column">','<span class="pair-name"><%= pair.name %></span>',"</span>",'<span class="reverse-dataset-name flex-column"><%= pair.reverse.name %></span>'].join("")),render:function(){return this.$el.attr("draggable",!0).data("pair",this.pair).html(this.template({pair:this.pair})).addClass("flex-column-container"),this},events:{dragstart:"_dragstart",dragend:"_dragend",dragover:"_sendToParent",drop:"_sendToParent"},_dragstart:function(a){a.currentTarget.style.opacity="0.4",a.originalEvent&&(a=a.originalEvent),a.dataTransfer.effectAllowed="move",a.dataTransfer.setData("text/plain",JSON.stringify(this.pair)),this.$el.parent().trigger("pair.dragstart",[this])},_dragend:function(a){a.currentTarget.style.opacity="1.0",this.$el.parent().trigger("pair.dragend",[this])},_sendToParent:function(a){this.$el.parent().trigger(a)},toString:function(){return"PairView("+this.pair.name+")"}}),i=Backbone.View.extend(d.LoggableMixin).extend({className:"collection-creator flex-row-container",initialize:function(a){this.metric("PairedCollectionCreator.initialize",a),a=_.defaults(a,{datasets:[],filters:this.DEFAULT_FILTERS,automaticallyPair:!0,strategy:"lcs",matchPercentage:.9,twoPassAutopairing:!0}),this.initialList=a.datasets,this.historyId=a.historyId,this.filters=this.commonFilters[a.filters]||this.commonFilters[this.DEFAULT_FILTERS],_.isArray(a.filters)&&(this.filters=a.filters),this.automaticallyPair=a.automaticallyPair,this.strategy=this.strategies[a.strategy]||this.strategies[this.DEFAULT_STRATEGY],_.isFunction(a.strategy)&&(this.strategy=a.strategy),this.matchPercentage=a.matchPercentage,this.twoPassAutopairing=a.twoPassAutopairing,this.removeExtensions=!0,this.oncancel=a.oncancel,this.oncreate=a.oncreate,this.autoscrollDist=a.autoscrollDist||24,this.unpairedPanelHidden=!1,this.pairedPanelHidden=!1,this.$dragging=null,this.blocking=!1,this._setUpBehaviors(),this._dataSetUp()},commonFilters:{illumina:["_1","_2"],Rs:["_R1","_R2"]},DEFAULT_FILTERS:"illumina",strategies:{simple:"autopairSimple",lcs:"autopairLCS",levenshtein:"autopairLevenshtein"},DEFAULT_STRATEGY:"lcs",_dataSetUp:function(){this.paired=[],this.unpaired=[],this.selectedIds=[],this._sortInitialList(),this._ensureIds(),this.unpaired=this.initialList.slice(0),this.automaticallyPair&&(this.autoPair(),this.once("rendered:initial",function(){this.trigger("autopair")}))},_sortInitialList:function(){this._sortDatasetList(this.initialList)},_sortDatasetList:function(a){return a.sort(function(a,c){return b(a.name,c.name)}),a},_ensureIds:function(){return this.initialList.forEach(function(a){a.hasOwnProperty("id")||(a.id=_.uniqueId())}),this.initialList},_splitByFilters:function(){function a(a,b){return b.test(a.name)}var b=this.filters.map(function(a){return new RegExp(a)}),c=[[],[]];return this.unpaired.forEach(function(d){b.forEach(function(b,e){a(d,b)&&c[e].push(d)})}),c},_addToUnpaired:function(a){var c=function(d,e){if(d===e)return d;var f=Math.floor((e-d)/2)+d,g=b(a.name,this.unpaired[f].name);if(0>g)return c(d,f);if(g>0)return c(f+1,e);for(;this.unpaired[f]&&this.unpaired[f].name===a.name;)f++;return f}.bind(this);this.unpaired.splice(c(0,this.unpaired.length),0,a)},autoPair:function(a){var b=this._splitByFilters(),c=[];return this.twoPassAutopairing&&(c=this.autopairSimple({listA:b[0],listB:b[1]}),b=this._splitByFilters()),a=a||this.strategy,b=this._splitByFilters(),c=c.concat(this[a].call(this,{listA:b[0],listB:b[1]}))},autopairSimple:f({scoreThreshold:function(){return 1},match:function(a){return a=a||{},a.matchTo===a.possible?{index:a.index,score:1}:a.bestMatch}}),autopairLevenshtein:f({scoreThreshold:function(){return this.matchPercentage},match:function(b){b=b||{};var c=a(b.matchTo,b.possible),d=1-c/Math.max(b.matchTo.length,b.possible.length);return d>b.bestMatch.score?{index:b.index,score:d}:b.bestMatch}}),autopairLCS:f({scoreThreshold:function(){return this.matchPercentage},match:function(a){a=a||{};var b=this._naiveStartingAndEndingLCS(a.matchTo,a.possible).length,c=b/Math.max(a.matchTo.length,a.possible.length);return c>a.bestMatch.score?{index:a.index,score:c}:a.bestMatch}}),_naiveStartingAndEndingLCS:function(a,b){for(var c="",d="",e=0,f=0;e<a.length&&e<b.length&&a[e]===b[e];)c+=a[e],e+=1;if(e===a.length)return a;if(e===b.length)return b;for(e=a.length-1,f=b.length-1;e>=0&&f>=0&&a[e]===b[f];)d=[a[e],d].join(""),e-=1,f-=1;return c+d},_pair:function(a,b,c){c=c||{};var d=this._createPair(a,b,c.name);return this.paired.push(d),this.unpaired=_.without(this.unpaired,a,b),c.silent||this.trigger("pair:new",d),d},_createPair:function(a,b,c){if(!a||!b||a===b)throw new Error("Bad pairing: "+[JSON.stringify(a),JSON.stringify(b)]);return c=c||this._guessNameForPair(a,b),{forward:a,name:c,reverse:b}},_guessNameForPair:function(a,b,c){c=void 0!==c?c:this.removeExtensions;var d=a.name,e=b.name,f=this._naiveStartingAndEndingLCS(d.replace(this.filters[0],""),e.replace(this.filters[1],""));if(c){var g=f.lastIndexOf(".");if(g>0){var h=f.slice(g,f.length);f=f.replace(h,""),d=d.replace(h,""),e=e.replace(h,"")}}return f||d+" & "+e},_unpair:function(a,b){if(b=b||{},!a)throw new Error("Bad pair: "+JSON.stringify(a));return this.paired=_.without(this.paired,a),this._addToUnpaired(a.forward),this._addToUnpaired(a.reverse),b.silent||this.trigger("pair:unpair",[a]),a},unpairAll:function(){for(var a=[];this.paired.length;)a.push(this._unpair(this.paired[0],{silent:!0}));this.trigger("pair:unpair",a)},_pairToJSON:function(a,b){return b=b||"hda",{collection_type:"paired",src:"new_collection",name:a.name,element_identifiers:[{name:"forward",id:a.forward.id,src:b},{name:"reverse",id:a.reverse.id,src:b}]}},createList:function(a){var b=this,c="/api/histories/"+this.historyId+"/contents/dataset_collections",d={type:"dataset_collection",collection_type:"list:paired",name:_.escape(a||b.$(".collection-name").val()),element_identifiers:b.paired.map(function(a){return b._pairToJSON(a)})};return b.blocking=!0,jQuery.ajax(c,{type:"POST",contentType:"application/json",dataType:"json",data:JSON.stringify(d)}).always(function(){b.blocking=!1}).fail(function(a,c,d){b._ajaxErrHandler(a,c,d)}).done(function(a,c,d){b.trigger("collection:created",a,c,d),b.metric("collection:created",a),"function"==typeof b.oncreate&&b.oncreate.call(this,a,c,d)})},_ajaxErrHandler:function(a,b,c){this.error(a,b,c);var d=e("An error occurred while creating this collection");a&&(d+=0===a.readyState&&0===a.status?": "+e("Galaxy could not be reached and may be updating.")+e(" Try again in a few minutes."):a.responseJSON?"<br /><pre>"+JSON.stringify(a.responseJSON)+"</pre>":": "+c),creator._showAlert(d,"alert-danger")},render:function(a){return this.$el.empty().html(i.templates.main()),this._renderHeader(a),this._renderMiddle(a),this._renderFooter(a),this._addPluginComponents(),this.trigger("rendered",this),this},_renderHeader:function(){var a=this.$(".header").empty().html(i.templates.header()).find(".help-content").prepend($(i.templates.helpContent()));return this._renderFilters(),a},_renderFilters:function(){return this.$(".forward-column .column-header input").val(this.filters[0]).add(this.$(".reverse-column .column-header input").val(this.filters[1]))},_renderMiddle:function(){var a=this.$(".middle").empty().html(i.templates.middle());return this.unpairedPanelHidden?this.$(".unpaired-columns").hide():this.pairedPanelHidden&&this.$(".paired-columns").hide(),this._renderUnpaired(),this._renderPaired(),a},_renderUnpaired:function(){var a,b,c=this,d=[],f=this._splitByFilters();return this.$(".forward-column .title").text([f[0].length,e("unpaired forward")].join(" ")),this.$(".forward-column .unpaired-info").text(this._renderUnpairedDisplayStr(this.unpaired.length-f[0].length)),this.$(".reverse-column .title").text([f[1].length,e("unpaired reverse")].join(" ")),this.$(".reverse-column .unpaired-info").text(this._renderUnpairedDisplayStr(this.unpaired.length-f[1].length)),this.$(".unpaired-columns .column-datasets").empty(),this.$(".autopair-link").toggle(0!==this.unpaired.length),0===this.unpaired.length?void this._renderUnpairedEmpty():(b=f[1].map(function(a,b){return void 0!==f[0][b]&&f[0][b]!==a&&d.push(c._renderPairButton()),c._renderUnpairedDataset(a)}),a=f[0].map(function(a){return c._renderUnpairedDataset(a)}),a.length||b.length?(this.$(".unpaired-columns .forward-column .column-datasets").append(a).add(this.$(".unpaired-columns .paired-column .column-datasets").append(d)).add(this.$(".unpaired-columns .reverse-column .column-datasets").append(b)),void this._adjUnpairedOnScrollbar()):void this._renderUnpairedNotShown())},_renderUnpairedDisplayStr:function(a){return["(",a," ",e("filtered out"),")"].join("")},_renderUnpairedDataset:function(a){return $("<li/>").attr("id","dataset-"+a.id).addClass("dataset unpaired").attr("draggable",!0).addClass(a.selected?"selected":"").append($("<span/>").addClass("dataset-name").text(a.name)).data("dataset",a)},_renderPairButton:function(){return $("<li/>").addClass("dataset unpaired").append($("<span/>").addClass("dataset-name").text(e("Pair these datasets")))},_renderUnpairedEmpty:function(){var a=$('<div class="empty-message"></div>').text("("+e("no remaining unpaired datasets")+")");return this.$(".unpaired-columns .paired-column .column-datasets").empty().prepend(a),a},_renderUnpairedNotShown:function(){var a=$('<div class="empty-message"></div>').text("("+e("no datasets were found matching the current filters")+")");return this.$(".unpaired-columns .paired-column .column-datasets").empty().prepend(a),a},_adjUnpairedOnScrollbar:function(){var a=this.$(".unpaired-columns").last(),b=this.$(".unpaired-columns .reverse-column .dataset").first();if(b.size()){var c=a.offset().left+a.outerWidth(),d=b.offset().left+b.outerWidth(),e=Math.floor(c)-Math.floor(d);this.$(".unpaired-columns .forward-column").css("margin-left",e>0?e:0)}},_renderPaired:function(){if(this.$(".paired-column-title .title").text([this.paired.length,e("paired")].join(" ")),this.$(".unpair-all-link").toggle(0!==this.paired.length),0===this.paired.length)return void this._renderPairedEmpty();this.$(".remove-extensions-link").show(),this.$(".paired-columns .column-datasets").empty();var a=this;this.paired.forEach(function(b){var c=new h({pair:b});a.$(".paired-columns .column-datasets").append(c.render().$el).append(['<button class="unpair-btn">','<span class="fa fa-unlink" title="',e("Unpair"),'"></span>',"</button>"].join(""))})},_renderPairedEmpty:function(){var a=$('<div class="empty-message"></div>').text("("+e("no paired datasets yet")+")");return this.$(".paired-columns .column-datasets").empty().prepend(a),a},_renderFooter:function(){var a=this.$(".footer").empty().html(i.templates.footer());return this.$(".remove-extensions").prop("checked",this.removeExtensions),"function"==typeof this.oncancel&&this.$(".cancel-create.btn").show(),a},_addPluginComponents:function(){this._chooseFiltersPopover(".choose-filters-link"),this.$(".help-content i").hoverhighlight(".collection-creator","rgba( 64, 255, 255, 1.0 )")},_chooseFiltersPopover:function(a){function b(a,b){return['<button class="filter-choice btn" ','data-forward="',a,'" data-reverse="',b,'">',e("Forward"),": ",a,", ",e("Reverse"),": ",b,"</button>"].join("")}var c=$(_.template(['<div class="choose-filters">','<div class="help">',e("Choose from the following filters to change which unpaired reads are shown in the display"),":</div>",_.values(this.commonFilters).map(function(a){return b(a[0],a[1])}).join(""),"</div>"].join(""))({}));return this.$(a).popover({container:".collection-creator",placement:"bottom",html:!0,content:c})},_validationWarning:function(a,b){var c="validation-warning";"name"===a&&(a=this.$(".collection-name").add(this.$(".collection-name-prompt")),this.$(".collection-name").focus().select()),b?(a=a||this.$("."+c),a.removeClass(c)):a.addClass(c)},_setUpBehaviors:function(){return this.once("rendered",function(){this.trigger("rendered:initial",this)}),this.on("pair:new",function(){this._renderUnpaired(),this._renderPaired(),this.$(".paired-columns").scrollTop(8e6)}),this.on("pair:unpair",function(){this._renderUnpaired(),this._renderPaired(),this.splitView()}),this.on("filter-change",function(){this.filters=[this.$(".forward-unpaired-filter input").val(),this.$(".reverse-unpaired-filter input").val()],this.metric("filter-change",this.filters),this._renderFilters(),this._renderUnpaired()}),this.on("autopair",function(){this._renderUnpaired(),this._renderPaired();var a,b=null;this.paired.length?(b="alert-success",a=this.paired.length+" "+e("pairs created"),this.unpaired.length||(a+=": "+e("all datasets have been successfully 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.cancel-create":function(){"function"==typeof this.oncancel&&this.oncancel.call(this)},"click .create-collection":"_clickCreate"},_clickMoreHelp:function(){this.$(".main-help").addClass("expanded"),this.$(".more-help").hide()},_clickLessHelp:function(){this.$(".main-help").removeClass("expanded"),this.$(".more-help").show()},_showAlert:function(a,b){b=b||"alert-danger",this.$(".main-help").hide(),this.$(".header .alert").attr("class","alert alert-dismissable").addClass(b).show().find(".alert-message").html(a)},_hideAlert:function(){this.$(".main-help").show(),this.$(".header .alert").hide()},_clickShowOnlyUnpaired:function(){this.$(".paired-columns").is(":visible")?this.hidePaired():this.splitView()},_clickShowOnlyPaired:function(){this.$(".unpaired-columns").is(":visible")?this.hideUnpaired():this.splitView()},hideUnpaired:function(a,b){this.unpairedPanelHidden=!0,this.pairedPanelHidden=!1,this._renderMiddle(a,b)},hidePaired:function(a,b){this.unpairedPanelHidden=!1,this.pairedPanelHidden=!0,this._renderMiddle(a,b)},splitView:function(a,b){return this.unpairedPanelHidden=this.pairedPanelHidden=!1,this._renderMiddle(a,b),this},_clickUnpairAll:function(){this.metric("unpairAll"),this.unpairAll()},_clickAutopair:function(){var a=this.autoPair();this.metric("autopair",a.length,this.unpaired.length),this.trigger("autopair")},_clickFilterChoice:function(a){var b=$(a.currentTarget);this.$(".forward-unpaired-filter input").val(b.data("forward")),this.$(".reverse-unpaired-filter 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pull-right" ','placeholder="',e("Enter a name for your new list"),'" />','<div class="collection-name-prompt pull-right">',e("Name"),":</div>","</div>","</div>",'<div class="actions clear vertically-spaced">','<div class="other-options pull-left">','<button class="cancel-create btn" tabindex="-1">',e("Cancel"),"</button>",'<div class="create-other btn-group dropup">','<button class="btn btn-default dropdown-toggle" data-toggle="dropdown">',e("Create a different kind of collection"),' <span class="caret"></span>',"</button>",'<ul class="dropdown-menu" role="menu">','<li><a href="#">',e("Create a <i>single</i> pair"),"</a></li>",'<li><a href="#">',e("Create a list of <i>unpaired</i> datasets"),"</a></li>","</ul>","</div>","</div>",'<div class="main-options pull-right">','<button class="create-collection btn btn-primary">',e("Create list"),"</button>","</div>","</div>"].join("")),helpContent:_.template(["<p>",e(["Collections of paired datasets are ordered lists of dataset pairs (often forward and reverse reads). ","These collections can be passed to tools and workflows in order to have analyses done on each member of ","the entire group. This interface allows you to create a collection, choose which datasets are paired, ","and re-order the final collection."].join("")),"</p>","<p>",e(['Unpaired datasets are shown in the <i data-target=".unpaired-columns">unpaired section</i> ',"(hover over the underlined words to highlight below). ",'Paired datasets are shown in the <i data-target=".paired-columns">paired section</i>.',"<ul>To pair datasets, you can:","<li>Click a dataset in the ",'<i data-target=".unpaired-columns .forward-column .column-datasets,','.unpaired-columns .forward-column">forward column</i> ',"to select it then click a dataset in the ",'<i data-target=".unpaired-columns .reverse-column .column-datasets,','.unpaired-columns .reverse-column">reverse column</i>.',"</li>",'<li>Click one of the "Pair these datasets" buttons in the ','<i data-target=".unpaired-columns .paired-column .column-datasets,','.unpaired-columns .paired-column">middle column</i> ',"to pair the datasets in a particular row.","</li>",'<li>Click <i data-target=".autopair-link">"Auto-pair"</i> ',"to have your datasets automatically paired based on name.","</li>","</ul>"].join("")),"</p>","<p>",e(["<ul>You can filter what is shown in the unpaired sections by:","<li>Entering partial dataset names in either the ",'<i data-target=".forward-unpaired-filter input">forward filter</i> or ','<i data-target=".reverse-unpaired-filter input">reverse filter</i>.',"</li>","<li>Choosing from a list of preset filters by clicking the ",'<i data-target=".choose-filters-link">"Choose filters" link</i>.',"</li>","<li>Entering regular expressions to match dataset names. See: ",'<a href="https://developer.mozilla.org/en-US/docs/Web/JavaScript/Guide/Regular_Expressions"',' target="_blank">MDN\'s JavaScript Regular Expression Tutorial</a>. ',"Note: forward slashes (\\) are not needed.","</li>","<li>Clearing the filters by clicking the ",'<i data-target=".clear-filters-link">"Clear filters" link</i>.',"</li>","</ul>"].join("")),"</p>","<p>",e(["To unpair individual dataset pairs, click the ",'<i data-target=".unpair-btn">unpair buttons ( <span class="fa fa-unlink"></span> )</i>. ','Click the <i data-target=".unpair-all-link">"Unpair all" link</i> to unpair all pairs.'].join("")),"</p>","<p>",e(['You can include or remove the file extensions (e.g. ".fastq") from your pair names by toggling the ','<i data-target=".remove-extensions-prompt">"Remove file extensions from pair names?"</i> control.'].join("")),"</p>","<p>",e(['Once your collection is complete, enter a <i data-target=".collection-name">name</i> and ','click <i data-target=".create-collection">"Create list"</i>. ',"(Note: you do not have to pair all unpaired datasets to finish.)"].join("")),"</p>"].join(""))},function(){jQuery.fn.extend({hoverhighlight:function(a,b){return a=a||"body",this.size()?($(this).each(function(){var c=$(this),d=c.data("target");d&&c.mouseover(function(){$(d,a).css({background:b})}).mouseout(function(){$(d).css({background:""})})}),this):this}})}();var j=function(a,b){var c,d=jQuery.Deferred();if(b=_.defaults(b||{},{datasets:a,oncancel:function(){Galaxy.modal.hide(),d.reject("cancelled")},oncreate:function(a,b){Galaxy.modal.hide(),d.resolve(b)}}),!window.Galaxy||!Galaxy.modal)throw new Error("Galaxy or Galaxy.modal not found");return c=new i(b),Galaxy.modal.show({title:"Create a collection of paired datasets",body:c.$el,width:"80%",height:"800px",closing_events:!0}),c.render(),window.creator=c,d};return{PairedCollectionCreator:i,pairedCollectionCreatorModal:j,createListOfPairsCollection:g}});
+define(["utils/levenshtein","utils/natural-sort","mvc/collection/list-collection-creator","mvc/base-mvc","utils/localization","ui/hoverhighlight"],function(a,b,c,d,e){function f(a){function b(){return c.length||(c=[new RegExp(this.filters[0]),new RegExp(this.filters[1])]),c}a=a||{},a.createPair=a.createPair||function(a){return this.debug("creating pair:",a.listA[a.indexA].name,a.listB[a.indexB].name),a=a||{},this._pair(a.listA.splice(a.indexA,1)[0],a.listB.splice(a.indexB,1)[0],{silent:!0})};var c=[];return a.preprocessMatch=a.preprocessMatch||function(a){var c=b.call(this);return _.extend(a,{matchTo:a.matchTo.name.replace(c[0],""),possible:a.possible.name.replace(c[1],"")})},function(b){this.debug("autopair _strategy ---------------------------"),b=b||{};var c,d=b.listA,e=b.listB,f=0,g={score:0,index:null},h=[];for(this.debug("starting list lens:",d.length,e.length),this.debug("bestMatch (starting):",JSON.stringify(g,null,"  "));f<d.length;){var i=d[f];for(g.score=0,c=0;c<e.length;c++){var j=e[c];if(this.debug(f+":"+i.name),this.debug(c+":"+j.name),d[f]!==e[c]&&(g=a.match.call(this,a.preprocessMatch.call(this,{matchTo:i,possible:j,index:c,bestMatch:g})),this.debug("bestMatch:",JSON.stringify(g,null,"  ")),1===g.score)){this.debug("breaking early due to perfect match");break}}var k=a.scoreThreshold.call(this);if(this.debug("scoreThreshold:",k),this.debug("bestMatch.score:",g.score),g.score>=k?(this.debug("creating pair"),h.push(a.createPair.call(this,{listA:d,indexA:f,listB:e,indexB:g.index})),this.debug("list lens now:",d.length,e.length)):f+=1,!d.length||!e.length)return h}return this.debug("paired:",JSON.stringify(h,null,"  ")),this.debug("autopair _strategy ---------------------------"),h}}function g(a){var b=a.toJSON();return j(b,{historyId:a.historyId})}var h=Backbone.View.extend(d.LoggableMixin).extend({tagName:"li",className:"dataset paired",initialize:function(a){this.pair=a.pair||{}},template:_.template(['<span class="forward-dataset-name flex-column"><%= pair.forward.name %></span>','<span class="pair-name-column flex-column">','<span class="pair-name"><%= pair.name %></span>',"</span>",'<span class="reverse-dataset-name flex-column"><%= pair.reverse.name %></span>'].join("")),render:function(){return this.$el.attr("draggable",!0).data("pair",this.pair).html(this.template({pair:this.pair})).addClass("flex-column-container"),this},events:{dragstart:"_dragstart",dragend:"_dragend",dragover:"_sendToParent",drop:"_sendToParent"},_dragstart:function(a){a.currentTarget.style.opacity="0.4",a.originalEvent&&(a=a.originalEvent),a.dataTransfer.effectAllowed="move",a.dataTransfer.setData("text/plain",JSON.stringify(this.pair)),this.$el.parent().trigger("pair.dragstart",[this])},_dragend:function(a){a.currentTarget.style.opacity="1.0",this.$el.parent().trigger("pair.dragend",[this])},_sendToParent:function(a){this.$el.parent().trigger(a)},toString:function(){return"PairView("+this.pair.name+")"}}),i=Backbone.View.extend(d.LoggableMixin).extend({className:"list-of-pairs-collection-creator collection-creator flex-row-container",initialize:function(a){this.metric("PairedCollectionCreator.initialize",a),a=_.defaults(a,{datasets:[],filters:this.DEFAULT_FILTERS,automaticallyPair:!0,strategy:"lcs",matchPercentage:.9,twoPassAutopairing:!0}),this.initialList=a.datasets,this.historyId=a.historyId,this.filters=this.commonFilters[a.filters]||this.commonFilters[this.DEFAULT_FILTERS],_.isArray(a.filters)&&(this.filters=a.filters),this.automaticallyPair=a.automaticallyPair,this.strategy=this.strategies[a.strategy]||this.strategies[this.DEFAULT_STRATEGY],_.isFunction(a.strategy)&&(this.strategy=a.strategy),this.matchPercentage=a.matchPercentage,this.twoPassAutopairing=a.twoPassAutopairing,this.removeExtensions=!0,this.oncancel=a.oncancel,this.oncreate=a.oncreate,this.autoscrollDist=a.autoscrollDist||24,this.unpairedPanelHidden=!1,this.pairedPanelHidden=!1,this.$dragging=null,this.blocking=!1,this._setUpBehaviors(),this._dataSetUp()},commonFilters:{illumina:["_1","_2"],Rs:["_R1","_R2"]},DEFAULT_FILTERS:"illumina",strategies:{simple:"autopairSimple",lcs:"autopairLCS",levenshtein:"autopairLevenshtein"},DEFAULT_STRATEGY:"lcs",_dataSetUp:function(){this.paired=[],this.unpaired=[],this.selectedIds=[],this._sortInitialList(),this._ensureIds(),this.unpaired=this.initialList.slice(0),this.automaticallyPair&&(this.autoPair(),this.once("rendered:initial",function(){this.trigger("autopair")}))},_sortInitialList:function(){this._sortDatasetList(this.initialList)},_sortDatasetList:function(a){return a.sort(function(a,c){return b(a.name,c.name)}),a},_ensureIds:function(){return this.initialList.forEach(function(a){a.hasOwnProperty("id")||(a.id=_.uniqueId())}),this.initialList},_splitByFilters:function(){function a(a,b){return b.test(a.name)}var b=this.filters.map(function(a){return new RegExp(a)}),c=[[],[]];return this.unpaired.forEach(function(d){b.forEach(function(b,e){a(d,b)&&c[e].push(d)})}),c},_addToUnpaired:function(a){var c=function(d,e){if(d===e)return d;var f=Math.floor((e-d)/2)+d,g=b(a.name,this.unpaired[f].name);if(0>g)return c(d,f);if(g>0)return c(f+1,e);for(;this.unpaired[f]&&this.unpaired[f].name===a.name;)f++;return f}.bind(this);this.unpaired.splice(c(0,this.unpaired.length),0,a)},autoPair:function(a){var b=this._splitByFilters(),c=[];return this.twoPassAutopairing&&(c=this.autopairSimple({listA:b[0],listB:b[1]}),b=this._splitByFilters()),a=a||this.strategy,b=this._splitByFilters(),c=c.concat(this[a].call(this,{listA:b[0],listB:b[1]}))},autopairSimple:f({scoreThreshold:function(){return 1},match:function(a){return a=a||{},a.matchTo===a.possible?{index:a.index,score:1}:a.bestMatch}}),autopairLevenshtein:f({scoreThreshold:function(){return this.matchPercentage},match:function(b){b=b||{};var c=a(b.matchTo,b.possible),d=1-c/Math.max(b.matchTo.length,b.possible.length);return d>b.bestMatch.score?{index:b.index,score:d}:b.bestMatch}}),autopairLCS:f({scoreThreshold:function(){return this.matchPercentage},match:function(a){a=a||{};var b=this._naiveStartingAndEndingLCS(a.matchTo,a.possible).length,c=b/Math.max(a.matchTo.length,a.possible.length);return c>a.bestMatch.score?{index:a.index,score:c}:a.bestMatch}}),_naiveStartingAndEndingLCS:function(a,b){for(var c="",d="",e=0,f=0;e<a.length&&e<b.length&&a[e]===b[e];)c+=a[e],e+=1;if(e===a.length)return a;if(e===b.length)return b;for(e=a.length-1,f=b.length-1;e>=0&&f>=0&&a[e]===b[f];)d=[a[e],d].join(""),e-=1,f-=1;return c+d},_pair:function(a,b,c){c=c||{};var d=this._createPair(a,b,c.name);return this.paired.push(d),this.unpaired=_.without(this.unpaired,a,b),c.silent||this.trigger("pair:new",d),d},_createPair:function(a,b,c){if(!a||!b||a===b)throw new Error("Bad pairing: "+[JSON.stringify(a),JSON.stringify(b)]);return c=c||this._guessNameForPair(a,b),{forward:a,name:c,reverse:b}},_guessNameForPair:function(a,b,c){c=void 0!==c?c:this.removeExtensions;var d=a.name,e=b.name,f=this._naiveStartingAndEndingLCS(d.replace(this.filters[0],""),e.replace(this.filters[1],""));if(c){var g=f.lastIndexOf(".");if(g>0){var h=f.slice(g,f.length);f=f.replace(h,""),d=d.replace(h,""),e=e.replace(h,"")}}return f||d+" & "+e},_unpair:function(a,b){if(b=b||{},!a)throw new Error("Bad pair: "+JSON.stringify(a));return this.paired=_.without(this.paired,a),this._addToUnpaired(a.forward),this._addToUnpaired(a.reverse),b.silent||this.trigger("pair:unpair",[a]),a},unpairAll:function(){for(var a=[];this.paired.length;)a.push(this._unpair(this.paired[0],{silent:!0}));this.trigger("pair:unpair",a)},_pairToJSON:function(a,b){return b=b||"hda",{collection_type:"paired",src:"new_collection",name:a.name,element_identifiers:[{name:"forward",id:a.forward.id,src:b},{name:"reverse",id:a.reverse.id,src:b}]}},createList:function(a){var b=this,c="/api/histories/"+this.historyId+"/contents/dataset_collections",d={type:"dataset_collection",collection_type:"list:paired",name:_.escape(a||b.$(".collection-name").val()),element_identifiers:b.paired.map(function(a){return b._pairToJSON(a)})};return b.blocking=!0,jQuery.ajax(c,{type:"POST",contentType:"application/json",dataType:"json",data:JSON.stringify(d)}).always(function(){b.blocking=!1}).fail(function(a,c,d){b._ajaxErrHandler(a,c,d)}).done(function(a,c,d){b.trigger("collection:created",a,c,d),b.metric("collection:created",a),"function"==typeof b.oncreate&&b.oncreate.call(this,a,c,d)})},_ajaxErrHandler:function(a,b,c){this.error(a,b,c);var d=e("An error occurred while creating this collection");a&&(d+=0===a.readyState&&0===a.status?": "+e("Galaxy could not be reached and may be updating.")+e(" Try again in a few minutes."):a.responseJSON?"<br /><pre>"+JSON.stringify(a.responseJSON)+"</pre>":": "+c),creator._showAlert(d,"alert-danger")},render:function(a){return this.$el.empty().html(i.templates.main()),this._renderHeader(a),this._renderMiddle(a),this._renderFooter(a),this._addPluginComponents(),this.trigger("rendered",this),this},_renderHeader:function(){var a=this.$(".header").empty().html(i.templates.header()).find(".help-content").prepend($(i.templates.helpContent()));return this._renderFilters(),a},_renderFilters:function(){return this.$(".forward-column .column-header input").val(this.filters[0]).add(this.$(".reverse-column .column-header input").val(this.filters[1]))},_renderMiddle:function(){var a=this.$(".middle").empty().html(i.templates.middle());return this.unpairedPanelHidden?this.$(".unpaired-columns").hide():this.pairedPanelHidden&&this.$(".paired-columns").hide(),this._renderUnpaired(),this._renderPaired(),a},_renderUnpaired:function(){var a,b,c=this,d=[],f=this._splitByFilters();return this.$(".forward-column .title").text([f[0].length,e("unpaired forward")].join(" ")),this.$(".forward-column .unpaired-info").text(this._renderUnpairedDisplayStr(this.unpaired.length-f[0].length)),this.$(".reverse-column .title").text([f[1].length,e("unpaired reverse")].join(" ")),this.$(".reverse-column .unpaired-info").text(this._renderUnpairedDisplayStr(this.unpaired.length-f[1].length)),this.$(".unpaired-columns .column-datasets").empty(),this.$(".autopair-link").toggle(0!==this.unpaired.length),0===this.unpaired.length?void this._renderUnpairedEmpty():(b=f[1].map(function(a,b){return void 0!==f[0][b]&&f[0][b]!==a&&d.push(c._renderPairButton()),c._renderUnpairedDataset(a)}),a=f[0].map(function(a){return c._renderUnpairedDataset(a)}),a.length||b.length?(this.$(".unpaired-columns .forward-column .column-datasets").append(a).add(this.$(".unpaired-columns .paired-column .column-datasets").append(d)).add(this.$(".unpaired-columns .reverse-column .column-datasets").append(b)),void this._adjUnpairedOnScrollbar()):void this._renderUnpairedNotShown())},_renderUnpairedDisplayStr:function(a){return["(",a," ",e("filtered out"),")"].join("")},_renderUnpairedDataset:function(a){return $("<li/>").attr("id","dataset-"+a.id).addClass("dataset unpaired").attr("draggable",!0).addClass(a.selected?"selected":"").append($("<span/>").addClass("dataset-name").text(a.name)).data("dataset",a)},_renderPairButton:function(){return $("<li/>").addClass("dataset unpaired").append($("<span/>").addClass("dataset-name").text(e("Pair these datasets")))},_renderUnpairedEmpty:function(){var a=$('<div class="empty-message"></div>').text("("+e("no remaining unpaired datasets")+")");return this.$(".unpaired-columns .paired-column .column-datasets").empty().prepend(a),a},_renderUnpairedNotShown:function(){var a=$('<div class="empty-message"></div>').text("("+e("no datasets were found matching the current filters")+")");return this.$(".unpaired-columns .paired-column .column-datasets").empty().prepend(a),a},_adjUnpairedOnScrollbar:function(){var a=this.$(".unpaired-columns").last(),b=this.$(".unpaired-columns .reverse-column .dataset").first();if(b.size()){var c=a.offset().left+a.outerWidth(),d=b.offset().left+b.outerWidth(),e=Math.floor(c)-Math.floor(d);this.$(".unpaired-columns .forward-column").css("margin-left",e>0?e:0)}},_renderPaired:function(){if(this.$(".paired-column-title .title").text([this.paired.length,e("paired")].join(" ")),this.$(".unpair-all-link").toggle(0!==this.paired.length),0===this.paired.length)return void this._renderPairedEmpty();this.$(".remove-extensions-link").show(),this.$(".paired-columns .column-datasets").empty();var a=this;this.paired.forEach(function(b){var c=new h({pair:b});a.$(".paired-columns .column-datasets").append(c.render().$el).append(['<button class="unpair-btn">','<span class="fa fa-unlink" title="',e("Unpair"),'"></span>',"</button>"].join(""))})},_renderPairedEmpty:function(){var a=$('<div class="empty-message"></div>').text("("+e("no paired datasets yet")+")");return this.$(".paired-columns .column-datasets").empty().prepend(a),a},_renderFooter:function(){var a=this.$(".footer").empty().html(i.templates.footer());return this.$(".remove-extensions").prop("checked",this.removeExtensions),"function"==typeof this.oncancel&&this.$(".cancel-create.btn").show(),a},_addPluginComponents:function(){this._chooseFiltersPopover(".choose-filters-link"),this.$(".help-content i").hoverhighlight(".collection-creator","rgba( 64, 255, 255, 1.0 )")},_chooseFiltersPopover:function(a){function b(a,b){return['<button class="filter-choice btn" ','data-forward="',a,'" data-reverse="',b,'">',e("Forward"),": ",a,", ",e("Reverse"),": ",b,"</button>"].join("")}var c=$(_.template(['<div class="choose-filters">','<div class="help">',e("Choose from the following filters to change which unpaired reads are shown in the display"),":</div>",_.values(this.commonFilters).map(function(a){return b(a[0],a[1])}).join(""),"</div>"].join(""))({}));return this.$(a).popover({container:".collection-creator",placement:"bottom",html:!0,content:c})},_validationWarning:function(a,b){var c="validation-warning";"name"===a&&(a=this.$(".collection-name").add(this.$(".collection-name-prompt")),this.$(".collection-name").focus().select()),b?(a=a||this.$("."+c),a.removeClass(c)):a.addClass(c)},_setUpBehaviors:function(){return this.once("rendered",function(){this.trigger("rendered:initial",this)}),this.on("pair:new",function(){this._renderUnpaired(),this._renderPaired(),this.$(".paired-columns").scrollTop(8e6)}),this.on("pair:unpair",function(){this._renderUnpaired(),this._renderPaired(),this.splitView()}),this.on("filter-change",function(){this.filters=[this.$(".forward-unpaired-filter input").val(),this.$(".reverse-unpaired-filter input").val()],this.metric("filter-change",this.filters),this._renderFilters(),this._renderUnpaired()}),this.on("autopair",function(){this._renderUnpaired(),this._renderPaired();var a,b=null;this.paired.length?(b="alert-success",a=this.paired.length+" "+e("pairs created"),this.unpaired.length||(a+=": "+e("all datasets have been successfully paired"),this.hideUnpaired(),this.$(".collection-name").focus())):a=e("Could not automatically create any pairs from the given dataset names"),this._showAlert(a,b)}),this},events:{"click .more-help":"_clickMoreHelp","click .less-help":"_clickLessHelp","click .header .alert button":"_hideAlert","click .forward-column .column-title":"_clickShowOnlyUnpaired","click .reverse-column .column-title":"_clickShowOnlyUnpaired","click .unpair-all-link":"_clickUnpairAll","change .forward-unpaired-filter input":function(){this.trigger("filter-change")},"focus .forward-unpaired-filter input":function(a){$(a.currentTarget).select()},"click .autopair-link":"_clickAutopair","click .choose-filters .filter-choice":"_clickFilterChoice","click .clear-filters-link":"_clearFilters","change .reverse-unpaired-filter input":function(){this.trigger("filter-change")},"focus .reverse-unpaired-filter input":function(a){$(a.currentTarget).select()},"click .forward-column .dataset.unpaired":"_clickUnpairedDataset","click .reverse-column .dataset.unpaired":"_clickUnpairedDataset","click .paired-column .dataset.unpaired":"_clickPairRow","click .unpaired-columns":"clearSelectedUnpaired","mousedown .unpaired-columns .dataset":"_mousedownUnpaired","click .paired-column-title":"_clickShowOnlyPaired","mousedown .flexible-partition-drag":"_startPartitionDrag","click .paired-columns .dataset.paired":"selectPair","click .paired-columns":"clearSelectedPaired","click .paired-columns .pair-name":"_clickPairName","click .unpair-btn":"_clickUnpair","dragover .paired-columns .column-datasets":"_dragoverPairedColumns","drop .paired-columns .column-datasets":"_dropPairedColumns","pair.dragstart .paired-columns .column-datasets":"_pairDragstart","pair.dragend   .paired-columns .column-datasets":"_pairDragend","change .remove-extensions":function(){this.toggleExtensions()},"change .collection-name":"_changeName","keydown .collection-name":"_nameCheckForEnter","click .cancel-create":function(){"function"==typeof this.oncancel&&this.oncancel.call(this)},"click .create-collection":"_clickCreate"},_clickMoreHelp:function(){this.$(".main-help").addClass("expanded"),this.$(".more-help").hide()},_clickLessHelp:function(){this.$(".main-help").removeClass("expanded"),this.$(".more-help").show()},_showAlert:function(a,b){b=b||"alert-danger",this.$(".main-help").hide(),this.$(".header .alert").attr("class","alert alert-dismissable").addClass(b).show().find(".alert-message").html(a)},_hideAlert:function(){this.$(".main-help").show(),this.$(".header .alert").hide()},_clickShowOnlyUnpaired:function(){this.$(".paired-columns").is(":visible")?this.hidePaired():this.splitView()},_clickShowOnlyPaired:function(){this.$(".unpaired-columns").is(":visible")?this.hideUnpaired():this.splitView()},hideUnpaired:function(a,b){this.unpairedPanelHidden=!0,this.pairedPanelHidden=!1,this._renderMiddle(a,b)},hidePaired:function(a,b){this.unpairedPanelHidden=!1,this.pairedPanelHidden=!0,this._renderMiddle(a,b)},splitView:function(a,b){return this.unpairedPanelHidden=this.pairedPanelHidden=!1,this._renderMiddle(a,b),this},_clickUnpairAll:function(){this.metric("unpairAll"),this.unpairAll()},_clickAutopair:function(){var a=this.autoPair();this.metric("autopair",a.length,this.unpaired.length),this.trigger("autopair")},_clickFilterChoice:function(a){var b=$(a.currentTarget);this.$(".forward-unpaired-filter input").val(b.data("forward")),this.$(".reverse-unpaired-filter input").val(b.data("reverse")),this._hideChooseFilters(),this.trigger("filter-change")},_hideChooseFilters:function(){this.$(".choose-filters-link").popover("hide"),this.$(".popover").css("display","none")},_clearFilters:function(){this.$(".forward-unpaired-filter input").val(""),this.$(".reverse-unpaired-filter input").val(""),this.trigger("filter-change")},_clickUnpairedDataset:function(a){return a.stopPropagation(),this.toggleSelectUnpaired($(a.currentTarget))},toggleSelectUnpaired:function(a,b){b=b||{};var c=a.data("dataset"),d=void 0!==b.force?b.force:!a.hasClass("selected");return a.size()&&void 0!==c?(d?(a.addClass("selected"),b.waitToPair||this.pairAllSelected()):a.removeClass("selected"),a):a},pairAllSelected:function(a){a=a||{};var b=this,c=[],d=[],e=[];return b.$(".unpaired-columns .forward-column .dataset.selected").each(function(){c.push($(this).data("dataset"))}),b.$(".unpaired-columns .reverse-column .dataset.selected").each(function(){d.push($(this).data("dataset"))}),c.length=d.length=Math.min(c.length,d.length),c.forEach(function(a,c){try{e.push(b._pair(a,d[c],{silent:!0}))}catch(f){b.error(f)}}),e.length&&!a.silent&&this.trigger("pair:new",e),e},clearSelectedUnpaired:function(){this.$(".unpaired-columns .dataset.selected").removeClass("selected")},_mousedownUnpaired:function(a){if(a.shiftKey){var b=this,c=$(a.target).addClass("selected"),d=function(a){b.$(a.target).filter(".dataset").addClass("selected")};c.parent().on("mousemove",d),$(document).one("mouseup",function(){c.parent().off("mousemove",d),b.pairAllSelected()})}},_clickPairRow:function(a){var b=$(a.currentTarget).index(),c=$(".unpaired-columns .forward-column .dataset").eq(b).data("dataset"),d=$(".unpaired-columns .reverse-column .dataset").eq(b).data("dataset");this._pair(c,d)},_startPartitionDrag:function(a){function b(){d.$(".flexible-partition-drag").css("color",""),$("body").css("cursor","").unbind("mousemove",c)}function c(a){var b=a.pageY-e;d.adjPartition(b)||$("body").trigger("mouseup"),d._adjUnpairedOnScrollbar(),e+=b}var d=this,e=a.pageY;$("body").css("cursor","ns-resize"),d.$(".flexible-partition-drag").css("color","black"),$("body").mousemove(c),$("body").one("mouseup",b)},adjPartition:function(a){var b=this.$(".unpaired-columns"),c=this.$(".paired-columns"),d=parseInt(b.css("height"),10),e=parseInt(c.css("height"),10);d=Math.max(10,d+a),e-=a;var f=0>a;if(f){if(this.unpairedPanelHidden)return!1;if(10>=d)return this.hideUnpaired(),!1}else this.unpairedPanelHidden&&(b.show(),this.unpairedPanelHidden=!1);if(f)this.pairedPanelHidden&&(c.show(),this.pairedPanelHidden=!1);else{if(this.pairedPanelHidden)return!1;if(15>=e)return this.hidePaired(),!1}return b.css({height:d+"px",flex:"0 0 auto"}),!0},selectPair:function(a){a.stopPropagation(),$(a.currentTarget).toggleClass("selected")},clearSelectedPaired:function(){this.$(".paired-columns .dataset.selected").removeClass("selected")},_clickPairName:function(a){a.stopPropagation();var b=$(a.currentTarget),c=b.parent().parent(),d=c.index(".dataset.paired"),e=this.paired[d],f=prompt("Enter a new name for the pair:",e.name);f&&(e.name=f,e.customizedName=!0,b.text(e.name))},_clickUnpair:function(a){var b=Math.floor($(a.currentTarget).index(".unpair-btn"));this._unpair(this.paired[b])},_dragoverPairedColumns:function(a){a.preventDefault();var b=this.$(".paired-columns .column-datasets");this._checkForAutoscroll(b,a.originalEvent.clientY);var c=this._getNearestPairedDatasetLi(a.originalEvent.clientY);$(".element-drop-placeholder").remove();var d=$('<div class="element-drop-placeholder"></div>');c.size()?c.before(d):b.append(d)},_checkForAutoscroll:function(a,b){var c=2,d=a.offset(),e=a.scrollTop(),f=b-d.top,g=d.top+a.outerHeight()-b;f>=0&&f<this.autoscrollDist?a.scrollTop(e-c):g>=0&&g<this.autoscrollDist&&a.scrollTop(e+c)},_getNearestPairedDatasetLi:function(a){for(var b=4,c=this.$(".paired-columns .column-datasets li").toArray(),d=0;d<c.length;d++){var e=$(c[d]),f=e.offset().top,g=Math.floor(e.outerHeight()/2)+b;if(f+g>a&&a>f-g)return e}return $()},_dropPairedColumns:function(a){a.preventDefault(),a.dataTransfer.dropEffect="move";var b=this._getNearestPairedDatasetLi(a.originalEvent.clientY);return b.size()?this.$dragging.insertBefore(b):this.$dragging.insertAfter(this.$(".paired-columns .unpair-btn").last()),this._syncPairsToDom(),!1},_syncPairsToDom:function(){var a=[];this.$(".paired-columns .dataset.paired").each(function(){a.push($(this).data("pair"))}),this.paired=a,this._renderPaired()},_pairDragstart:function(a,b){b.$el.addClass("selected");var c=this.$(".paired-columns .dataset.selected");this.$dragging=c},_pairDragend:function(){$(".element-drop-placeholder").remove(),this.$dragging=null},toggleExtensions:function(a){var b=this;b.removeExtensions=void 0!==a?a:!b.removeExtensions,_.each(b.paired,function(a){a.customizedName||(a.name=b._guessNameForPair(a.forward,a.reverse))}),b._renderPaired(),b._renderFooter()},_changeName:function(){this._validationWarning("name",!!this._getName())},_nameCheckForEnter:function(a){13!==a.keyCode||this.blocking||this._clickCreate()},_getName:function(){return _.escape(this.$(".collection-name").val())},_clickCreate:function(){var a=this._getName();a?this.blocking||this.createList():this._validationWarning("name")},_printList:function(a){var b=this;_.each(a,function(c){a===b.paired&&b._printPair(c)})},_printPair:function(a){this.debug(a.forward.name,a.reverse.name,": ->",a.name)},toString:function(){return"PairedCollectionCreator"}});i.templates=i.templates||{main:_.template(['<div class="header flex-row no-flex"></div>','<div class="middle flex-row flex-row-container"></div>','<div class="footer flex-row no-flex">'].join("")),header:_.template(['<div class="main-help well clear">','<a class="more-help" href="javascript:void(0);">',e("More help"),"</a>",'<div class="help-content">','<a class="less-help" href="javascript:void(0);">',e("Less"),"</a>","</div>","</div>",'<div class="alert alert-dismissable">','<button type="button" class="close" data-dismiss="alert" aria-hidden="true">&times;</button>','<span class="alert-message"></span>',"</div>",'<div class="column-headers vertically-spaced flex-column-container">','<div class="forward-column flex-column column">','<div class="column-header">','<div class="column-title">','<span class="title">',e("Unpaired forward"),"</span>",'<span class="title-info unpaired-info"></span>',"</div>",'<div class="unpaired-filter forward-unpaired-filter pull-left">','<input class="search-query" placeholder="',e("Filter this list"),'" />',"</div>","</div>","</div>",'<div class="paired-column flex-column no-flex column">','<div class="column-header">','<a class="choose-filters-link" href="javascript:void(0)">',e("Choose filters"),"</a>",'<a class="clear-filters-link" href="javascript:void(0);">',e("Clear filters"),"</a><br />",'<a class="autopair-link" href="javascript:void(0);">',e("Auto-pair"),"</a>","</div>","</div>",'<div class="reverse-column flex-column column">','<div class="column-header">','<div class="column-title">','<span class="title">',e("Unpaired reverse"),"</span>",'<span class="title-info unpaired-info"></span>',"</div>",'<div class="unpaired-filter reverse-unpaired-filter pull-left">','<input class="search-query" placeholder="',e("Filter this list"),'" />',"</div>","</div>","</div>","</div>"].join("")),middle:_.template(['<div class="unpaired-columns flex-column-container scroll-container flex-row">','<div class="forward-column flex-column column">','<ol class="column-datasets"></ol>',"</div>",'<div class="paired-column flex-column no-flex column">','<ol class="column-datasets"></ol>',"</div>",'<div class="reverse-column flex-column column">','<ol class="column-datasets"></ol>',"</div>","</div>",'<div class="flexible-partition">','<div class="flexible-partition-drag" title="',e("Drag to change"),'"></div>','<div class="column-header">','<div class="column-title paired-column-title">','<span class="title"></span>',"</div>",'<a class="unpair-all-link" href="javascript:void(0);">',e("Unpair all"),"</a>","</div>","</div>",'<div class="paired-columns flex-column-container scroll-container flex-row">','<ol class="column-datasets"></ol>',"</div>"].join("")),footer:_.template(['<div class="attributes clear">','<div class="clear">','<label class="remove-extensions-prompt pull-right">',e("Remove file extensions from pair names"),"?",'<input class="remove-extensions pull-right" type="checkbox" />',"</label>","</div>",'<div class="clear">','<input class="collection-name form-control pull-right" ','placeholder="',e("Enter a name for your new list"),'" />','<div class="collection-name-prompt pull-right">',e("Name"),":</div>","</div>","</div>",'<div class="actions clear vertically-spaced">','<div class="other-options pull-left">','<button class="cancel-create btn" tabindex="-1">',e("Cancel"),"</button>",'<div class="create-other btn-group dropup">','<button class="btn btn-default dropdown-toggle" data-toggle="dropdown">',e("Create a different kind of collection"),' <span class="caret"></span>',"</button>",'<ul class="dropdown-menu" role="menu">','<li><a href="#">',e("Create a <i>single</i> pair"),"</a></li>",'<li><a href="#">',e("Create a list of <i>unpaired</i> datasets"),"</a></li>","</ul>","</div>","</div>",'<div class="main-options pull-right">','<button class="create-collection btn btn-primary">',e("Create list"),"</button>","</div>","</div>"].join("")),helpContent:_.template(["<p>",e(["Collections of paired datasets are ordered lists of dataset pairs (often forward and reverse reads). ","These collections can be passed to tools and workflows in order to have analyses done on each member of ","the entire group. This interface allows you to create a collection, choose which datasets are paired, ","and re-order the final collection."].join("")),"</p>","<p>",e(['Unpaired datasets are shown in the <i data-target=".unpaired-columns">unpaired section</i> ',"(hover over the underlined words to highlight below). ",'Paired datasets are shown in the <i data-target=".paired-columns">paired section</i>.',"<ul>To pair datasets, you can:","<li>Click a dataset in the ",'<i data-target=".unpaired-columns .forward-column .column-datasets,','.unpaired-columns .forward-column">forward column</i> ',"to select it then click a dataset in the ",'<i data-target=".unpaired-columns .reverse-column .column-datasets,','.unpaired-columns .reverse-column">reverse column</i>.',"</li>",'<li>Click one of the "Pair these datasets" buttons in the ','<i data-target=".unpaired-columns .paired-column .column-datasets,','.unpaired-columns .paired-column">middle column</i> ',"to pair the datasets in a particular row.","</li>",'<li>Click <i data-target=".autopair-link">"Auto-pair"</i> ',"to have your datasets automatically paired based on name.","</li>","</ul>"].join("")),"</p>","<p>",e(["<ul>You can filter what is shown in the unpaired sections by:","<li>Entering partial dataset names in either the ",'<i data-target=".forward-unpaired-filter input">forward filter</i> or ','<i data-target=".reverse-unpaired-filter input">reverse filter</i>.',"</li>","<li>Choosing from a list of preset filters by clicking the ",'<i data-target=".choose-filters-link">"Choose filters" link</i>.',"</li>","<li>Entering regular expressions to match dataset names. See: ",'<a href="https://developer.mozilla.org/en-US/docs/Web/JavaScript/Guide/Regular_Expressions"',' target="_blank">MDN\'s JavaScript Regular Expression Tutorial</a>. ',"Note: forward slashes (\\) are not needed.","</li>","<li>Clearing the filters by clicking the ",'<i data-target=".clear-filters-link">"Clear filters" link</i>.',"</li>","</ul>"].join("")),"</p>","<p>",e(["To unpair individual dataset pairs, click the ",'<i data-target=".unpair-btn">unpair buttons ( <span class="fa fa-unlink"></span> )</i>. ','Click the <i data-target=".unpair-all-link">"Unpair all" link</i> to unpair all pairs.'].join("")),"</p>","<p>",e(['You can include or remove the file extensions (e.g. ".fastq") from your pair names by toggling the ','<i data-target=".remove-extensions-prompt">"Remove file extensions from pair names?"</i> control.'].join("")),"</p>","<p>",e(['Once your collection is complete, enter a <i data-target=".collection-name">name</i> and ','click <i data-target=".create-collection">"Create list"</i>. ',"(Note: you do not have to pair all unpaired datasets to finish.)"].join("")),"</p>"].join(""))};var j=function(a,b){var c,d=jQuery.Deferred();if(b=_.defaults(b||{},{datasets:a,oncancel:function(){Galaxy.modal.hide(),d.reject("cancelled")},oncreate:function(a,b){Galaxy.modal.hide(),d.resolve(b)}}),!window.Galaxy||!Galaxy.modal)throw new Error("Galaxy or Galaxy.modal not found");return c=new i(b),Galaxy.modal.show({title:"Create a collection of paired datasets",body:c.$el,width:"80%",height:"800px",closing_events:!0}),c.render(),window.creator=c,d};return{PairedCollectionCreator:i,pairedCollectionCreatorModal:j,createListOfPairsCollection:g}});
 //# sourceMappingURL=../../../maps/mvc/collection/list-of-pairs-collection-creator.js.map
\ No newline at end of file
diff --git a/static/scripts/mvc/collection/pair-collection-creator.js b/static/scripts/mvc/collection/pair-collection-creator.js
index 92e1c8c8952..de301478a2f 100644
--- a/static/scripts/mvc/collection/pair-collection-creator.js
+++ b/static/scripts/mvc/collection/pair-collection-creator.js
@@ -1,2 +1,2 @@
-define(["mvc/collection/list-collection-creator","mvc/ui/error-modal","utils/localization"],function(a,b){function c(c){var d=a.validElements(c);if(!d.length)return a.noValidElementsErrorModal(),jQuery.Deferred().reject(a.noValidElementsMessage);if(2!==d.length)return b("When pairing datasets, select only two datasets: one forward and one reverse.","Not a valid pair"),jQuery.Deferred().reject(a.noValidElementsMessage);var e="New Dataset Pair",f=[{name:"forward",src:"hda",id:d[0].id},{name:"reverse",src:"hda",id:d[1].id}];return c.createHDCA(f,"paired",e)}return{createPairHDCA:c}});
+define(["mvc/collection/list-collection-creator","mvc/history/hdca-model","mvc/base-mvc","utils/localization"],function(a,b,c,d){function e(a){var b=a.toJSON(),c=i(b,{creationFn:function(b,c){return b=[{name:"forward",src:"hda",id:b[0].id},{name:"reverse",src:"hda",id:b[1].id}],a.createHDCA(b,"paired",c)}});return c}var f=Backbone.View.extend(c.LoggableMixin).extend({tagName:"li",className:"collection-element",initialize:function(a){this.element=a.element||{},this.identifier=a.identifier},render:function(){return this.$el.attr("data-element-id",this.element.id).html(this.template({identifier:this.identifier,element:this.element})),this},template:_.template(['<span class="identifier"><%= identifier %></span>','<span class="name"><%= element.name %></span>'].join("")),destroy:function(){this.off(),this.$el.remove()},toString:function(){return"DatasetCollectionElementView()"}}),g=a.ListCollectionCreator,h=g.extend({elementViewClass:f,collectionClass:b.HistoryPairDatasetCollection,className:"pair-collection-creator collection-creator flex-row-container",_mangleDuplicateNames:function(){},render:function(a,b){return 2===this.workingElements.length?g.prototype.render.call(this,a,b):this._renderInvalid(a,b)},_renderList:function(){var a=this,b=jQuery("<div/>"),c=a.$list();_.each(this.elementViews,function(b){b.destroy(),a.removeElementView(b)}),b.append(a._createForwardElementView().$el),b.append(a._createReverseElementView().$el),c.empty().append(b.children()),_.invoke(a.elementViews,"render")},_createForwardElementView:function(){return this._createElementView(this.workingElements[0],{identifier:"forward"})},_createReverseElementView:function(){return this._createElementView(this.workingElements[1],{identifier:"reverse"})},_createElementView:function(a,b){var c=new this.elementViewClass(_.extend(b,{element:a}));return this.elementViews.push(c),c},swap:function(){this.workingElements=[this.workingElements[1],this.workingElements[0]],this._renderList()},events:_.extend(_.clone(g.prototype.events),{"click .swap":"swap"}),templates:_.extend(_.clone(g.prototype.templates),{middle:_.template(['<div class="collection-elements-controls">','<a class="swap" href="javascript:void(0);" title="',d("Swap forward and reverse datasets"),'">',d("Swap"),"</a>","</div>",'<div class="collection-elements scroll-container flex-row">',"</div>"].join("")),helpContent:_.template(["<p>",d(["Pair collections are permanent collections containing two datasets: one forward and one reverse. ","Often these are forward and reverse reads. The pair collections can be passed to tools and ","workflows in order to have analyses done on both datasets. This interface allows ","you to create a pair, name it, and swap which is forward and which reverse."].join("")),"</p>","<ul>","<li>",d(['Click the <i data-target=".swap">"Swap"</i> link to make your forward dataset the reverse ',"and the reverse dataset forward."].join("")),"</li>","<li>",d(['Click the <i data-target=".cancel-create">"Cancel"</i> button to exit the interface.'].join("")),"</li>","</ul><br />","<p>",d(['Once your collection is complete, enter a <i data-target=".collection-name">name</i> and ','click <i data-target=".create-collection">"Create list"</i>.'].join("")),"</p>"].join("")),invalidInitial:_.template(['<div class="header flex-row no-flex">','<div class="alert alert-warning" style="display: block">','<span class="alert-message">',"<% if( _.size( problems ) ){ %>",d("The following selections could not be included due to problems"),"<ul><% _.each( problems, function( problem ){ %>","<li><b><%= problem.element.name %></b>: <%= problem.text %></li>","<% }); %></ul>","<% } else if( _.size( elements ) === 0 ){ %>",d("No datasets were selected"),".","<% } else if( _.size( elements ) === 1 ){ %>",d("Only one dataset was selected"),": <%= elements[0].name %>","<% } else if( _.size( elements ) > 2 ){ %>",d("Too many datasets were selected"),': <%= _.pluck( elements, "name" ).join( ", ") %>',"<% } %>","<br />",d("Two (and only two) elements are needed for the pair"),". ",d("You may need to "),'<a class="cancel-create" href="javascript:void(0)">',d("cancel"),"</a> ",d("and reselect new elements"),".","</span>","</div>","</div>",'<div class="footer flex-row no-flex">','<div class="actions clear vertically-spaced">','<div class="other-options pull-left">','<button class="cancel-create btn" tabindex="-1">',d("Cancel"),"</button>","</div>","</div>","</div>"].join(""))}),toString:function(){return"PairCollectionCreator"}}),i=function(b,c){return c=c||{},c.title=d("Create a collection from a pair of datasets"),a.collectionCreatorModal(b,c,h)};return{PairCollectionCreator:h,pairCollectionCreatorModal:i,createPairCollection:e}});
 //# sourceMappingURL=../../../maps/mvc/collection/pair-collection-creator.js.map
\ No newline at end of file
diff --git a/static/scripts/mvc/history/history-panel-edit.js b/static/scripts/mvc/history/history-panel-edit.js
index 1d10888a343..28309553bbd 100644
--- a/static/scripts/mvc/history/history-panel-edit.js
+++ b/static/scripts/mvc/history/history-panel-edit.js
@@ -1,2 +1,2 @@
-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","mvc/collection/list-collection-creator","mvc/collection/pair-collection-creator","mvc/collection/list-of-pairs-collection-creator","ui/fa-icon-button","mvc/ui/popup-menu","utils/localization"],function(a,b,c,d,e,f,g,h,i,j,k,l,m,n){var o=a.HistoryPanel,p=o.extend({HDAViewClass:e.HDAListItemEdit,HDCAViewClass:f.HDCAListItemEdit,initialize:function(a){a=a||{},o.prototype.initialize.call(this,a),this.tagsEditor=null,this.annotationEditor=null,this.purgeAllowed=a.purgeAllowed||!1,this.annotationEditorShown=a.annotationEditorShown||!1,this.tagsEditorShown=a.tagsEditorShown||!1},_setUpListeners:function(){var a=this;o.prototype._setUpListeners.call(a),a.on("drop",function(b,c){a.dataDropped(c),a.dropTargetOff()}),a.on("view:attached view:removed",function(){a._renderCounts()},a)},_setUpCollectionListeners:function(){return o.prototype._setUpCollectionListeners.call(this),this.collection.on("change:deleted",this._handleHdaDeletionChange,this),this.collection.on("change:visible",this._handleHdaVisibleChange,this),this.collection.on("change:purged",function(){this.model.fetch()},this),this},_setUpModelListeners:function(){return o.prototype._setUpModelListeners.call(this),this.model.on("change:nice_size",this.updateHistoryDiskSize,this),this},_buildNewRender:function(){var a=o.prototype._buildNewRender.call(this);return this.model?(Galaxy&&Galaxy.currUser&&Galaxy.currUser.id&&Galaxy.currUser.id===this.model.get("user_id")&&(this._renderTags(a),this._renderAnnotation(a)),a):a},renderItems:function(a){var b=o.prototype.renderItems.call(this,a);return this._renderCounts(a),b},_renderCounts:function(a){function b(a,b){return['<a class="',a,'" href="javascript:void(0);">',b,"</a>"].join("")}a=a||this.$el;var c=this.collection.where({deleted:!0}),d=this.collection.where({visible:!1}),e=[];return this.views.length&&e.push([this.views.length,n("shown")].join(" ")),c.length&&e.push(this.showDeleted?b("toggle-deleted-link",n("hide deleted")):[c.length,b("toggle-deleted-link",n("deleted"))].join(" ")),d.length&&e.push(this.showHidden?b("toggle-hidden-link",n("hide hidden")):[d.length,b("toggle-hidden-link",n("hidden"))].join(" ")),a.find("> .controls .subtitle").html(e.join(", "))},_renderTags:function(a){var b=this;this.tagsEditor=new g.TagsEditor({model:this.model,el:a.find(".controls .tags-display"),onshowFirstTime:function(){this.render()},onshow:function(){b.toggleHDATagEditors(!0,b.fxSpeed)},onhide:function(){b.toggleHDATagEditors(!1,b.fxSpeed)},$activator:l({title:n("Edit history tags"),classes:"history-tag-btn",faIcon:"fa-tags"}).appendTo(a.find(".controls .actions"))})},_renderAnnotation:function(a){var b=this;this.annotationEditor=new h.AnnotationEditor({model:this.model,el:a.find(".controls .annotation-display"),onshowFirstTime:function(){this.render()},onshow:function(){b.toggleHDAAnnotationEditors(!0,b.fxSpeed)},onhide:function(){b.toggleHDAAnnotationEditors(!1,b.fxSpeed)},$activator:l({title:n("Edit history annotation"),classes:"history-annotate-btn",faIcon:"fa-comment"}).appendTo(a.find(".controls .actions"))})},_setUpBehaviors:function(a){if(a=a||this.$el,o.prototype._setUpBehaviors.call(this,a),this.model&&Galaxy.currUser&&!Galaxy.currUser.isAnonymous()&&Galaxy.currUser.id===this.model.get("user_id")){var b=this,c="> .controls .name";a.find(c).attr("title",n("Click to rename history")).tooltip({placement:"bottom"}).make_text_editable({on_finish:function(a){var d=b.model.get("name");a&&a!==d?(b.$el.find(c).text(a),b.model.save({name:a}).fail(function(){b.$el.find(c).text(b.model.previous("name"))})):b.$el.find(c).text(d)}})}},multiselectActions:function(){var a=this,b=[{html:n("Hide datasets"),func:function(){var b=d.HistoryDatasetAssociation.prototype.hide;a.getSelectedModels().ajaxQueue(b)}},{html:n("Unhide datasets"),func:function(){var b=d.HistoryDatasetAssociation.prototype.unhide;a.getSelectedModels().ajaxQueue(b)}},{html:n("Delete datasets"),func:function(){var b=d.HistoryDatasetAssociation.prototype.delete;a.getSelectedModels().ajaxQueue(b)}},{html:n("Undelete datasets"),func:function(){var b=d.HistoryDatasetAssociation.prototype.undelete;a.getSelectedModels().ajaxQueue(b)}}];return a.purgeAllowed&&b.push({html:n("Permanently delete datasets"),func:function(){if(confirm(n("This will permanently remove the data in your datasets. Are you sure?"))){var b=d.HistoryDatasetAssociation.prototype.purge;a.getSelectedModels().ajaxQueue(b)}}}),b=b.concat(a._collectionActions())},_collectionActions:function(){var a=this;return[{html:n("Build Dataset List"),func:function(){i.createListHDCA(a.getSelectedModels()).done(function(){a.model.refresh()})}},{html:n("Build Dataset Pair"),func:function(){j.createPairHDCA(a.getSelectedModels()).done(function(){a.model.refresh()})}},{html:n("Build List of Dataset Pairs"),func:function(){k.createListOfPairsCollection(a.getSelectedModels()).done(function(){a.model.refresh()})}}]},_attachItems:function(a){return this.$list(a).append(this.views.reverse().map(function(a){return a.$el})),this},_attachView:function(a){var b=this;b.views.unshift(a),b.$list().prepend(a.render(0).$el.hide()),b.trigger("view:attached",a),a.$el.slideDown(b.fxSpeed,function(){b.trigger("view:attached:rendered")})},_getItemViewOptions:function(a){var b=o.prototype._getItemViewOptions.call(this,a);return _.extend(b,{purgeAllowed:this.purgeAllowed,tagsEditorShown:this.tagsEditor&&!this.tagsEditor.hidden,annotationEditorShown:this.annotationEditor&&!this.annotationEditor.hidden}),b},_handleHdaDeletionChange:function(a){a.get("deleted")&&!this.showDeleted&&this.removeItemView(a),this._renderCounts()},_handleHdaVisibleChange:function(a){a.hidden()&&!this.showHidden&&this.removeItemView(a),this._renderCounts()},toggleHDATagEditors:function(){var a=Array.prototype.slice.call(arguments,1);_.each(this.views,function(b){b.tagsEditor&&b.tagsEditor.toggle.apply(b.tagsEditor,a)})},toggleHDAAnnotationEditors:function(){var a=Array.prototype.slice.call(arguments,1);_.each(this.views,function(b){b.annotationEditor&&b.annotationEditor.toggle.apply(b.annotationEditor,a)})},events:_.extend(_.clone(o.prototype.events),{"click .show-selectors-btn":"toggleSelectors","click .toggle-deleted-link":function(){this.toggleShowDeleted()},"click .toggle-hidden-link":function(){this.toggleShowHidden()}}),updateHistoryDiskSize:function(){this.$el.find(".history-size").text(this.model.get("nice_size"))},dropTargetOn:function(){if(this.dropTarget)return this;this.dropTarget=!0;var a={dragenter:_.bind(this.dragenter,this),dragover:_.bind(this.dragover,this),dragleave:_.bind(this.dragleave,this),drop:_.bind(this.drop,this)},b=this._renderDropTarget();this.$list().before([this._renderDropTargetHelp(),b]);for(var c in a)a.hasOwnProperty(c)&&b.on(c,a[c]);return this},_renderDropTarget:function(){return this.$(".history-drop-target").remove(),$("<div/>").addClass("history-drop-target").css({height:"64px",margin:"0px 10px 10px 10px",border:"1px dashed black","border-radius":"3px"})},_renderDropTargetHelp:function(){return this.$(".history-drop-target-help").remove(),$("<div/>").addClass("history-drop-target-help").css({margin:"10px 10px 4px 10px",color:"grey","font-size":"80%","font-style":"italic"}).text(n("Drag datasets here to copy them to the current history"))},dropTargetOff:function(){if(!this.dropTarget)return this;this.dropTarget=!1;var a=this.$(".history-drop-target").get(0);for(var b in this._dropHandlers)this._dropHandlers.hasOwnProperty(b)&&(console.debug(b,this._dropHandlers[b]),a.off(b,this._dropHandlers[b]));return this.$(".history-drop-target").remove(),this.$(".history-drop-target-help").remove(),this},dropTargetToggle:function(){return this.dropTarget?this.dropTargetOff():this.dropTargetOn(),this},dragenter:function(a){a.preventDefault(),a.stopPropagation(),this.$(".history-drop-target").css("border","2px solid black")},dragover:function(a){a.preventDefault(),a.stopPropagation()},dragleave:function(a){a.preventDefault(),a.stopPropagation(),this.$(".history-drop-target").css("border","1px dashed black")},drop:function(a){a.preventDefault(),a.dataTransfer.dropEffect="move";var b=this,c=a.dataTransfer.getData("text");try{c=JSON.parse(c)}catch(d){this.warn("error parsing JSON from drop:",c)}return this.trigger("droptarget:drop",a,c,b),!1},dataDropped:function(a){var b=this;return _.isObject(a)&&"HistoryDatasetAssociation"===a.model_class&&a.id?b.model.contents.copy(a.id):jQuery.when()},toString:function(){return"HistoryPanelEdit("+(this.model?this.model.get("name"):"")+")"}});return{HistoryPanelEdit:p}});
+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","mvc/collection/list-collection-creator","mvc/collection/pair-collection-creator","mvc/collection/list-of-pairs-collection-creator","ui/fa-icon-button","mvc/ui/popup-menu","utils/localization"],function(a,b,c,d,e,f,g,h,i,j,k,l,m,n){var o=a.HistoryPanel,p=o.extend({HDAViewClass:e.HDAListItemEdit,HDCAViewClass:f.HDCAListItemEdit,initialize:function(a){a=a||{},o.prototype.initialize.call(this,a),this.tagsEditor=null,this.annotationEditor=null,this.purgeAllowed=a.purgeAllowed||!1,this.annotationEditorShown=a.annotationEditorShown||!1,this.tagsEditorShown=a.tagsEditorShown||!1},_setUpListeners:function(){var a=this;o.prototype._setUpListeners.call(a),a.on("drop",function(b,c){a.dataDropped(c),a.dropTargetOff()}),a.on("view:attached view:removed",function(){a._renderCounts()},a)},_setUpCollectionListeners:function(){return o.prototype._setUpCollectionListeners.call(this),this.collection.on("change:deleted",this._handleHdaDeletionChange,this),this.collection.on("change:visible",this._handleHdaVisibleChange,this),this.collection.on("change:purged",function(){this.model.fetch()},this),this},_setUpModelListeners:function(){return o.prototype._setUpModelListeners.call(this),this.model.on("change:nice_size",this.updateHistoryDiskSize,this),this},_buildNewRender:function(){var a=o.prototype._buildNewRender.call(this);return this.model?(Galaxy&&Galaxy.currUser&&Galaxy.currUser.id&&Galaxy.currUser.id===this.model.get("user_id")&&(this._renderTags(a),this._renderAnnotation(a)),a):a},renderItems:function(a){var b=o.prototype.renderItems.call(this,a);return this._renderCounts(a),b},_renderCounts:function(a){function b(a,b){return['<a class="',a,'" href="javascript:void(0);">',b,"</a>"].join("")}a=a||this.$el;var c=this.collection.where({deleted:!0}),d=this.collection.where({visible:!1}),e=[];return this.views.length&&e.push([this.views.length,n("shown")].join(" ")),c.length&&e.push(this.showDeleted?b("toggle-deleted-link",n("hide deleted")):[c.length,b("toggle-deleted-link",n("deleted"))].join(" ")),d.length&&e.push(this.showHidden?b("toggle-hidden-link",n("hide hidden")):[d.length,b("toggle-hidden-link",n("hidden"))].join(" ")),a.find("> .controls .subtitle").html(e.join(", "))},_renderTags:function(a){var b=this;this.tagsEditor=new g.TagsEditor({model:this.model,el:a.find(".controls .tags-display"),onshowFirstTime:function(){this.render()},onshow:function(){b.toggleHDATagEditors(!0,b.fxSpeed)},onhide:function(){b.toggleHDATagEditors(!1,b.fxSpeed)},$activator:l({title:n("Edit history tags"),classes:"history-tag-btn",faIcon:"fa-tags"}).appendTo(a.find(".controls .actions"))})},_renderAnnotation:function(a){var b=this;this.annotationEditor=new h.AnnotationEditor({model:this.model,el:a.find(".controls .annotation-display"),onshowFirstTime:function(){this.render()},onshow:function(){b.toggleHDAAnnotationEditors(!0,b.fxSpeed)},onhide:function(){b.toggleHDAAnnotationEditors(!1,b.fxSpeed)},$activator:l({title:n("Edit history annotation"),classes:"history-annotate-btn",faIcon:"fa-comment"}).appendTo(a.find(".controls .actions"))})},_setUpBehaviors:function(a){if(a=a||this.$el,o.prototype._setUpBehaviors.call(this,a),this.model&&Galaxy.currUser&&!Galaxy.currUser.isAnonymous()&&Galaxy.currUser.id===this.model.get("user_id")){var b=this,c="> .controls .name";a.find(c).attr("title",n("Click to rename history")).tooltip({placement:"bottom"}).make_text_editable({on_finish:function(a){var d=b.model.get("name");a&&a!==d?(b.$el.find(c).text(a),b.model.save({name:a}).fail(function(){b.$el.find(c).text(b.model.previous("name"))})):b.$el.find(c).text(d)}})}},multiselectActions:function(){var a=this,b=[{html:n("Hide datasets"),func:function(){var b=d.HistoryDatasetAssociation.prototype.hide;a.getSelectedModels().ajaxQueue(b)}},{html:n("Unhide datasets"),func:function(){var b=d.HistoryDatasetAssociation.prototype.unhide;a.getSelectedModels().ajaxQueue(b)}},{html:n("Delete datasets"),func:function(){var b=d.HistoryDatasetAssociation.prototype.delete;a.getSelectedModels().ajaxQueue(b)}},{html:n("Undelete datasets"),func:function(){var b=d.HistoryDatasetAssociation.prototype.undelete;a.getSelectedModels().ajaxQueue(b)}}];return a.purgeAllowed&&b.push({html:n("Permanently delete datasets"),func:function(){if(confirm(n("This will permanently remove the data in your datasets. Are you sure?"))){var b=d.HistoryDatasetAssociation.prototype.purge;a.getSelectedModels().ajaxQueue(b)}}}),b=b.concat(a._collectionActions())},_collectionActions:function(){var a=this;return[{html:n("Build Dataset List"),func:function(){i.createListCollection(a.getSelectedModels()).done(function(){a.model.refresh()})}},{html:n("Build Dataset Pair"),func:function(){j.createPairCollection(a.getSelectedModels()).done(function(){a.model.refresh()})}},{html:n("Build List of Dataset Pairs"),func:function(){k.createListOfPairsCollection(a.getSelectedModels()).done(function(){a.model.refresh()})}}]},_attachItems:function(a){return this.$list(a).append(this.views.reverse().map(function(a){return a.$el})),this},_attachView:function(a){var b=this;b.views.unshift(a),b.$list().prepend(a.render(0).$el.hide()),b.trigger("view:attached",a),a.$el.slideDown(b.fxSpeed,function(){b.trigger("view:attached:rendered")})},_getItemViewOptions:function(a){var b=o.prototype._getItemViewOptions.call(this,a);return _.extend(b,{purgeAllowed:this.purgeAllowed,tagsEditorShown:this.tagsEditor&&!this.tagsEditor.hidden,annotationEditorShown:this.annotationEditor&&!this.annotationEditor.hidden}),b},_handleHdaDeletionChange:function(a){a.get("deleted")&&!this.showDeleted&&this.removeItemView(a),this._renderCounts()},_handleHdaVisibleChange:function(a){a.hidden()&&!this.showHidden&&this.removeItemView(a),this._renderCounts()},toggleHDATagEditors:function(){var a=Array.prototype.slice.call(arguments,1);_.each(this.views,function(b){b.tagsEditor&&b.tagsEditor.toggle.apply(b.tagsEditor,a)})},toggleHDAAnnotationEditors:function(){var a=Array.prototype.slice.call(arguments,1);_.each(this.views,function(b){b.annotationEditor&&b.annotationEditor.toggle.apply(b.annotationEditor,a)})},events:_.extend(_.clone(o.prototype.events),{"click .show-selectors-btn":"toggleSelectors","click .toggle-deleted-link":function(){this.toggleShowDeleted()},"click .toggle-hidden-link":function(){this.toggleShowHidden()}}),updateHistoryDiskSize:function(){this.$el.find(".history-size").text(this.model.get("nice_size"))},dropTargetOn:function(){if(this.dropTarget)return this;this.dropTarget=!0;var a={dragenter:_.bind(this.dragenter,this),dragover:_.bind(this.dragover,this),dragleave:_.bind(this.dragleave,this),drop:_.bind(this.drop,this)},b=this._renderDropTarget();this.$list().before([this._renderDropTargetHelp(),b]);for(var c in a)a.hasOwnProperty(c)&&b.on(c,a[c]);return this},_renderDropTarget:function(){return this.$(".history-drop-target").remove(),$("<div/>").addClass("history-drop-target").css({height:"64px",margin:"0px 10px 10px 10px",border:"1px dashed black","border-radius":"3px"})},_renderDropTargetHelp:function(){return this.$(".history-drop-target-help").remove(),$("<div/>").addClass("history-drop-target-help").css({margin:"10px 10px 4px 10px",color:"grey","font-size":"80%","font-style":"italic"}).text(n("Drag datasets here to copy them to the current history"))},dropTargetOff:function(){if(!this.dropTarget)return this;this.dropTarget=!1;var a=this.$(".history-drop-target").get(0);for(var b in this._dropHandlers)this._dropHandlers.hasOwnProperty(b)&&a.off(b,this._dropHandlers[b]);return this.$(".history-drop-target").remove(),this.$(".history-drop-target-help").remove(),this},dropTargetToggle:function(){return this.dropTarget?this.dropTargetOff():this.dropTargetOn(),this},dragenter:function(a){a.preventDefault(),a.stopPropagation(),this.$(".history-drop-target").css("border","2px solid black")},dragover:function(a){a.preventDefault(),a.stopPropagation()},dragleave:function(a){a.preventDefault(),a.stopPropagation(),this.$(".history-drop-target").css("border","1px dashed black")},drop:function(a){a.preventDefault(),a.dataTransfer.dropEffect="move";var b=this,c=a.dataTransfer.getData("text");try{c=JSON.parse(c)}catch(d){this.warn("error parsing JSON from drop:",c)}return this.trigger("droptarget:drop",a,c,b),!1},dataDropped:function(a){var b=this;return _.isObject(a)&&"HistoryDatasetAssociation"===a.model_class&&a.id?b.model.contents.copy(a.id):jQuery.when()},toString:function(){return"HistoryPanelEdit("+(this.model?this.model.get("name"):"")+")"}});return{HistoryPanelEdit:p}});
 //# sourceMappingURL=../../../maps/mvc/history/history-panel-edit.js.map
\ No newline at end of file
diff --git a/static/scripts/ui/hoverhighlight.js b/static/scripts/ui/hoverhighlight.js
new file mode 100644
index 00000000000..39f7051f9dc
--- /dev/null
+++ b/static/scripts/ui/hoverhighlight.js
@@ -0,0 +1,2 @@
+!function(a){"function"==typeof define&&define.amd?define([],a):a(jQuery)}(function(){jQuery.fn.extend({hoverhighlight:function(a,b){return a=a||"body",this.size()?($(this).each(function(){var c=$(this),d=c.data("target");d&&c.mouseover(function(){$(d,a).css({background:b})}).mouseout(function(){$(d).css({background:""})})}),this):this}})});
+//# sourceMappingURL=../../maps/ui/hoverhighlight.js.map
\ No newline at end of file
diff --git a/static/style/blue/base.css b/static/style/blue/base.css
index 27c0ed68afc..2530d3e80a3 100644
--- a/static/style/blue/base.css
+++ b/static/style/blue/base.css
@@ -2220,13 +2220,13 @@ pre.peek table,pre.peek th,pre.peek tr,pre.peek td{font-family:Monaco,Menlo,Cons
 .collection-creator .flex-column.no-flex{-webkit-flex:0 auto;-ms-flex:0 auto;flex:0 0 auto}
 .collection-creator .choose-filters .help{margin-bottom:2px;font-size:90%;color:grey}
 .collection-creator .choose-filters button{width:100%;margin-top:2px}
-.collection-creator .header .alert{display:none}
+.collection-creator .header .alert{display:none}.collection-creator .header .alert li{list-style:circle;margin-left:32px}
 .collection-creator .column{width:30%}
 .collection-creator .column-title{height:22px;line-height:22px;overflow:hidden}.collection-creator .column-title:hover{text-decoration:underline;cursor:pointer}
 .collection-creator .column-title .title{font-weight:bold}
 .collection-creator .column-title .title-info{color:grey}.collection-creator .column-title .title-info:before{content:' - '}
 .collection-creator .paired-column{text-align:center;width:22%}
-.collection-creator .header{padding-bottom:8px}.collection-creator .header .main-help{margin-bottom:17px;overflow:hidden;padding:15px;background:#f8f8f8}.collection-creator .header .main-help:not(.expanded){max-height:49px}.collection-creator .header .main-help:not(.expanded) .help-content p:first-child{overflow:hidden;white-space:nowrap;text-overflow:ellipsis}
+.collection-creator .header .main-help{margin-bottom:17px;overflow:hidden;padding:15px;background:#f8f8f8}.collection-creator .header .main-help:not(.expanded){max-height:49px}.collection-creator .header .main-help:not(.expanded) .help-content p:first-child{overflow:hidden;white-space:nowrap;text-overflow:ellipsis}
 .collection-creator .header .main-help:not(.expanded) .help-content>*:not(:first-child){display:none}
 .collection-creator .header .main-help.expanded{max-height:none}
 .collection-creator .header .main-help .help-content i{cursor:help;border-bottom:1px dotted grey;font-style:normal}
@@ -2244,7 +2244,7 @@ pre.peek table,pre.peek th,pre.peek tr,pre.peek td{font-family:Monaco,Menlo,Cons
 .collection-creator .column-datasets .dataset.paired .pair-name-column{text-align:center}.collection-creator .column-datasets .dataset.paired .pair-name-column .pair-name:hover{text-decoration:underline}
 .collection-creator .column-datasets .dataset.paired .reverse-dataset-name{border-left:1px solid grey;padding-left:8px}.collection-creator .column-datasets .dataset.paired .reverse-dataset-name:before{margin-right:8px;font-family:FontAwesome;content:'\f060'}
 .collection-creator .column-datasets .dataset:hover{border-color:black}
-.collection-creator .column-datasets .dataset.selected{border-color:black;background:black;color:white}
+.collection-creator .column-datasets .dataset.selected{border-color:black;background:black;color:white}.collection-creator .column-datasets .dataset.selected a{color:white}
 .collection-creator .unpaired-columns{height:0;border:1px solid lightgrey;border-width:1px 0 1px 0}.collection-creator .unpaired-columns .forward-column .dataset.unpaired{margin-right:32px}
 .collection-creator .unpaired-columns .paired-column .dataset.unpaired{border-color:lightgrey;color:lightgrey}.collection-creator .unpaired-columns .paired-column .dataset.unpaired:hover{border-color:black;color:black}
 .collection-creator .unpaired-columns .reverse-column .dataset.unpaired{text-align:right;margin-left:32px}
@@ -2255,14 +2255,39 @@ pre.peek table,pre.peek th,pre.peek tr,pre.peek td{font-family:Monaco,Menlo,Cons
 .collection-creator .flexible-partition .column-header .remove-extensions-link{display:none}
 .collection-creator .paired-columns{height:0;border:1px solid lightgrey;border-width:1px 0 1px 0;margin-bottom:8px}.collection-creator .paired-columns .column-datasets{width:100%;overflow:auto}
 .collection-creator .paired-columns .unpair-btn{float:right;margin-top:-32px;width:31px;height:32px;border-color:transparent;background:transparent;font-size:120%}.collection-creator .paired-columns .unpair-btn:hover{border-color:#BFBFBF;background:#DEDEDE}
-.collection-creator .paired-columns .paired-drop-placeholder{width:60px;height:3px;margin:2px 0px 0px 14px;background:black}.collection-creator .paired-columns .paired-drop-placeholder:before{float:left;font-size:120%;margin:-9px 0 0 -8px;font-family:FontAwesome;content:'\f0da'}
-.collection-creator .paired-columns .paired-drop-placeholder:last-child{margin-bottom:8px}
 .collection-creator .paired-columns .empty-message{text-align:center}
+.collection-creator .element-drop-placeholder{width:60px;height:3px;margin:2px 0px 0px 14px;background:black}.collection-creator .element-drop-placeholder:before{float:left;font-size:120%;margin:-9px 0 0 -8px;font-family:FontAwesome;content:'\f0da'}
+.collection-creator .element-drop-placeholder:last-child{margin-bottom:8px}
 .collection-creator .footer{padding-bottom:8px}.collection-creator .footer .attributes .remove-extensions-prompt{line-height:32px}.collection-creator .footer .attributes .remove-extensions-prompt .remove-extensions{display:inline-block;width:24px;height:24px}
 .collection-creator .footer .attributes .collection-name-prompt{margin:5px 4px 0 0}
 .collection-creator .footer .attributes .collection-name-prompt.validation-warning:before{content:'(required)';margin-right:4px;color:red}
 .collection-creator .footer .attributes .collection-name{width:50%}.collection-creator .footer .attributes .collection-name.validation-warning{border-color:red}
 .collection-creator .footer .actions .other-options>*{display:none;margin-left:4px}
+.collection-creator.list-collection-creator .footer{margin-top:8px}
+.collection-creator.list-collection-creator .main-help{cursor:pointer}
+.collection-creator.list-collection-creator .collection-elements-controls{margin-bottom:8px}.collection-creator.list-collection-creator .collection-elements-controls .clear-selected{float:right !important;float:right;display:none}
+.collection-creator.list-collection-creator .collection-elements{max-height:400px;border:0px solid lightgrey;overflow-y:auto;overflow-x:hidden}
+.collection-creator.list-collection-creator .collection-element{height:32px;margin:2px 4px 0px 4px;opacity:1.0;border:1px solid lightgrey;border-radius:3px;padding:0 8px 0 8px;line-height:28px;cursor:pointer;overflow:hidden}.collection-creator.list-collection-creator .collection-element:last-of-type{margin-bottom:2px}
+.collection-creator.list-collection-creator .collection-element:hover{border-color:black}
+.collection-creator.list-collection-creator .collection-element.selected{border-color:black;background:black;color:white}.collection-creator.list-collection-creator .collection-element.selected a{color:white}
+.collection-creator.list-collection-creator .collection-element.dragging{opacity:0.4}.collection-creator.list-collection-creator .collection-element.dragging button{display:none}
+.collection-creator.list-collection-creator .collection-element .name:hover{text-decoration:underline}
+.collection-creator.list-collection-creator .collection-element button{margin-top:3px}
+.collection-creator.list-collection-creator .collection-element .discard{float:right !important;float:right}
+.collection-creator.list-collection-creator .element-drop-placeholder{margin-left:8px}.collection-creator.list-collection-creator .element-drop-placeholder:before{margin:-8.5px 0 0 -8px}
+.collection-creator.list-collection-creator .empty-message{margin:8px;color:grey;font-style:italic;text-align:center}
+.collection-creator.list-collection-creator .no-elements-left-message{text-align:left}
+.collection-creator.pair-collection-creator .footer{margin-top:8px}
+.collection-creator.pair-collection-creator .main-help{cursor:pointer}
+.collection-creator.pair-collection-creator .collection-elements-controls{margin-bottom:8px}.collection-creator.pair-collection-creator .collection-elements-controls .clear-selected{float:right !important;float:right;display:none}
+.collection-creator.pair-collection-creator .collection-elements{max-height:400px;border:0px solid lightgrey;overflow-y:auto;overflow-x:hidden}
+.collection-creator.pair-collection-creator .collection-element{height:32px;margin:2px 4px 0px 4px;opacity:1.0;border:1px solid lightgrey;border-radius:3px;padding:0 8px 0 8px;line-height:28px;cursor:pointer;overflow:hidden}.collection-creator.pair-collection-creator .collection-element:last-of-type{margin-bottom:2px}
+.collection-creator.pair-collection-creator .collection-element:hover{border-color:black}
+.collection-creator.pair-collection-creator .collection-element button{margin-top:3px}
+.collection-creator.pair-collection-creator .collection-element .identifier:after{content:':';margin-right:6px}
+.collection-creator.pair-collection-creator .collection-element .name:hover{text-decoration:none}
+.collection-creator.pair-collection-creator .empty-message{margin:8px;color:grey;font-style:italic;text-align:center}
+.collection-creator.list-of-pairs-collection-creator .column-headers{margin-bottom:8px}
 .search-input .search-query{width:100%;padding-right:24px}
 .search-input .search-clear,.search-input .search-loading{position:relative;display:inline-block;float:right;margin-top:-24px;margin-right:4px;font-size:1.4em;line-height:23px;color:grey}
 .search-input .search-clear:hover{color:#303030}
diff --git a/static/style/src/less/ui/paired-collection-creator.less b/static/style/src/less/ui/paired-collection-creator.less
index 274d30d7083..e5270b321e8 100644
--- a/static/style/src/less/ui/paired-collection-creator.less
+++ b/static/style/src/less/ui/paired-collection-creator.less
@@ -1,4 +1,4 @@
-// --- main layout elements
+// ======================================================================== all types
 .collection-creator {
 
     height: 100%;
@@ -106,6 +106,11 @@
 
     .header .alert {
         display: none;
+
+        li {
+            list-style: circle;
+            margin-left: 32px;
+        }
     }
 
     // ------------------------------------------------------------------------ columns
@@ -139,8 +144,6 @@
 
     // ------------------------------------------------------------------------ header
     .header {
-        padding-bottom: 8px;
-
         .main-help {
             margin-bottom: 17px;
             overflow: hidden;
@@ -287,6 +290,9 @@
                 border-color: black;
                 background: black;
                 color: white;
+                a {
+                    color: white;
+                }
             }
         }
     }
@@ -374,26 +380,26 @@
                 background: #DEDEDE;
             }
         }
-        .paired-drop-placeholder {
-            width   : 60px;
-            height  : 3px;
-            margin : 2px 0px 0px 14px;
-            background : black;
-            &:before {
-                float: left;
-                font-size: 120%;
-                margin: -9px 0px 0px -8px;
-                font-family: FontAwesome;
-                content: '\f0da';
-            }
-            &:last-child {
-                margin-bottom: 8px;
-            }
-        }
         .empty-message {
             text-align: center;
         }
     }
+    .element-drop-placeholder {
+        width   : 60px;
+        height  : 3px;
+        margin : 2px 0px 0px 14px;
+        background : black;
+        &:before {
+            float: left;
+            font-size: 120%;
+            margin: -9px 0px 0px -8px;
+            font-family: FontAwesome;
+            content: '\f0da';
+        }
+        &:last-child {
+            margin-bottom: 8px;
+        }
+    }
 
     // ------------------------------------------------------------------------ footer
     .footer {
@@ -434,3 +440,166 @@
         padding-bottom: 8px;
     }
 }
+
+// ======================================================================== list
+.collection-creator.list-collection-creator {
+
+    .footer {
+        margin-top: 8px;
+    }
+
+    .main-help {
+        cursor: pointer;
+    }
+
+    .collection-elements-controls {
+        margin-bottom: 8px;
+
+        .clear-selected {
+            .pull-right;
+            display: none;
+        }
+    }
+    .collection-elements {
+        max-height: 400px;
+        border: 0px solid lightgrey;
+        overflow-y: auto;
+        overflow-x: hidden;
+    }
+
+    // TODO: taken from .dataset above - swap these out
+    .collection-element {
+        height: 32px;
+        margin: 2px 4px 0px 4px;
+        opacity: 1.0;
+        border: 1px solid lightgrey;
+        border-radius: 3px;
+        padding: 0 8px 0 8px;
+        line-height: 28px;
+        cursor: pointer;
+        overflow: hidden;
+
+        &:last-of-type {
+            margin-bottom: 2px;
+        }
+        &:hover {
+            border-color: black;
+        }
+        &.selected {
+            border-color: black;
+            background: black;
+            color: white;
+            a {
+                color: white;
+            }
+        }
+        &.dragging {
+            opacity: 0.4;
+            button {
+                display: none;
+            }
+        }
+
+        .name {
+            &:hover {
+                text-decoration: underline;
+            }
+        }
+        button {
+            margin-top: 3px;
+        }
+        .discard {
+            .pull-right;
+        }
+    }
+    .element-drop-placeholder {
+        margin-left : 8px;
+        &:before {
+            margin: -8.5px 0px 0px -8px;
+        }
+    }
+    .empty-message {
+        margin: 8px;
+        color: grey;
+        font-style: italic;
+        text-align: center;
+    }
+    .no-elements-left-message {
+        text-align: left;
+    }
+}
+
+// ======================================================================== pair
+.collection-creator.pair-collection-creator {
+    .footer {
+        margin-top: 8px;
+    }
+
+    .main-help {
+        cursor: pointer;
+    }
+
+    .collection-elements-controls {
+        margin-bottom: 8px;
+
+        .clear-selected {
+            .pull-right;
+            display: none;
+        }
+    }
+    .collection-elements {
+        max-height: 400px;
+        border: 0px solid lightgrey;
+        overflow-y: auto;
+        overflow-x: hidden;
+    }
+
+    // TODO: taken from .dataset above - swap these out
+    .collection-element {
+        height: 32px;
+        margin: 2px 4px 0px 4px;
+        opacity: 1.0;
+        border: 1px solid lightgrey;
+        border-radius: 3px;
+        padding: 0 8px 0 8px;
+        line-height: 28px;
+        cursor: pointer;
+        overflow: hidden;
+
+        &:last-of-type {
+            margin-bottom: 2px;
+        }
+        &:hover {
+            border-color: black;
+        }
+
+        button {
+            margin-top: 3px;
+        }
+        .identifier {
+            &:after {
+                content: ':';
+                margin-right: 6px;
+            }
+        }
+        .name {
+            &:hover {
+                text-decoration: none;
+            }
+        }
+    }
+    .empty-message {
+        margin: 8px;
+        color: grey;
+        font-style: italic;
+        text-align: center;
+    }
+}
+
+// ======================================================================== list of pairs
+.collection-creator.list-of-pairs-collection-creator {
+    .column-headers {
+        margin-bottom: 8px;
+    }
+}
+