Minimal gulp task to run uglify, babel, sourcemaps. The new 'clean'

approach also removed some cruft we had sitting in the static/scripts
folder and were unintentionally shipping.

client/gulpfile.js

@@ -0,0 +1,27 @@
+var gulp = require('gulp');
+var uglify = require('gulp-uglify');
+var sourcemaps = require('gulp-sourcemaps');
+var del = require('del');
+
+var paths = {
+    scripts: ['galaxy/scripts/**/*.js',
+              'galaxy/scripts/!apps/**/*.js'
+    ]
+};
+
+gulp.task('scripts', ['clean'], function() {
+  return gulp.src(paths.scripts)
+    .pipe(sourcemaps.init())
+    // Transpile here prior to uglify.
+    .pipe(uglify())
+    .pipe(sourcemaps.write('../maps/'))
+    .pipe(gulp.dest('../static/scripts/'));
+});
+
+gulp.task('clean', function(){
+    // This currently wipes out webpack bundles, too, but it'll keep us from
+    // shipping cruft.  Need to add a whitelist.
+    return del(['../static/scripts/'], {force: true});
+});
+
+gulp.task('default', ['scripts']);

client/package.json

@@ -15,6 +15,7 @@
     "babel-core": "^6.24.0",
     "babel-loader": "^6.4.1",
     "babel-preset-env": "^1.3.2",
+    "del": "^2.2.2",
     "grunt": "^0.4.5",
     "grunt-bower-install-simple": "^1.1.0",
     "grunt-check-modules": "^1.0.0",
@@ -26,6 +27,9 @@
     "grunt-contrib-watch": "^0.6.1",
     "grunt-exec": "^0.4.6",
     "grunt-spritesmith": "^4.7.1",
+    "gulp": "^3.9.1",
+    "gulp-sourcemaps": "^2.5.1",
+    "gulp-uglify": "^2.1.2",
     "webpack": "^2.3.3"
   },
   "scripts": {
@@ -33,6 +37,7 @@
     "webpack": "webpack -p",
     "webpack-dev": "webpack -d",
     "webpack-dev-watch": "webpack -d --watch",
-    "build-style": "grunt style"
+    "build-style": "grunt style",
+    "gulp": "gulp"
   }
 }

static/maps/mvc/annotation.js.map

@@ -1 +1 @@
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+{"version":3,"sources":["mvc/annotation.js"],"names":["define","baseMVC","_l","AnnotationEditor","Backbone","View","extend","LoggableMixin","HiddenUntilActivatedViewMixin","tagName","className","initialize","options","this","tooltipConfig","placement","listenTo","model","render","hiddenUntilActivated","$activator","view","$el","html","_template","$annotation","make_text_editable","use_textarea","on_finish","newAnnotation","text","save","annotation","silent","fail","previous","get","_","escape","join","find","remove","off","stopListening","prototype","call","toString"],"mappings":"AAAAA,QACI,eACA,qBACA,oBACD,SAAUC,EAASC,GAuEtB,OACIC,iBApEmBC,SAASC,KACvBC,OAAQL,EAAQM,eAChBD,OAAQL,EAAQO,+BAAgCF,QAErDG,QAAc,MACdC,UAAc,qBAGdC,WAAa,SAAUC,GACnBA,EAAUA,MACVC,KAAKC,cAAgBF,EAAQE,gBAAmBC,UAAW,UAG3DF,KAAKG,SAAUH,KAAKI,MAAO,oBAAqB,WAC5CJ,KAAKK,WAETL,KAAKM,qBAAsBP,EAAQQ,WAAYR,IAInDM,OAAS,WACL,GAAIG,GAAOR,IAcX,OAbAA,MAAKS,IAAIC,KAAMV,KAAKW,aAGpBX,KAAKY,cAAcC,oBACfC,cAAc,EACdC,UAAW,SAAUC,GACjBR,EAAKI,cAAcK,KAAMD,GACzBR,EAAKJ,MAAMc,MAAOC,WAAYH,IAAmBI,QAAQ,IACpDC,KAAM,WACHb,EAAKI,cAAcK,KAAMT,EAAKJ,MAAMkB,SAAU,oBAIvDtB,MAIXW,UAAY,WACR,GAAIQ,GAAanB,KAAKI,MAAMmB,IAAK,aACjC,QAEI,yBAA0BlC,EAAI,cAAgB,WAE9C,2BACImC,EAAEC,OAAQN,GACd,UACFO,KAAM,KAIZd,YAAc,WACV,MAAOZ,MAAKS,IAAIkB,KAAM,gBAI1BC,OAAS,WACL5B,KAAKY,YAAYiB,MACjB7B,KAAK8B,cAAe9B,KAAKI,OACzBb,SAASC,KAAKuC,UAAUH,OAAOI,KAAMhC,OAIzCiC,SAAW,WAAY,OAAS,oBAAqBjC,KAAKI,MAAQ,GAAI,KAAMsB,KAAK","file":"../../scripts/mvc/annotation.js","sourcesContent":["define([\n    \"mvc/base-mvc\",\n    \"utils/localization\",\n    \"ui/editable-text\",\n], function( baseMVC, _l ){\n// =============================================================================\n/** A view on any model that has a 'annotation' attribute\n */\nvar AnnotationEditor = Backbone.View\n        .extend( baseMVC.LoggableMixin )\n        .extend( baseMVC.HiddenUntilActivatedViewMixin ).extend({\n\n    tagName     : 'div',\n    className   : 'annotation-display',\n\n    /** Set up listeners, parse options */\n    initialize : function( options ){\n        options = options || {};\n        this.tooltipConfig = options.tooltipConfig || { placement: 'bottom' };\n        //console.debug( this, options );\n        // only listen to the model only for changes to annotations\n        this.listenTo( this.model, 'change:annotation', function(){\n            this.render();\n        });\n        this.hiddenUntilActivated( options.$activator, options );\n    },\n\n    /** Build the DOM elements, call select to on the created input, and set up behaviors */\n    render : function(){\n        var view = this;\n        this.$el.html( this._template() );\n\n        //TODO: handle empties better\n        this.$annotation().make_text_editable({\n            use_textarea: true,\n            on_finish: function( newAnnotation ){\n                view.$annotation().text( newAnnotation );\n                view.model.save({ annotation: newAnnotation }, { silent: true })\n                    .fail( function(){\n                        view.$annotation().text( view.model.previous( 'annotation' ) );\n                    });\n            }\n        });\n        return this;\n    },\n\n    /** @returns {String} the html text used to build the view's DOM */\n    _template : function(){\n        var annotation = this.model.get( 'annotation' );\n        return [\n            //TODO: make prompt optional\n            '<label class=\"prompt\">', _l( 'Annotation' ), '</label>',\n            // set up initial tags by adding as CSV to input vals (necc. to init select2)\n            '<div class=\"annotation\">',\n                _.escape( annotation ),\n            '</div>'\n        ].join( '' );\n    },\n\n    /** @returns {jQuery} the main element for this view */\n    $annotation : function(){\n        return this.$el.find( '.annotation' );\n    },\n\n    /** shut down event listeners and remove this view's DOM */\n    remove : function(){\n        this.$annotation.off();\n        this.stopListening( this.model );\n        Backbone.View.prototype.remove.call( this );\n    },\n\n    /** string rep */\n    toString : function(){ return [ 'AnnotationEditor(', this.model + '', ')' ].join(''); }\n});\n// =============================================================================\nreturn {\n    AnnotationEditor : AnnotationEditor\n};\n});\n"]}

static/maps/mvc/citation/citation-model.js.map

@@ -1 +1 @@
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+{"version":3,"sources":["mvc/citation/citation-model.js"],"names":["define","parseBibtex","baseMVC","_l","window","BibtexParser","Citation","Backbone","Model","extend","LoggableMixin","_logNamespace","defaults","content","initialize","parsed","this","attributes","err","errors","length","reduce","all","current","log","_fields","entry","_","first","entries","rawFields","Fields","key","value","lowerKey","toLowerCase","entryType","EntryType","undefined","fields","BaseCitationCollection","Collection","urlRoot","Galaxy","root","partial","model","HistoryCitationCollection","url","history_id","ToolCitationCollection","tool_id"],"mappings":"AAAAA,QACI,cACA,eACA,sBACD,SAAUC,EAAaC,EAASC,GAInCF,EAAcA,GAAeG,OAAOC,YAEpC,IAMIC,GAAWC,SAASC,MAAMC,OAAQP,EAAQQ,eAAgBD,QAC1DE,cAPe,WASfC,UACIC,QAAS,IAGbC,WAAY,WACR,GAAIC,EACJ,KAEIA,EAASd,EAAae,KAAKC,WAAWJ,SACxC,MAAOK,GACL,OAGJ,GAAIH,EAAOI,OAAOC,OAAQ,CAEtB,GAAID,GAASJ,EAAOI,OAAOE,OAAQ,SAAUC,EAAKC,GAAW,MAAOD,GAAM,KAAOC,GAEjFP,MAAKQ,IAAK,yBAA2BL,GAKzC,GAFAH,KAAKS,WACLT,KAAKU,MAAQC,EAAEC,MAAOb,EAAOc,SACzBb,KAAKU,MAAO,CACZ,GAAII,GAAYd,KAAKU,MAAMK,MAC3B,KAAK,GAAIC,KAAOF,GAAW,CACvB,GAAIG,GAAQH,EAAWE,GACnBE,EAAWF,EAAIG,aACnBnB,MAAKS,QAASS,GAAaD,KAIvCG,UAAW,WACP,MAAOpB,MAAKU,MAAOV,KAAKU,MAAMW,cAAYC,IAE9CC,OAAQ,WACJ,MAAOvB,MAAKS,WAQhBe,EAAyBjC,SAASkC,WAAWhC,OAAQP,EAAQQ,eAAgBD,QAC7EE,cArDe,WAwDf+B,QAAUC,OAAOC,KAAO,MACxBC,SAAU,EACVC,MAAQxC,GAqBZ,QACIA,SAAWA,EACXyC,0BApB4BP,EAAuB/B,QAEnDuC,IAAM,WACF,MAAOhC,MAAK0B,QAAU,cAAgB1B,KAAKiC,WAAa,gBAkB5DC,uBAdyBV,EAAuB/B,QAEhDuC,IAAM,WACF,MAAOhC,MAAK0B,QAAU,UAAY1B,KAAKmC,QAAU,cAErDN,SAAU","file":"../../../scripts/mvc/citation/citation-model.js","sourcesContent":["define([\n    \"libs/bibtex\",\n    \"mvc/base-mvc\",\n    \"utils/localization\"\n], function( parseBibtex, baseMVC, _l ){\n/* global Backbone */\n// we use amd here to require, but bibtex uses a global or commonjs pattern.\n// webpack will load via commonjs and plain requirejs will load as global. Check both\nparseBibtex = parseBibtex || window.BibtexParser;\n\nvar logNamespace = 'citation';\n//==============================================================================\n/** @class model for tool citations.\n *  @name Citation\n *  @augments Backbone.Model\n */\nvar Citation = Backbone.Model.extend( baseMVC.LoggableMixin ).extend({\n    _logNamespace : logNamespace,\n\n    defaults : {\n        content: ''\n    },\n\n    initialize: function() {\n        var parsed;\n        try {\n            // TODO: to model.parse/.validate\n            parsed = parseBibtex( this.attributes.content );\n        } catch( err ){\n            return;\n        }\n        // bibtex returns successfully parsed in .entries and any parsing errors in .errors\n        if( parsed.errors.length ){\n            // the gen. form of these errors seems to be [ line, col, char, error message ]\n            var errors = parsed.errors.reduce( function( all, current ){ return all + '; ' + current; });\n            // throw new Error( 'Error parsing bibtex: ' + errors );\n            this.log( 'Error parsing bibtex: ' + errors );\n        }\n\n        this._fields = {};\n        this.entry = _.first( parsed.entries );\n        if( this.entry ){\n            var rawFields = this.entry.Fields;\n            for( var key in rawFields ){\n                var value = rawFields[ key ];\n                var lowerKey = key.toLowerCase();\n                this._fields[ lowerKey ] = value;\n            }\n        }\n    },\n    entryType: function() {\n        return this.entry? this.entry.EntryType : undefined;\n    },\n    fields: function() {\n        return this._fields;\n    }\n});\n\n\n//==============================================================================\n/** @class Backbone collection of citations.\n */\nvar BaseCitationCollection = Backbone.Collection.extend( baseMVC.LoggableMixin ).extend( {\n    _logNamespace : logNamespace,\n\n    /** root api url */\n    urlRoot : Galaxy.root + 'api',\n    partial : true, // Assume some tools in history/workflow may not be properly annotated yet.\n    model : Citation,\n} );\n\nvar HistoryCitationCollection = BaseCitationCollection.extend( {\n    /** complete api url */\n    url : function() {\n        return this.urlRoot + '/histories/' + this.history_id + '/citations';\n    }\n} );\n\nvar ToolCitationCollection = BaseCitationCollection.extend( {\n    /** complete api url */\n    url : function() {\n        return this.urlRoot + '/tools/' + this.tool_id + '/citations';\n    },\n    partial : false, // If a tool has citations, assume they are complete.\n} );\n\n\n//==============================================================================\n\nreturn {\n    Citation : Citation,\n    HistoryCitationCollection  : HistoryCitationCollection,\n    ToolCitationCollection: ToolCitationCollection\n};\n\n\n});"]}

static/maps/mvc/dataset/dataset-list.js.map

@@ -1 +1 @@
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+{"version":3,"sources":["mvc/dataset/dataset-list.js"],"names":["define","LIST_VIEW","DATASET_LI","BASE_MVC","_l","_super","ListPanel","DatasetList","extend","_logNamespace","viewClass","DatasetListItemView","className","prototype","noneFoundMsg","initialize","attributes","call","this","toString","collection"],"mappings":"AAAAA,QACI,qBACA,yBACA,eACA,sBACD,SAAUC,EAAWC,EAAYC,EAAUC,GAC9C,YAEA,IAKIC,GAASJ,EAAUK,SA6BnB,QACIC,YA3BUF,EAAOG,QAErBC,cAVe,UAafC,UAAkBR,EAAWS,oBAC7BC,UAAkBP,EAAOQ,UAAUD,UAAY,gBAG/CE,aAAkBV,EAAI,8BAMtBW,WAAa,SAAUC,GACnBX,EAAOQ,UAAUE,WAAWE,KAAMC,KAAMF,IAI5CG,SAAW,WACP,MAAO,eAAiBD,KAAKE,WAAa","file":"../../../scripts/mvc/dataset/dataset-list.js","sourcesContent":["define([\n    \"mvc/list/list-view\",\n    \"mvc/dataset/dataset-li\",\n    \"mvc/base-mvc\",\n    \"utils/localization\"\n], function( LIST_VIEW, DATASET_LI, BASE_MVC, _l ){\n'use strict';\n\nvar logNamespace = 'dataset';\n/* =============================================================================\nTODO:\n\n============================================================================= */\nvar _super = LIST_VIEW.ListPanel;\n/** @class  non-editable, read-only View/Controller for a list of datasets.\n */\nvar DatasetList = _super.extend(\n/** @lends DatasetList.prototype */{\n    _logNamespace : logNamespace,\n\n    /** class to use for constructing the sub-views */\n    viewClass       : DATASET_LI.DatasetListItemView,\n    className       : _super.prototype.className + ' dataset-list',\n\n    /** string to no hdas match the search terms */\n    noneFoundMsg    : _l( 'No matching datasets found' ),\n\n    // ......................................................................... SET UP\n    /** Set up the view, set up storage, bind listeners to HistoryContents events\n     *  @param {Object} attributes optional settings for the panel\n     */\n    initialize : function( attributes ){\n        _super.prototype.initialize.call( this, attributes );\n    },\n\n    /** Return a string rep of the history */\n    toString : function(){\n        return 'DatasetList(' + this.collection + ')';\n    }\n});\n\n//==============================================================================\n    return {\n        DatasetList : DatasetList\n    };\n});\n"]}

static/maps/mvc/dataset/states.js.map

@@ -1 +1 @@
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static/maps/mvc/history/hda-li-edit.js.map

@@ -1 +1 @@
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static/maps/mvc/history/hda-li.js.map

@@ -1 +1 @@
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static/maps/mvc/history/hda-model.js.map

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static/maps/mvc/history/hdca-li-edit.js.map

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static/maps/mvc/history/history-content-model.js.map

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static/maps/mvc/history/history-preferences.js.map

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