Checkin.

From what I can tell, the bottleneck is in selectize itself. Will drop
this and work on select2.

.gitignore

@@ -15,4 +15,4 @@
 /libpeerconnection.log
 npm-debug.log
 testem.log
-.firebase
+.divshot-cache

app/adapters/user.js

@@ -1,7 +0,0 @@
-import ApplicationAdapter from '../adapters/application';
-
-export default ApplicationAdapter.extend({
-  // If coalesceFindRequests is on, and we 403 on any requests, ESA logs
-  // the current user out. Better to split the requests up at the adapter level.
-  coalesceFindRequests: false,
-});

app/authenticators/oauth2.js

@@ -1,70 +1,6 @@
 import OAuth2PasswordGrant from 'ember-simple-auth/authenticators/oauth2-password-grant';
 import config from '../config/environment';
-import parseBase64 from '../utils/parse-base64';
-import Ember from 'ember';
-const { RSVP: { Promise }, isEmpty, run, Logger: { warn } } = Ember;
 
 export default OAuth2PasswordGrant.extend({
   serverTokenEndpoint: `${config.apiURL}/api/authenticate`,
-  serverTokenRefreshEndpoint: `${config.apiURL}/api/refresh`,
-
-  authenticate: function(identification, password) {
-    return new Promise((resolve, reject) => {
-      const data = { username: identification, password };
-      const serverTokenEndpoint = this.get('serverTokenEndpoint');
-      this.makeRequest(serverTokenEndpoint, data).then((response) => {
-        run(() => {
-          const token = parseBase64(response['access_token']);
-          const expiresAt = this._absolutizeExpirationTime(token['exp']);
-          this._scheduleAccessTokenRefresh(expiresAt, response['access_token']);
-          if (!isEmpty(expiresAt)) {
-            response = Ember.merge(response, { 'expires_at': expiresAt });
-          }
-          resolve(response);
-        });
-      }, (xhr) => {
-        run(null, reject, xhr.responseJSON || xhr.responseText);
-      });
-    });
-  },
-
-  _scheduleAccessTokenRefresh: function(expiresAt, accessToken) {
-    if (this.get('refreshAccessTokens')) {
-      const now = (new Date()).getTime();
-      const offset = (Math.floor(Math.random() * 5) + 5) * 1000;
-      if (!isEmpty(accessToken) && !isEmpty(expiresAt) && expiresAt > now - offset) {
-        run.cancel(this._refreshTokenTimeout);
-        delete this._refreshTokenTimeout;
-        if (!Ember.testing) {
-          this._refreshTokenTimeout = run.later(this, this._refreshAccessToken, expiresAt, accessToken, expiresAt - now - offset);
-        }
-      }
-    }
-  },
-
-  _refreshAccessToken: function(expiresAt, accessToken) {
-    const data = { 'token': accessToken };
-    const serverTokenRefreshEndpoint = this.get('serverTokenRefreshEndpoint');
-    return new Promise((resolve, reject) => {
-      this.makeRequest(serverTokenRefreshEndpoint, data).then((response) => {
-        run(() => {
-          const token = parseBase64(response['access_token']);
-          const expiresAt = this._absolutizeExpirationTime(token['exp']);
-          const data = Ember.merge(response, { 'expires_at': expiresAt });
-          this._scheduleAccessTokenRefresh(expiresAt, response['access_token']);
-          this.trigger('sessionDataUpdated', data);
-          resolve(data);
-        });
-      }, (xhr, status, error) => {
-        warn(`Access token could not be refreshed - server responded with ${error}.`);
-        reject();
-      });
-    });
-  },
-
-  _absolutizeExpirationTime: function(expiresAt) {
-    if (!isEmpty(expiresAt)) {
-      return new Date(expiresAt * 1000).getTime();
-    }
-  }
 });

app/helpers/get-property.js

@@ -2,6 +2,7 @@ import Ember from 'ember';
 
 const { get, Helper: { helper } } = Ember;
 
+// This will be unneccesary when ember 2.0 lands
 export default helper(function(params) {
   return get(params[0], params[1]);
 });

app/initializers/global-variables.js

@@ -0,0 +1,20 @@
+import Ember from 'ember';
+import config from '../config/environment';
+
+var globals = Ember.Object.extend({
+  genus: config.APP.genus,
+  apiURL: config.apiURL,
+});
+
+export function initialize(container, application) {
+  application.register('service:globals', globals, {singleton: true});
+  application.inject('route', 'globals', 'service:globals');
+  application.inject('controller', 'globals', 'service:globals');
+  application.inject('component', 'globals', 'service:globals');
+  application.inject('adapter', 'globals', 'service:globals');
+}
+
+export default {
+  name: 'global-variables',
+  initialize: initialize
+};

app/mirage/config.js

@@ -19,13 +19,11 @@ export function testConfig() {
   this.post('/species');
   this.get('/species/:id');
   this.put('/species/:id');
-  this.delete('/species/:id');
 
   this.get('/characteristics');
   this.post('/characteristics');
   this.get('/characteristics/:id');
   this.put('/characteristics/:id');
-  this.delete('/characteristics/:id');
 
   this.get('/strains', function(db /*, request*/) {
     return {
@@ -41,5 +39,4 @@ export function testConfig() {
     };
   });
   this.put('/strains/:id');
-  this.delete('/strains/:id');
 }

app/mixins/delete-model.js

@@ -8,10 +8,6 @@ export default Mixin.create({
   actions: {
     delete: function() {
       this.get('model').destroyRecord().then(() => {
-        // Instead of unloading the entire store, we keep the loaded user models
-        ['species', 'strain', 'characteristic', 'measurement'].map((model) => {
-          this.get('store').unloadAll(model);
-        });
         this.transitionToRoute(this.get('transitionRoute'));
       });
     },

app/mixins/save-model.js

@@ -23,16 +23,11 @@ export default Mixin.create({
 
     cancel: function() {
       const model = this.get('model');
-      const isNew = model.get('isNew');
 
       model.get('errors').clear();
       model.rollbackAttributes();
 
-      if (isNew) {
-        this.transitionToRoute(this.get('fallbackRouteCancel'));
-      } else {
-        this.transitionToRoute(this.get('fallbackRouteCancel'), model);
-      }
+      this.transitionToRoute(this.get('fallbackRouteCancel'), model);
     },
   },
 });

app/models/species.js

@@ -1,5 +1,6 @@
 import DS from 'ember-data';
 import config from '../config/environment';
+import Ember from 'ember';
 
 const { Model, attr, hasMany } = DS;
 
@@ -16,4 +17,9 @@ export default Model.extend({
   updatedBy   : attr('number'),
   sortOrder   : attr('number'),
   canEdit     : attr('boolean'),
+
+  // TODO: move this to component/helper
+  speciesNameMU: function() {
+    return Ember.String.htmlSafe(`<em>${this.get('speciesName')}</em>`);
+  }.property('speciesName').readOnly(),
 });

app/models/strain.js

@@ -2,7 +2,6 @@ import DS from 'ember-data';
 import Ember from 'ember';
 
 const { Model, hasMany, belongsTo, attr } = DS;
-const { computed, String: { htmlSafe } } = Ember;
 
 export default Model.extend({
   measurements       : hasMany('measurements', { async: false }),
@@ -23,8 +22,19 @@ export default Model.extend({
   sortOrder          : attr('number'),
   canEdit            : attr('boolean'),
 
-  fullNameMU: computed('species', 'strainName', function() {
-    const type = this.get('typeStrain') ? '<sup>T</sup>' : '';
-    return htmlSafe(`<em>${this.get('species.speciesName')}</em> ${this.get('strainName')}${type}`);
+  // TODO: move this to component/helper
+  strainNameMU: function() {
+    let type = this.get('typeStrain') ? '<sup>T</sup>' : '';
+    return Ember.String.htmlSafe(`${this.get('strainName')}${type}`);
+  }.property('strainName', 'typeStrain').readOnly(),
+
+  // TODO: move this to component/helper
+  fullName: Ember.computed('species', 'strainName', function() {
+    return `${this.get('species.speciesName')} ${this.get('strainNameMU')}`;
   }),
+
+  // TODO: move this to component/helper
+  fullNameMU: function() {
+    return Ember.String.htmlSafe(`<em>${this.get('species.speciesName')}</em> ${this.get('strainNameMU')}`);
+  }.property('species', 'strainNameMU').readOnly(),
 });

app/pods/application/adapter.js

@@ -1,13 +1,9 @@
 import DS from 'ember-data';
 import DataAdapterMixin from 'ember-simple-auth/mixins/data-adapter-mixin';
-import Ember from 'ember';
 
-const { inject: { service } } = Ember;
 const { RESTAdapter } = DS;
 
 export default RESTAdapter.extend(DataAdapterMixin, {
-  globals: service(),
-
   authorizer: 'authorizer:application',
 
   namespace: function() {

app/pods/components/delete-button/component.js

@@ -1,23 +1,13 @@
 import Ember from 'ember';
 
-const { Component } = Ember;
+export default Ember.Component.extend({
+  tagName: 'button',
+  classNames: ["button-red", "smaller"],
 
-export default Component.extend({
-  tagName: 'span',
-  showConfirmDelete: false,
-
-  actions: {
-    initialClick: function() {
-      this.set('showConfirmDelete', true);
-    },
-
-    cancelDelete: function() {
-      this.set('showConfirmDelete', false);
-    },
-
-    confirmDelete: function() {
+  click: function() {
+    if (window.confirm("Do you really want to delete this?")) {
       this.attrs.delete();
-    },
+    }
   },
 
 });

app/pods/components/delete-button/template.hbs

@@ -1,12 +1 @@
-{{#unless showConfirmDelete}}
-  <button class="button-red smaller delete" {{action "initialClick"}}>
-    Delete
-  </button>
-{{else}}
-  <button class="button-red smaller delete-confirm" {{action "confirmDelete"}}>
-    Confirm Delete
-  </button>
-  <button class="button-gray smaller delete-cancel" {{action "cancelDelete"}}>
-    Cancel Delete
-  </button>
-{{/unless}}
+Delete

app/pods/components/genus-name/component.js

@@ -1,14 +1,8 @@
 import Ember from 'ember';
 
-const { Component, computed, inject: { service } } = Ember;
-
-export default Component.extend({
-  globals: service(),
-
+export default Ember.Component.extend({
   tagName: 'em',
-
-  genus: computed('globals.genus', function() {
+  genus: function() {
     return this.get('globals.genus').capitalize();
-  }),
-
+  }.property().readOnly(),
 });

app/pods/components/site-logo/component.js

@@ -1,7 +1,3 @@
 import Ember from 'ember';
 
-const { Component, inject: { service } } = Ember;
-
-export default Component.extend({
-  globals: service(),
-});
+export default Ember.Component.extend({});

app/pods/components/strain-name/template.hbs

@@ -1 +0,0 @@
-{{strain.strainName}}{{{if strain.typeStrain '<sup>T</sup>' ''}}}

app/pods/components/text-editor/component.js

@@ -1,25 +1,13 @@
 import Ember from 'ember';
 /* global Quill */
 
-const { Component } = Ember;
-
-export default Component.extend({
-  // Passed in
-  value: null,
-
-  // Internal
+export default Ember.Component.extend({
   quill: null,
-
-  didReceiveAttrs() {
-    this._super(...arguments);
-
-    if (!this.attrs.update) {
-      throw new Error(`You must provide an \`update\` action.`);
-    }
-  },
+  value: null,
+  update: null,
 
   didInsertElement: function() {
-    const quill = new Quill(`#${this.get('elementId')} .editor`, {
+    let quill = new Quill(`#${this.get('elementId')} .editor`, {
       formats: ['bold', 'italic', 'underline'],
       modules: {
         'toolbar': { container: `#${this.get('elementId')} .toolbar` }

app/pods/components/x-application/component.js

@@ -1,12 +1,10 @@
 import Ember from 'ember';
 
-const { Component, inject: { service } } = Ember;
-
-export default Component.extend({
+export default Ember.Component.extend({
   classNames: ["flakes-frame"],
 
-  session: service(),
-  currentUser: service('session-account'),
+  session: Ember.inject.service('session'),
+  currentUser: Ember.inject.service('session-account'),
 
   didInsertElement: function() {
     FlakesFrame.init();

app/pods/components/x-application/template.hbs

@@ -33,7 +33,7 @@
       <br>
       {{link-to 'Sign Up' 'users.new'}}
       <br>
-      {{link-to 'Reset Password' 'users.requestlockouthelp'}}
+      {{link-to 'Locked Out?' 'users.requestlockouthelp'}}
     </p>
   {{/if}}
 </div>

app/pods/components/x-select/component.js

@@ -1,54 +1,50 @@
 import Ember from 'ember';
 
-const { Component, get, run: { schedule } } = Ember;
+const { Component, isEmpty } = Ember;
 
 export default Component.extend({
   tagName: 'select',
+
+  nameAttr: null,
+  listItems: null,
+  placeholder: null,
+  selected: null,
+  selectize: null,
+  multiple: false,
+
   attributeBindings: [
     'multiple',
   ],
 
-  options: null,
-  selected: null,
-  nameAttr: null,
-  placeholder: null,
-
   change: function() {
-    let selectedInComponent = this.get('selected');
-    let selectedInWidget = this.$().val();
-
-    if (this.get('multiple')) {
-      if (selectedInWidget === null) {
-        selectedInWidget = [];
-      }
-      selectedInComponent = selectedInComponent.toString();
-      selectedInWidget = selectedInWidget.toString();
-    }
-
-    // We need this to prevent an infinite loop of afterRender -> change.
-    if (selectedInComponent !== selectedInWidget) {
-      this.attrs.update(this.$().val());
-    }
+    this.attrs["update"](this.$()[0].selectize.getValue());
   },
 
-  didInsertElement: function() {
-    let options = {};
-    options.placeholder = this.get('placeholder');
-    options.templateResult = function(item) {
-      if (!item.disabled) {
-        const text = get(item, 'element.innerHTML');
-        const $item = Ember.$(`<span>${text}</span>`);
-        return $item;
-      }
-    };
-    this.$().select2(options);
-  },
+  didReceiveAttrs: function() {
+    this._super(...arguments);
+    console.log('didReceiveAttrs');
 
-  didRender: function() {
-    const selected = this.get('selected');
-    schedule('afterRender', this, function() {
-      this.$().val(selected).trigger('change');
+    if (!this.attrs.update) {
+      throw new Error(`You must provide an \`update\` action.`);
+    }
+
+    Ember.run.schedule('actions', this, () => {
+      console.log('before adding');
+      this.$()[0].selectize.setValue(this.get('selected'), true);
+      console.log('after adding')
     });
   },
 
+  didInsertElement: function() {
+    console.log('didInsertElement');
+    const options = {
+      closeAfterSelect: true,
+      selectOnTab: true,
+      plugins: ['drag_drop'],
+      items: this.get('selected'),
+    }
+
+    this.$().selectize(options);
+  },
+
 });

app/pods/components/x-select/template.hbs

@@ -1,3 +1,6 @@
-{{#each options as |option|}}
-  <option value={{option.id}}>{{get-property option nameAttr}}</option>
+{{#if placeholder}}
+  <option value="">{{placeholder}}</option>
+{{/if}}
+{{#each listItems as |option|}}
+  <option value={{option.id}} selected={{equal option.id value.id}}>{{get-property option nameAttr}}</option>
 {{/each}}

app/pods/login/login-form/template.hbs

@@ -10,7 +10,3 @@
 <div>
   {{link-to 'Forget your password?' 'users.requestlockouthelp'}}
 </div>
-<br>
-<div>
-  Just checking things out? Log in with email <code>read-only</code> and password <code>bacteria</code>!
-</div>

app/pods/protected/characteristics/show/characteristic-card/template.hbs

@@ -26,6 +26,7 @@
         <dl class="span-2">
           <dt>Measurements</dt>
           <dd>
+            <p>To add/edit/remove a measurement, please visit the strain's page (links below)</p>
             {{protected/characteristics/show/measurements-table characteristic=characteristic}}
           </dd>
         </dl>

app/pods/protected/characteristics/show/measurements-table/component.js

@@ -1,7 +1,7 @@
 import Ember from 'ember';
 
 const { Component, computed } = Ember;
-const { alias, sort } = computed;
+const { sort } = computed;
 
 export default Component.extend({
   characteristic: null,
@@ -10,9 +10,10 @@ export default Component.extend({
     return this.get('characteristic.measurements.length') > 0;
   }),
 
-  measurements: alias('characteristic.measurements'),
-  sortParams: ['strain.sortOrder'],
-  sortedMeasurements: sort('measurements', 'sortParams'),
+  sortParams: ['characteristic.characteristicTypeName', 'characteristic.sortOrder', 'characteristic.characteristicName'],
+  sortAsc: true,
+  paramsChanged: false,
+  sortedMeasurements: sort('characteristic.measurements', 'sortParams'),
 
   actions: {
     changeSortParam: function(col) {

app/pods/protected/characteristics/show/measurements-table/template.hbs

@@ -7,24 +7,24 @@
 <table class="flakes-table">
   <thead>
     <tr>
-      <th {{action "changeSortParam" "strain.sortOrder"}} class="click">Strain</th>
+      <th {{action "changeSortParam" "strain.strainName"}} class="click">Strain</th>
       <th {{action "changeSortParam" "value"}} class="click">Value</th>
       <th {{action "changeSortParam" "notes"}} class="click">Notes</th>
     </tr>
   </thead>
   <tbody>
-    {{#each sortedMeasurements as |measurement|}}
+    {{#each sortedMeasurements as |row|}}
       <tr>
         <td>
-          {{#link-to 'protected.strains.show' measurement.strain.id classBinding="measurement.strain.typeStrain:type-strain"}}
-            {{measurement.strain.fullNameMU}}
+          {{#link-to 'protected.strains.show' row.strain.id}}
+            {{{row.strain.strainNameMU}}}
           {{/link-to}}
         </td>
         <td>
-          {{measurement.value}}
+          {{row.value}}
         </td>
         <td>
-          {{measurement.notes}}
+          {{row.notes}}
         </td>
       </tr>
     {{/each}}

app/pods/protected/characteristics/show/route.js

@@ -4,7 +4,7 @@ const { Route } = Ember;
 
 export default Route.extend({
   model: function(params) {
-    return this.store.findRecord('characteristic', params.characteristic_id, { reload: true });
+    return this.store.findRecord('characteristic', params.characteristic_id);
   },
 
 });

app/pods/protected/compare/controller.js

@@ -3,8 +3,8 @@ import Ember from 'ember';
 const { Controller } = Ember;
 
 export default Controller.extend({
-  selectedStrains: [],
-  selectedCharacteristics: [],
+  selectedStrains: null,
+  selectedCharacteristics: null,
 
   actions: {
     search: function(query) {
@@ -12,10 +12,12 @@ export default Controller.extend({
     },
 
     updateStrainSelection: function(selection) {
+      console.log(selection);
       this.set('selectedStrains', selection);
     },
 
     updateCharacteristicSelection: function(selection) {
+      console.log(selection);
       this.set('selectedCharacteristics', selection);
     },
   }

app/pods/protected/compare/results/results-table/component.js

@@ -4,7 +4,6 @@ const { Component, computed, inject: { service } } = Ember;
 
 export default Component.extend({
   session: service(),
-  globals: service(),
 
   strains: null,
   characteristics: null,

app/pods/protected/compare/results/results-table/template.hbs

@@ -14,16 +14,8 @@
   <tbody>
     {{#each characteristics as |row|}}
       <tr>
-        {{#each row key="@index" as |col index|}}
-          <td>
-            {{#unless index}}
-              {{#link-to 'protected.characteristics.show' col.id}}
-                {{col.characteristicName}}
-              {{/link-to}}
-            {{else}}
-              {{col}}
-            {{/unless}}
-          </td>
+        {{#each row key="@index" as |col|}}
+          <td>{{col}}</td>
         {{/each}}
       </tr>
     {{/each}}

app/pods/protected/compare/results/route.js

@@ -30,15 +30,16 @@ export default Route.extend({
     }
 
     const compare = this.controllerFor('protected.compare');
-    compare.set('selectedStrains', params.strain_ids.split(","));
-    compare.set('selectedCharacteristics', params.characteristic_ids.split(","));
+    compare.set('selectedStrains', params.strain_ids.split(','));
+    compare.set('selectedCharacteristics', params.characteristic_ids.split(','));
 
     return this.get('ajax').request('/compare', { data: params });
   },
 
   setupController: function(controller, model) {
     model.forEach((m, i) => {
-      model[i][0] = this.store.peekRecord('characteristic', m[0]);
+      const c = this.store.peekRecord('characteristic', m[0]);
+      model[i][0] = c.get('characteristicName');
     });
 
     const compare = this.controllerFor('protected.compare');

app/pods/protected/compare/select-form/component.js

@@ -1,6 +1,6 @@
 import Ember from 'ember';
 
-const { Component, computed: { sort } } = Ember;
+const { Component } = Ember;
 
 export default Component.extend({
   characteristics: null,
@@ -10,23 +10,12 @@ export default Component.extend({
   "update-strains": null,
   "update-characteristics": null,
 
-
-  charSortParams: ['characteristicTypeName', 'sortOrder', 'characteristicName'],
-  sortedCharacteristics: sort('characteristics', 'charSortParams'),
-  strainSortParams: ['sortOrder'],
-  sortedStrains: sort('strains', 'sortParams'),
-
-  selectedStrains: [],
-  selectedCharacteristics: [],
-
   updateStrains: function(selection) {
-    this.set('selectedStrains', selection);
-    this.attrs['update-strains'](this.get('selectedStrains'));
+    this.attrs["update-strains"](selection);
   },
 
   updateCharacteristics: function(selection) {
-    this.set('selectedCharacteristics', selection);
-    this.attrs['update-characteristics'](this.get('selectedCharacteristics'));
+    this.attrs['update-characteristics'](selection);
   },
 
   actions: {
@@ -68,7 +57,7 @@ export default Component.extend({
       this.updateStrains(selection);
     },
 
-    updateCharacteristicsSelection: function(selection) {
+    updateCharacteristicSelection: function(selection) {
       this.updateCharacteristics(selection);
     },
   },

app/pods/protected/compare/select-form/template.hbs

@@ -6,12 +6,12 @@
           <label>Strains</label>
           {{
             x-select
-            options=sortedStrains
-            nameAttr='fullNameMU'
+            listItems=strains
+            nameAttr="fullNameMU"
+            update=(action "updateStrainSelection")
+            placeholder="Select one ore more strains"
             multiple=true
             selected=selectedStrains
-            update=(action "updateStrainSelection")
-            placeholder="Select one or more strains"
           }}
         </li>
         <li>
@@ -26,12 +26,12 @@
           <label>Characteristics</label>
           {{
             x-select
-            options=sortedCharacteristics
-            nameAttr='characteristicName'
+            listItems=characteristics
+            nameAttr="characteristicName"
+            update=(action "updateCharacteristicSelection")
+            placeholder="Select one ore more characteristics"
             multiple=true
             selected=selectedCharacteristics
-            update=(action "updateCharacteristicsSelection")
-            placeholder="Select one or more characteristics"
           }}
         </li>
         <li>

app/pods/protected/species/index/species-table/component.js

@@ -6,7 +6,7 @@ const { Component, computed: { sort } } = Ember;
 export default Component.extend(SetupMetaData, {
   species: null,
 
-  sortParams: ['sortOrder'],
+  sortParams: ['speciesName', 'strainCount'],
   sortedSpecies: sort('species', 'sortParams'),
 
 });

app/pods/protected/species/index/species-table/template.hbs

@@ -23,7 +23,7 @@
           {{#each species.strains as |strain index|}}
             {{if index ","}}
             {{#link-to 'protected.strains.show' strain.id}}
-              {{strain-name strain=strain}}
+              {{{strain.strainNameMU}}}
             {{/link-to}}
           {{/each}}
         </td>

app/pods/protected/species/show/route.js

@@ -4,7 +4,7 @@ const { Route } = Ember;
 
 export default Route.extend({
   model: function(params) {
-    return this.store.findRecord('species', params.species_id, { reload: true });
+    return this.store.findRecord('species', params.species_id);
   },
 
 });

app/pods/protected/species/show/species-card/template.hbs

@@ -14,7 +14,7 @@
               {{#each species.strains as |strain index|}}
                 <li>
                   {{#link-to 'protected.strains.show' strain.id}}
-                    {{strain-name strain=strain}}
+                    {{{strain.strainNameMU}}}
                   {{/link-to}}
                 </li>
               {{/each}}

app/pods/protected/species/species-form/template.hbs

@@ -19,7 +19,7 @@
         {{#each strains as |strain index|}}
           {{if index ","}}
           {{#link-to 'protected.strains.show' strain.id}}
-            {{strain-name strain=strain}}
+            {{{strain.strainNameMU}}}
           {{/link-to}}
         {{/each}}
         {{add-button label="Add Strain" link="protected.strains.new" canAdd=metaData.canAdd}}

app/pods/protected/strains/edit/controller.js

@@ -1,61 +1,36 @@
 import Ember from 'ember';
+import SaveModel from '../../../../mixins/save-model';
+import ajaxError from '../../../../utils/ajax-error';
 
-const { Controller, RSVP, inject: { service } } = Ember;
-
-export default Controller.extend({
-  ajaxError: service('ajax-error'),
+const { Controller } = Ember;
 
+export default Controller.extend(SaveModel, {
+  // Required for SaveModel mixin
   fallbackRouteSave: 'protected.strains.show',
   fallbackRouteCancel: 'protected.strains.show',
 
   actions: {
-    save: function(properties, deleteQueue, updateQueue) {
-      let promises = [];
-      properties.measurements.forEach((measurement) => {
-        if (measurement.get('isNew')) {
-          promises.push(measurement.save());
-        }
-      });
-
-      updateQueue.forEach((measurement) => {
-        promises.push(measurement.save());
-      });
-
-      deleteQueue.forEach((measurement) => {
-        promises.push(measurement.destroyRecord());
-      });
-
-      const model = this.get('model');
-      const fallbackRoute = this.get('fallbackRouteSave');
-
-      RSVP.all(promises).then(() => {
-        // Can't call _super inside promise, have to reproduce save-model
-        // mixin here :-(
-        model.setProperties(properties);
-        model.save().then((model) => {
-          this.get('flashMessages').clearMessages();
-          this.transitionToRoute(fallbackRoute, model);
-        });
-      }, (errors) => {
-        this.get('ajaxError').alert(errors);
+    addCharacteristic: function() {
+      return this.store.createRecord('measurement', {
+        characteristic: this.store.createRecord('characteristic', { sortOrder: -999 }),
       });
     },
 
-    cancel: function() {
-      const model = this.get('model');
+    saveMeasurement: function(measurement, properties) {
+      measurement.setProperties(properties);
+      measurement.save().then(() => {
+        this.get('flashMessages').clearMessages();
+      }, () => {
+        ajaxError(measurement.get('errors'), this.get('flashMessages'));
+      });
+    },
 
-      model.get('errors').clear();
-      model.rollbackAttributes();
-
-      if (model.get('isNew')) {
-        this.transitionToRoute(this.get('fallbackRouteCancel'));
-      } else {
-        this.transitionToRoute(this.get('fallbackRouteCancel'), model);
+    deleteMeasurement: function(measurement) {
+      const characteristic = measurement.get('characteristic');
+      if (characteristic.get('isNew')) {
+        characteristic.destroyRecord();
       }
-    },
-
-    addMeasurement: function() {
-      return this.store.createRecord('measurement');
+      measurement.destroyRecord();
     },
 
   },

app/pods/protected/strains/edit/template.hbs

@@ -2,8 +2,10 @@
   protected/strains/strain-form
   strain=model
   speciesList=speciesList
-  add-measurement=(action "addMeasurement")
+  add-characteristic=(action "addCharacteristic")
   allCharacteristics=allCharacteristics
+  save-measurement=(action "saveMeasurement")
+  delete-measurement=(action "deleteMeasurement")
   on-save=(action "save")
   on-cancel=(action "cancel")
 }}

app/pods/protected/strains/index/strain-table/component.js

@@ -6,7 +6,7 @@ const { Component, computed: { sort } } = Ember;
 export default Component.extend(SetupMetaData, {
   strains: null,
 
-  sortParams: ['sortOrder'],
+  sortParams: ['fullName'],
   sortedStrains: sort('strains', 'sortParams'),
 
 });

app/pods/protected/strains/index/strain-table/template.hbs

@@ -13,7 +13,7 @@
     {{#each sortedStrains as |strain|}}
       <tr>
         <td>
-          {{#link-to 'protected.strains.show' strain classBinding="strain.typeStrain:type-strain"}}
+          {{#link-to 'protected.strains.show' strain classBinding="data.typeStrain:type-strain"}}
             {{strain.fullNameMU}}
           {{/link-to}}
         </td>

app/pods/protected/strains/measurements-table-row/component.js

@@ -10,8 +10,6 @@ export default Component.extend({
   allCharacteristics: null,
   measurement: null,
   isDirty: null,
-  isNew: false,
-  isQueued: false,
 
   // Actions
   "save-measurement": null,
@@ -24,23 +22,11 @@ export default Component.extend({
   notes: null,
 
   resetOnInit: Ember.on('init', function() {
-    this._resetProperties();
-  }),
-
-  _resetProperties: function() {
     this.get('propertiesList').forEach((field) => {
       const valueInMeasurement = this.get('measurement').get(field);
       this.set(field, valueInMeasurement);
     });
-    // Read-only attributes
-    this.set('isNew', this.get('measurement.isNew'));
-    if (this.get('isNew') && !this.get('isQueued')) {
-      this.set('isEditing', true);
-    } else {
-      this.set('isEditing', false);
-    }
-    this.set('isDirty', false);
-  },
+  }),
 
   updateField: function(property, value) {
     this.set(property, value);
@@ -54,22 +40,12 @@ export default Component.extend({
 
   actions: {
     edit: function() {
-      this.set('isEditing', true);
+      this.toggleProperty('isEditing');
     },
 
     save: function() {
       this.attrs['save-measurement'](this.get('measurement'), this.getProperties(this.get('propertiesList')));
-      this.set('isQueued', true);
-      this._resetProperties();
-    },
-
-    cancel: function() {
-      if (this.get('isNew')) {
-        this.attrs['delete-measurement'](this.get('measurement'));
-      } else {
-        this._resetProperties();
-        this.set('isEditing', false);
-      }
+      this.toggleProperty('isEditing');
     },
 
     delete: function() {

app/pods/protected/strains/measurements-table-row/loading/template.hbs

@@ -1 +0,0 @@
-{{loading-panel}}

app/pods/protected/strains/measurements-table-row/template.hbs

@@ -1,7 +1,5 @@
 {{#if isEditing}}
-  <td>
-    {{{characteristic.characteristicTypeName}}}
-  </td>
+  <td></td>
   <td>
     <select onchange={{action "characteristicDidChange" value="target.value"}}>
       {{#each allCharacteristics as |characteristicChoice|}}
@@ -17,13 +15,14 @@
   </td>
   {{#if canEdit}}
     <td>
-      <button class="button-gray smaller" {{action 'cancel'}}>
+      {{#if isDirty}}
+      <button class="button-green smaller" {{action 'save'}}>
+        Save
+      </button>
+      {{else}}
+      <button class="button-gray smaller" {{action 'save'}}>
         Cancel
       </button>
-      {{#if isDirty}}
-        <button class="button-green smaller" {{action 'save'}}>
-          Save
-        </button>
       {{/if}}
     </td>
   {{/if}}

app/pods/protected/strains/measurements-table/component.js

@@ -5,13 +5,13 @@ const { sort } = computed;
 
 export default Component.extend({
   // Passed in
-  measurements: null,
+  strain: null,
   allCharacteristics: null,
   canEdit: false,
   canAdd: false,
 
   // Actions
-  "add-measurement": null,
+  "add-characteristic": null,
   "save-measurement": null,
   "delete-measurement": null,
 
@@ -19,11 +19,15 @@ export default Component.extend({
   sortParams: ['characteristic.characteristicTypeName', 'characteristic.sortOrder', 'characteristic.characteristicName'],
   sortAsc: true,
   paramsChanged: false,
-  sortedMeasurements: sort('measurements', 'sortParams'),
+  sortedMeasurements: sort('strain.measurements', 'sortParams'),
+  measurementsPresent: computed('strain.measurements', function() {
+    return this.get('strain.measurements.length') > 0;
+  }),
 
   actions: {
-    addMeasurement: function() {
-      return this.attrs['add-measurement']();
+    addCharacteristic: function() {
+      const newChar = this.attrs['add-characteristic']();
+      this.get('strain.measurements').addObject(newChar);
     },
 
     changeSortParam: function(col) {

app/pods/protected/strains/measurements-table/template.hbs

@@ -1,16 +1,17 @@
 {{#if canAdd}}
   <br>
-  <button class="button-green smaller" {{action "addMeasurement"}}>
-    Add measurement
+  <button class="button-green smaller" {{action "addCharacteristic"}}>
+    Add characteristic
   </button>
   <br><br>
 {{/if}}
 
-{{#if paramsChanged}}
-  <button class="button-gray smaller" {{action 'resetSortParam'}}>
-    Reset sort
-  </button>
-{{/if}}
+{{#if measurementsPresent}}
+  {{#if paramsChanged}}
+    <button class="button-gray smaller" {{action 'resetSortParam'}}>
+      Reset sort
+    </button>
+  {{/if}}
 <table class="flakes-table">
   <colgroup>
     {{#if canEdit}}
@@ -47,10 +48,9 @@
         allCharacteristics=allCharacteristics
         canEdit=canEdit
       }}
-    {{else}}
-      <tr>
-        <td colspan="5">No Measurements on Record</td>
-      </tr>
     {{/each}}
   </tbody>
 </table>
+{{else}}
+No measurements on record.
+{{/if}}

app/pods/protected/strains/show/route.js

@@ -4,7 +4,7 @@ const { Route } = Ember;
 
 export default Route.extend({
   model: function(params) {
-    return this.store.findRecord('strain', params.strain_id, { reload: true });
+    return this.store.findRecord('strain', params.strain_id);
   },
 
 });

app/pods/protected/strains/show/strain-card/template.hbs

@@ -1,7 +1,7 @@
 <div class="span-1">
   <fieldset class="flakes-information-box">
     <legend>
-      {{strain-name strain=strain}}
+      {{strain.strainNameMU}}
     </legend>
 
     {{! ROW 1 }}
@@ -10,7 +10,7 @@
         <dt>Species</dt>
         <dd>
           {{#link-to 'protected.species.show' strain.species.id}}
-            <em>{{strain.species.speciesName}}</em>
+            <em>{{strain.species.speciesNameMU}}</em>
           {{/link-to}}
         </dd>
       </dl>
@@ -71,11 +71,11 @@
     {{! ROW 5 }}
     <div class="grid-1 gutter-20">
       <dl class="span-1">
-        <dt>Characteristic Measurements</dt>
+        <dt>Characteristics</dt>
         <dd>
           {{
             protected/strains/measurements-table
-            measurements=strain.measurements
+            strain=strain
             canEdit=false
             canAdd=false
           }}

app/pods/protected/strains/strain-form/component.js

@@ -1,7 +1,7 @@
 import Ember from 'ember';
 import SetupMetaData from '../../../../mixins/setup-metadata';
 
-const { Component, computed: { sort } } = Ember;
+const { Component } = Ember;
 
 export default Component.extend(SetupMetaData, {
   // Read-only attributes
@@ -9,22 +9,18 @@ export default Component.extend(SetupMetaData, {
   isNew: null,
   isDirty: false,
   speciesList: null,
-  allCharacteristics: [],
-  updateQueue: [],
-  deleteQueue: [],
+  allCharacteristics: null,
 
   // Actions
   "on-save": null,
   "on-cancel": null,
   "on-update": null,
-  "add-measurements": null,
-
-  // CPs
-  sortParams: ['sortOrder'],
-  sortedSpeciesList: sort('speciesList', 'sortParams'),
+  "add-characteristic": null,
+  "save-measurement": null,
+  "delete-measurement": null,
 
   // Property mapping
-  propertiesList: ['strainName', 'typeStrain', 'species', 'isolatedFrom', 'accessionNumbers', 'genbank', 'wholeGenomeSequence', 'notes', 'measurements'],
+  propertiesList: ['strainName', 'typeStrain', 'species', 'isolatedFrom', 'accessionNumbers', 'genbank', 'wholeGenomeSequence', 'notes'],
   strainName: null,
   typeStrain: null,
   species: null,
@@ -33,55 +29,15 @@ export default Component.extend(SetupMetaData, {
   genbank: null,
   wholeGenomeSequence: null,
   notes: null,
-  measurements: [],
-
-  // Dropdown menu
-  characteristics: [],
-  charSortParams: ['characteristicTypeName', 'sortOrder', 'characteristicName'],
-  sortedCharacteristics: sort('characteristics', 'charSortParams'),
-  setupCharacteristics: Ember.on('init', function() {
-    const tempArray = this._resetArray(this.get('allCharacteristics'));
-    this.set('characteristics', tempArray);
-  }),
 
   resetOnInit: Ember.on('init', function() {
-    this._resetProperties();
-  }),
-
-  _resetArray: function(arr) {
-    let tempArray = [];
-    arr.forEach((val) => {
-      if (!val.get('isNew')) {
-        tempArray.push(val);
-      }
-    });
-    return tempArray;
-  },
-
-  _resetProperties: function() {
-    // Still some coupling going on here because of adding strain to measurement
-    this.get('measurements').forEach((val) => {
-      if (val.get('hasDirtyAttributes')) {
-        val.rollbackAttributes();
-      }
-      if (val.get('isNew')) {
-        this.get('strain.measurements').removeObject(val);
-      }
-    });
     this.get('propertiesList').forEach((field) => {
       const valueInStrain = this.get('strain').get(field);
-      if (field === 'measurements') {
-        const tempArray = this._resetArray(valueInStrain);
-        this.set(field, tempArray);
-      } else {
-        this.set(field, valueInStrain);
-      }
+      this.set(field, valueInStrain);
     });
-    this.set('updateQueue', []);
-    this.set('deleteQueue', []);
     // Read-only attributes
     this.set('isNew', this.get('strain.isNew'));
-  },
+  }),
 
   updateField: function(property, value) {
     this.set(property, value);
@@ -95,32 +51,23 @@ export default Component.extend(SetupMetaData, {
 
   actions: {
     save: function() {
-      return this.attrs['on-save'](this.getProperties(this.get('propertiesList')), this.get('deleteQueue'), this.get('updateQueue'));
+      return this.attrs['on-save'](this.getProperties(this.get('propertiesList')));
     },
 
     cancel: function() {
-      this._resetProperties();
       return this.attrs['on-cancel']();
     },
 
-    addMeasurement: function() {
-      const measurement = this.attrs['add-measurement']();
-      this.get('measurements').pushObject(measurement);
+    addCharacteristic: function() {
+      return this.attrs['add-characteristic']();
     },
 
     saveMeasurement: function(measurement, properties) {
-      measurement.setProperties(properties);
-      measurement.set('strain', this.get('strain'));
-      if (!measurement.get('isNew')) {
-        this.get('updateQueue').pushObject(measurement);
-      }
-      this.set('isDirty', true);
+      return this.attrs['save-measurement'](measurement, properties);
     },
 
     deleteMeasurement: function(measurement) {
-      this.get('deleteQueue').pushObject(measurement);
-      this.get('measurements').removeObject(measurement);
-      this.set('isDirty', true);
+      return this.attrs['delete-measurement'](measurement);
     },
 
     strainNameDidChange: function(value) {
@@ -153,7 +100,7 @@ export default Component.extend(SetupMetaData, {
     },
 
     notesDidChange: function(value) {
-      this.updateField('notes', value);
+      this.updateField('strain.notes', value);
     },
   },
 });

app/pods/protected/strains/strain-form/template.hbs

@@ -15,13 +15,11 @@
     <div data-row-span="2">
       <div data-field-span="2">
         <label>Species</label>
-        {{
-          x-select
-          options=sortedSpeciesList
-          nameAttr='speciesName'
-          selected=species.id
-          update=(action "speciesDidChange")
-        }}
+        <select onchange={{action "speciesDidChange" value="target.value"}}>
+          {{#each speciesList as |speciesChoice|}}
+            <option value={{speciesChoice.id}} selected={{equal species.id speciesChoice.id}}>{{speciesChoice.speciesName}}</option>
+          {{/each}}
+        </select>
       </div>
     </div>
     <div data-row-span="2">
@@ -30,7 +28,7 @@
         {{text-editor value=isolatedFrom update=(action "isolatedFromDidChange")}}
       </div>
     </div>
-    <div data-row-span="2">
+    <div data-row-span="3">
       <div data-field-span="1">
         <label>Accession Numbers</label>
         {{one-way-input type="text" class="accession-numbers" value=accessionNumbers update=(action "accessionNumbersNameDidChange")}}
@@ -39,8 +37,6 @@
         <label>GenBank</label>
         {{one-way-input type="text" class="genbank" value=genbank update=(action "genbankDidChange")}}
       </div>
-    </div>
-    <div data-row-span="1">
       <div data-field-span="1">
         <label>Whole Genome Sequence</label>
         {{one-way-input type="text" class="whole-genome-sequenc" value=wholeGenomeSequence update=(action "wholeGenomeSequenceDidChange")}}
@@ -53,24 +49,18 @@
       </div>
     </div>
   </fieldset>
-  {{#if isNew}}
-    <div>
-      Please save before adding measurements
-    </div>
-  {{else}}
-    <div>
-      {{
-        protected/strains/measurements-table
-        measurements=measurements
-        add-measurement=(action "addMeasurement")
-        allCharacteristics=sortedCharacteristics
-        save-measurement=(action "saveMeasurement")
-        delete-measurement=(action "deleteMeasurement")
-        canEdit=strain.canEdit
-        canAdd=metaData.canAdd
-      }}
-    </div>
-  {{/if}}
+  <div>
+    {{
+      protected/strains/measurements-table
+      strain=strain
+      add-characteristic=(action "addCharacteristic")
+      allCharacteristics=allCharacteristics
+      save-measurement=(action "saveMeasurement")
+      delete-measurement=(action "deleteMeasurement")
+      canEdit=strain.canEdit
+      canAdd=metaData.canAdd
+    }}
+  </div>
   <br>
   <a class="button-red smaller" {{action 'cancel'}}>
     Cancel

app/pods/protected/users/changepassword/controller.js

@@ -5,23 +5,18 @@ const { Controller, inject: { service } } = Ember;
 export default Controller.extend({
   session: service(),
   ajax: service(),
-  ajaxError: service('ajax-error'),
   currentUser: service('session-account'),
 
   actions: {
     save: function(password) {
       const id = this.get('currentUser.account.id');
       const data = { id: id, password: password };
-      this.get('ajax').post('/users/password', { data: data }).then(() => {
-        this.transitionToRoute('protected.users.show', id);
-        this.get('flashMessages').information('Your password has been changed.');
-      }, (errors) => {
-        this.get('ajaxError').alert(errors);
-      });
+      this.get('ajax').post('/users/password', { data: data });
+      this.transitionToRoute('protected.users.show', id);
+      this.get('flashMessages').information('Your password has been changed.');
     },
 
     cancel: function() {
-      this.get('flashMessages').clearMessages();
       this.transitionToRoute('protected.users.show', this.get('currentUser.account.id'));
     },
   },

app/pods/protected/users/index/route.js

@@ -11,8 +11,6 @@ export default Route.extend({
       if (!user.get('isAdmin')) {
         this.transitionTo('protected.index');
       }
-    }, () => {
-      this.transitionTo('protected.index');
     });
   },
 

app/pods/protected/users/show/route.js

@@ -15,13 +15,11 @@ export default Route.extend({
       if (!user.get('isAdmin') && user.get('id') !== user_id) {
         this.transitionTo('protected.users.index');
       }
-    }, () => {
-      this.transitionTo('protected.users.index');
     });
   },
 
   model: function(params) {
-    return this.store.findRecord('user', params.user_id, { reload: true });
+    return this.store.findRecord('user', params.user_id);
   },
 
 });

app/serializers/application.js

@@ -5,41 +5,24 @@ const { RESTSerializer } = DS;
 const { isNone } = Ember;
 
 export default RESTSerializer.extend({
-  serializeBelongsTo: function(snapshot, json, relationship) {
-    const key = relationship.key;
-    if (this._canSerialize(key)) {
-      const belongsToId = snapshot.belongsTo(key, { id: true });
-      let payloadKey = this._getMappedKey(key, snapshot.type);
-      if (payloadKey === key && this.keyForRelationship) {
-        payloadKey = this.keyForRelationship(key, "belongsTo", "serialize");
-      }
-      if (isNone(belongsToId)) {
-        json[payloadKey] = null;
-      } else {
-        json[payloadKey] = +belongsToId;
-      }
+  isNewSerializerAPI: true,
 
-      if (relationship.options.polymorphic) {
-        this.serializePolymorphicType(snapshot, json, relationship);
-      }
-    }
+  serializeBelongsTo: function(snapshot, json, relationship) {
+    let key = relationship.key;
+    const belongsTo = snapshot.belongsTo(key);
+    key = this.keyForRelationship ? this.keyForRelationship(key, "belongsTo", "serialize") : key;
+    json[key] = isNone(belongsTo) ? belongsTo : +belongsTo.record.id;
   },
 
   serializeHasMany: function(snapshot, json, relationship) {
-    const key = relationship.key;
-    if (this._shouldSerializeHasMany(snapshot, key, relationship)) {
-      const hasMany = snapshot.hasMany(key, { ids: true });
-      if (hasMany !== undefined) {
-        let payloadKey = this._getMappedKey(key, snapshot.type);
-        if (payloadKey === key && this.keyForRelationship) {
-          payloadKey = this.keyForRelationship(key, "hasMany", "serialize");
-        }
-        json[payloadKey] = [];
-        hasMany.forEach((item) => {
-          json[payloadKey].push(+item);
-        });
-      }
-    }
+    let key = relationship.key;
+    const hasMany = snapshot.hasMany(key);
+    key = this.keyForRelationship ? this.keyForRelationship(key, "hasMany", "serialize") : key;
+
+    json[key] = [];
+    hasMany.forEach((item) => {
+      json[key].push(+item.id);
+    });
   },
 
 });

app/services/ajax-error.js

@@ -1,19 +0,0 @@
-import Ember from 'ember';
-
-const { Service, inject: { service } } = Ember;
-
-export default Service.extend({
-  flashMessages: service(),
-
-  alert: function(error) {
-    const flash = this.get('flashMessages');
-
-    flash.clearMessages();
-    window.scrollTo(0,0);
-    error.errors.forEach((error) => {
-      console.error(error);
-      const source = error.source.pointer.split('/');
-      flash.error(`${source[source.length-1].replace(/([A-Z])/g, ' $1').capitalize()} - ${error.detail}`);
-    });
-  }
-});

app/services/globals.js

@@ -1,9 +0,0 @@
-import Ember from 'ember';
-import config from '../config/environment';
-
-const { Service } = Ember;
-
-export default Service.extend({
-  genus: config.APP.genus,
-  apiURL: config.apiURL,
-});

bower.json

@@ -2,25 +2,27 @@
   "name": "hymenobacterdotinfo",
   "dependencies": {
     "jquery": "~2.1.1",
-    "ember": "~2.2.0",
+    "ember": "1.13.10",
     "ember-cli-shims": "0.0.6",
     "ember-cli-test-loader": "0.2.1",
-    "ember-data": "~2.2.1",
+    "ember-data": "1.13.15",
     "ember-load-initializers": "0.1.7",
     "ember-qunit": "0.4.16",
     "ember-qunit-notifications": "0.1.0",
     "ember-resolver": "~0.1.20",
-    "loader.js": "ember-cli/loader.js#3.4.0",
+    "loader.js": "ember-cli/loader.js#3.2.1",
     "qunit": "~1.20.0",
     "flakes": "~1.0.0",
     "moment": "~2.10.6",
-    "select2": "4.0.1-rc.1",
+    "select2": "3.5.2",
     "antiscroll": "git://github.com/azirbel/antiscroll.git#90391fb371c7be769bc32e7287c5271981428356",
     "jquery-mousewheel": "~3.1.4",
     "jquery-ui": "~1.11.4",
     "quill": "~0.19.14",
     "pretender": "~0.10.1",
     "lodash": "~3.7.0",
-    "Faker": "~3.0.0"
+    "Faker": "~3.0.0",
+    "selectize": "~0.12.1",
+    "jQuery UI Sortable": "jquery-ui-sortable#*"
   }
 }

config/environment.js

@@ -29,7 +29,7 @@ module.exports = function(environment) {
       'script-src': "'self'",
       'font-src': "'self'",
       'connect-src': "'self'",
-      'img-src': "'self' data:",
+      'img-src': "'self'",
       'style-src': "'self' 'unsafe-inline'",
       'media-src': "'self'"
     }
@@ -61,7 +61,7 @@ module.exports = function(environment) {
   }
 
   ENV.apiURL = apiURL;
-  ENV.contentSecurityPolicy['connect-src'] = "'self' " + apiURL;
+  ENV.contentSecurityPolicy['connect-src'] = `'self' ${apiURL}`;
 
   return ENV;
 };

ember-cli-build.js

@@ -14,8 +14,8 @@ module.exports = function(defaults) {
   // quill
   app.import('bower_components/quill/dist/quill.base.css');
   app.import('bower_components/quill/dist/quill.snow.css');
-  // select2
-  app.import('bower_components/select2/dist/css/select2.min.css');
+  // selectize
+  app.import('bower_components/selectize/dist/css/selectize.default.css');
 
   // LIBS ////////////////////////////////////////////////////////////////////////
   // flakes (and deps)
@@ -27,8 +27,10 @@ module.exports = function(defaults) {
   app.import('bower_components/moment/moment.js');
   // quill
   app.import('bower_components/quill/dist/quill.min.js');
-  // select2
-  app.import('bower_components/select2/dist/js/select2.full.min.js');
+  // jquery ui sortable
+  app.import('bower_components/jQuery UI Sortable/jquery-ui-sortable.min.js');
+  // selectize
+  app.import('bower_components/selectize/dist/js/standalone/selectize.min.js');
 
   return app.toTree();
 };

package.json

@@ -10,11 +10,7 @@
   "scripts": {
     "build": "ember build",
     "start": "ember server",
-    "test": "ember test",
-    "bower": "bower",
-    "ember": "ember",
-    "firebase": "firebase",
-    "deployProd": "firebase deploy -e prod"
+    "test": "ember test"
   },
   "repository": "",
   "engines": {
@@ -24,7 +20,7 @@
   "license": "MIT",
   "devDependencies": {
     "broccoli-asset-rev": "^2.2.0",
-    "ember-cli": "1.13.13",
+    "ember-cli": "1.13.11",
     "ember-cli-app-version": "^1.0.0",
     "ember-cli-babel": "^5.1.5",
     "ember-cli-content-security-policy": "0.4.0",
@@ -37,16 +33,13 @@
     "ember-cli-mirage": "0.1.11",
     "ember-cli-qunit": "^1.0.4",
     "ember-cli-release": "0.2.8",
-    "ember-cli-sri": "^1.2.0",
+    "ember-cli-sri": "^1.1.0",
     "ember-cli-uglify": "^1.2.0",
-    "ember-data": "~2.2.1",
+    "ember-data": "1.13.15",
     "ember-disable-proxy-controllers": "^1.0.1",
     "ember-export-application-global": "^1.0.4",
     "ember-one-way-input": "0.1.3",
-    "ember-simple-auth": "1.0.1"
-  },
-  "dependencies": {
-    "bower": "^1.8.8",
-    "firebase-tools": "^7.12.1"
+    "ember-select-2": "1.3.0",
+    "ember-simple-auth": "1.0.0"
   }
 }

tests/acceptance/characteristics-test.js

@@ -6,10 +6,10 @@ import { authenticateSession } from '../helpers/ember-simple-auth';
 module('Acceptance | characteristics', {
   beforeEach: function() {
     this.application = startApp();
-    server.create('users', { role: 'A', canEdit: true, sub: 1 });
     authenticateSession(this.application, {
       access_token: "eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJpc3MiOiJiYWN0ZGIiLCJzdWIiOiIxIiwiZXhwIjoxNDQ2NTAyMjI2LCJpYXQiOjE0NDY0OTg2MjZ9.vIjKHAsp2TkCV505EbtCo2xQT-2oQkB-Nv5y0b6E7Mg"
     });
+    server.create('users', { role: 'A', canEdit: true });
   },
 
   afterEach: function() {
@@ -70,22 +70,3 @@ test('creating /characteristics/new', function(assert) {
     });
   });
 });
-
-test('deleting /characteristics/:id', function(assert) {
-  const characteristic = server.create('characteristics', { 'canEdit': true });
-  visit(`/characteristics/${characteristic.id}`);
-
-  andThen(function() {
-    assert.equal(currentURL(), `/characteristics/${characteristic.id}`);
-    click('button.delete');
-
-    andThen(function() {
-      click('button.delete-confirm');
-
-      andThen(function() {
-        assert.equal(currentURL(), `/characteristics`);
-        assert.equal(server.db.characteristics.length, 0);
-      });
-    });
-  });
-});

tests/acceptance/species-test.js

@@ -6,10 +6,10 @@ import { authenticateSession } from '../helpers/ember-simple-auth';
 module('Acceptance | species', {
   beforeEach: function() {
     this.application = startApp();
-    server.create('users', { role: 'A', canEdit: true, sub: 1 });
     authenticateSession(this.application, {
       access_token: "eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJpc3MiOiJiYWN0ZGIiLCJzdWIiOiIxIiwiZXhwIjoxNDQ2NTAyMjI2LCJpYXQiOjE0NDY0OTg2MjZ9.vIjKHAsp2TkCV505EbtCo2xQT-2oQkB-Nv5y0b6E7Mg"
     });
+    server.create('users', { role: 'A', canEdit: true });
   },
 
   afterEach: function() {
@@ -69,22 +69,3 @@ test('creating /species/new', function(assert) {
     });
   });
 });
-
-test('deleting /species/:id', function(assert) {
-  const species = server.create('species', { 'canEdit': true });
-  visit(`/species/${species.id}`);
-
-  andThen(function() {
-    assert.equal(currentURL(), `/species/${species.id}`);
-    click('button.delete');
-
-    andThen(function() {
-      click('button.delete-confirm');
-
-      andThen(function() {
-        assert.equal(currentURL(), `/species`);
-        assert.equal(server.db.species.length, 0);
-      });
-    });
-  });
-});

tests/acceptance/strains-test.js

@@ -6,10 +6,10 @@ import { authenticateSession } from '../helpers/ember-simple-auth';
 module('Acceptance | strains', {
   beforeEach: function() {
     this.application = startApp();
-    server.create('users', { role: 'A', canEdit: true, sub: 1 });
     authenticateSession(this.application, {
       access_token: "eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJpc3MiOiJiYWN0ZGIiLCJzdWIiOiIxIiwiZXhwIjoxNDQ2NTAyMjI2LCJpYXQiOjE0NDY0OTg2MjZ9.vIjKHAsp2TkCV505EbtCo2xQT-2oQkB-Nv5y0b6E7Mg"
     });
+    server.create('users', { role: 'A', canEdit: true });
   },
 
   afterEach: function() {
@@ -74,23 +74,3 @@ test('creating /strains/new', function(assert) {
     });
   });
 });
-
-test('deleting /strains/:id', function(assert) {
-  const species = server.create('species');
-  const strain = server.create('strains', { canEdit: true , species: species.id });
-  visit(`/strains/${strain.id}`);
-
-  andThen(function() {
-    assert.equal(currentURL(), `/strains/${strain.id}`);
-    click('button.delete');
-
-    andThen(function() {
-      click('button.delete-confirm');
-
-      andThen(function() {
-        assert.equal(currentURL(), `/strains`);
-        assert.equal(server.db.strains.length, 0);
-      });
-    });
-  });
-});

tests/acceptance/users-test.js

@@ -6,10 +6,10 @@ import { invalidateSession, authenticateSession } from '../helpers/ember-simple-
 module('Acceptance | users', {
   beforeEach: function() {
     this.application = startApp();
-    server.create('users', { role: 'A', canEdit: true, sub: 1 });
     authenticateSession(this.application, {
       access_token: "eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJpc3MiOiJiYWN0ZGIiLCJzdWIiOiIxIiwiZXhwIjoxNDQ2NTAyMjI2LCJpYXQiOjE0NDY0OTg2MjZ9.vIjKHAsp2TkCV505EbtCo2xQT-2oQkB-Nv5y0b6E7Mg"
     });
+    server.create('users', { role: 'A', canEdit: true });
   },
 
   afterEach: function() {

tests/unit/initializers/global-variables-test.js

@@ -0,0 +1,23 @@
+import Ember from 'ember';
+import { initialize } from '../../../initializers/global-variables';
+import { module, test } from 'qunit';
+
+var container, application;
+
+module('Unit | Initializer | global variables', {
+  beforeEach: function() {
+    Ember.run(function() {
+      application = Ember.Application.create();
+      container = application.__container__;
+      application.deferReadiness();
+    });
+  }
+});
+
+// Replace this with your real tests.
+test('it works', function(assert) {
+  initialize(container, application);
+
+  // you would normally confirm the results of the initializer here
+  assert.ok(true);
+});