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Housekeeping

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This commit is contained in:
Matthew Dillon 2015-06-14 20:48:58 -08:00
parent d80ce9286b
commit 0d840b4586
15 changed files with 91 additions and 141 deletions

2
app/initializers/global-variables.js
View file

@ -2,7 +2,7 @@ import Ember from 'ember';
import config from '../config/environment';
var globals = Ember.Object.extend({
genus: config.genus,
genus: config.APP.genus,
apiURL: config.apiURL,
});

16
app/models/characteristic.js
View file

@ -3,12 +3,12 @@ import DS from 'ember-data';
export default DS.Model.extend({
characteristicName: DS.attr('string'),
characteristicType: DS.attr('string'),
strains: DS.hasMany('strain', { async: true }),
measurements: DS.hasMany('measurements', { async: true }),
createdAt: DS.attr('date'),
updatedAt: DS.attr('date'),
deletedAt: DS.attr('date'),
createdBy: DS.attr('number'),
updatedBy: DS.attr('number'),
deletedBy: DS.attr('number')
strains : DS.hasMany('strain', { async: true }),
measurements : DS.hasMany('measurements', { async: true }),
createdAt : DS.attr('date'),
updatedAt : DS.attr('date'),
deletedAt : DS.attr('date'),
createdBy : DS.attr('number'),
updatedBy : DS.attr('number'),
deletedBy : DS.attr('number')
});

37
app/models/measurement.js
View file

@ -1,31 +1,20 @@
import DS from 'ember-data';
export default DS.Model.extend({
strain: DS.belongsTo('strain', { async: true }),
characteristic: DS.belongsTo('characteristic', { async: true }),
strain : DS.belongsTo('strain', { async: true }),
characteristic : DS.belongsTo('characteristic', { async: true }),
textMeasurementType: DS.attr('string'),
txtValue: DS.attr('string'),
numValue: DS.attr('number'),
confidenceInterval: DS.attr('number'),
unitType: DS.attr('string'),
notes: DS.attr('string'),
testMethod: DS.attr('string'),
createdAt: DS.attr('date'),
updatedAt: DS.attr('date'),
createdBy: DS.attr('number'),
updatedBy: DS.attr('number'),
// computedType: Ember.computed('textMeasurementType', 'txtValue', 'numValue', function() {
// if (this.get('textMeasurementType')) {
// return 'Fixed-text';
// }
// if (this.get('txtValue')) {
// return 'Free-text';
// }
// if (this.get('numValue')) {
// return 'Numerical';
// }
// return "error";
// }),
txtValue : DS.attr('string'),
numValue : DS.attr('number'),
confidenceInterval : DS.attr('number'),
unitType : DS.attr('string'),
notes : DS.attr('string'),
testMethod : DS.attr('string'),
createdAt : DS.attr('date'),
updatedAt : DS.attr('date'),
createdBy : DS.attr('number'),
updatedBy : DS.attr('number'),
value: function() {
if (this.get('textMeasurementType')) {
return this.get('textMeasurementType');

22
app/models/species.js
View file

@ -2,16 +2,16 @@ import DS from 'ember-data';
import config from '../config/environment';
export default DS.Model.extend({
speciesName: DS.attr('string'),
typeSpecies: DS.attr('boolean'),
etymology: DS.attr('string'),
genusName: DS.attr('string', { defaultValue: config.genus }),
strains: DS.hasMany('strain', { async: true }),
speciesName : DS.attr('string'),
typeSpecies : DS.attr('boolean'),
etymology : DS.attr('string'),
genusName : DS.attr('string', { defaultValue: config.APP.genus }),
strains : DS.hasMany('strain', { async: true }),
totalStrains: DS.attr('number'),
createdAt: DS.attr('date'),
updatedAt: DS.attr('date'),
deletedAt: DS.attr('date'),
createdBy: DS.attr('number'),
updatedBy: DS.attr('number'),
deletedBy: DS.attr('number'),
createdAt : DS.attr('date'),
updatedAt : DS.attr('date'),
deletedAt : DS.attr('date'),
createdBy : DS.attr('number'),
updatedBy : DS.attr('number'),
deletedBy : DS.attr('number'),
});

31
app/models/strain.js
View file

@ -1,28 +1,31 @@
import DS from 'ember-data';
export default DS.Model.extend({
measurements: DS.hasMany('measurements', { async: true }),
species: DS.belongsTo('species', { async: true }),
strainName: DS.attr('string'),
typeStrain: DS.attr('boolean'),
accessionNumbers: DS.attr('string'),
genbank: DS.attr('string'),
isolatedFrom: DS.attr('string'),
notes: DS.attr('string'),
createdAt: DS.attr('date'),
updatedAt: DS.attr('date'),
deletedAt: DS.attr('date'),
createdBy: DS.attr('number'),
updatedBy: DS.attr('number'),
deletedBy: DS.attr('number'),
measurements : DS.hasMany('measurements', { async: true }),
species : DS.belongsTo('species', { async: true }),
strainName : DS.attr('string'),
typeStrain : DS.attr('boolean'),
accessionNumbers : DS.attr('string'),
genbank : DS.attr('string'),
isolatedFrom : DS.attr('string'),
notes : DS.attr('string'),
createdAt : DS.attr('date'),
updatedAt : DS.attr('date'),
deletedAt : DS.attr('date'),
createdBy : DS.attr('number'),
updatedBy : DS.attr('number'),
deletedBy : DS.attr('number'),
totalMeasurements: DS.attr('number'),
strainNameMU: function() {
let type = this.get('typeStrain') ? '<sup>T</sup>' : '';
return `${this.get('strainName')}${type}`;
}.property('strainName', 'typeStrain').readOnly(),
fullName: function() {
return `${this.get('species.speciesName')} (strain ${this.get('strainName')})`;
}.property('species', 'strainName').readOnly(),
fullNameMU: function() {
return `<em>${this.get('species.speciesName')}</em> ${this.get('strainNameMU')}`;
}.property('species', 'strainNameMU').readOnly(),

6
app/models/user.js
View file

@ -1,9 +1,9 @@
import DS from 'ember-data';
export default DS.Model.extend({
email: DS.attr('string'),
name: DS.attr('string'),
role: DS.attr('string'),
email : DS.attr('string'),
name : DS.attr('string'),
role : DS.attr('string'),
createdAt: DS.attr('date'),
updatedAt: DS.attr('date'),
deletedAt: DS.attr('date')

3
app/pods/application/route.js
View file

@ -6,8 +6,5 @@ export default Ember.Route.extend(ApplicationRouteMixin, {
invalidateSession: function() {
this.get('session').invalidate();
},
loading: function() {
return true;
},
}
});

16
app/pods/application/template.hbs
View file

@ -1,28 +1,28 @@
<div class="flakes-navigation">
{{#link-to 'index' class='logo'}}
{{site-name}}
{{globals.genus}}.info
{{/link-to}}
{{#if session.isAuthenticated}}
<ul>
{{#link-to 'species' tagName='li' href=false}}
{{#link-to 'species'}}Species{{/link-to}}
{{link-to 'Species' 'species'}}
{{/link-to}}
{{#link-to 'strains' tagName='li' href=false}}
{{#link-to 'strains'}}Strains{{/link-to}}
{{link-to 'Strains' 'strains'}}
{{/link-to}}
{{#link-to 'characteristics' tagName='li' href=false}}
{{#link-to 'characteristics'}}Characteristics{{/link-to}}
{{link-to 'Characteristics' 'characteristics'}}
{{/link-to}}
{{#link-to 'measurements' tagName='li' href=false}}
{{#link-to 'measurements'}}Measurements{{/link-to}}
{{link-to 'Measurements' 'measurements'}}
{{/link-to}}
{{#link-to 'about' tagName='li' href=false}}
{{#link-to 'about'}}About{{/link-to}}
{{link-to 'About' 'about'}}
{{/link-to}}
</ul>
<p class="foot">
{{session.currentUser.name}}<br>
<a {{ action 'invalidateSession' }}>Logout</a>
<a {{action 'invalidateSession'}}>Logout</a>
</p>
{{else}}
<p class="foot">
@ -36,7 +36,7 @@
<div class="flakes-content">
<div class="flakes-mobile-top-bar">
<a href="" class="logo-wrap">
{{site-name}}
{{globals.genus}}.info
</a>
<a href="" class="navigation-expand-target">
<img src="img/navigation-expand-target.png" height="26px">

1
app/pods/components/site-name/template.hbs
View file

@ -1 +0,0 @@
{{globals.genus}}.info

2
app/pods/measurements/template.hbs
View file

@ -23,7 +23,7 @@
content=characteristics
value=selectedCharacteristics
optionValuePath="id"
placeholder="Choose a characteristic"
placeholder="All characteristics"
}}
</li>
<li>

3
app/pods/species/new/route.js
View file

@ -1,6 +1,7 @@
import Ember from 'ember';
import AuthenticatedRouteMixin from 'simple-auth/mixins/authenticated-route-mixin';
export default Ember.Route.extend({
export default Ember.Route.extend(AuthenticatedRouteMixin, {
model: function() {
return this.store.createRecord('species');
},

4
app/pods/species/show/route.js
View file

@ -1,4 +1,4 @@
import Ember from 'ember';
import AuthenticatedRouteMixin from 'simple-auth/mixins/authenticated-route-mixin';
export default Ember.Route.extend({
});
export default Ember.Route.extend(AuthenticatedRouteMixin, {});

3
app/pods/strains/new/route.js
View file

@ -1,6 +1,7 @@
import Ember from 'ember';
import AuthenticatedRouteMixin from 'simple-auth/mixins/authenticated-route-mixin';
export default Ember.Route.extend({
export default Ember.Route.extend(AuthenticatedRouteMixin, {
model: function() {
return Ember.RSVP.hash({
strain: this.store.createRecord('strain'),

3
app/pods/strains/show/route.js
View file

@ -1,6 +1,7 @@
import Ember from 'ember';
import AuthenticatedRouteMixin from 'simple-auth/mixins/authenticated-route-mixin';
export default Ember.Route.extend({
export default Ember.Route.extend(AuthenticatedRouteMixin, {
model: function(params) {
return Ember.RSVP.hash({
strain: this.store.find('strain', params.strain_id),

83
config/environment.js
View file

@ -8,68 +8,46 @@ module.exports = function(environment) {
locationType: 'auto',
EmberENV: {
FEATURES: {
// Here you can enable experimental features on an ember canary build
// e.g. 'with-controller': true
// enable experimental features on an ember canary build
}
},
APP: {
// Here you can pass flags/options to your application instance
// when it is created
genus: 'hymenobacter',
},
genus: 'hymenobacter',
podModulePrefix: 'hymenobacterdotinfo/pods',
};
if (environment === 'development') {
ENV['simple-auth'] = {
'simple-auth': {
session: 'session:custom',
authorizer: 'simple-auth-authorizer:token',
crossOriginWhitelist: ['http://127.0.0.1:4200']
}
ENV['simple-auth-token'] = {
serverTokenEndpoint: '/api/authenticate',
},
'simple-auth-token': {
identificationField: 'email',
passwordField: 'password',
tokenPropertyName: 'token',
authorizationPrefix: 'Bearer ',
authorizationHeaderName: 'Authorization',
}
ENV.apiURL = 'http://127.0.0.1:4200';
ENV.contentSecurityPolicy = {
},
contentSecurityPolicy: {
'default-src': "'none'",
'script-src': "'self'",
'font-src': "'self'",
'connect-src': "'self' http://127.0.0.1:4200",
'img-src': "'self'",
'style-src': "'self' 'unsafe-inline'",
'media-src': "'self'"
}
},
};
if (environment === 'development') {
ENV['simple-auth']['crossOriginWhitelist'] = ['http://127.0.0.1:4200'];
ENV['simple-auth-token']['serverTokenEndpoint'] = '/api/authenticate';
ENV.apiURL = 'http://127.0.0.1:4200';
ENV.contentSecurityPolicy['connect-src'] = "'self' http://127.0.0.1:4200";
}
if (environment === 'test') {
ENV['simple-auth'] = {
session: 'session:custom',
authorizer: 'simple-auth-authorizer:token',
crossOriginWhitelist: ['https://bactdb-test.herokuapp.com']
}
ENV['simple-auth-token'] = {
serverTokenEndpoint: 'https://bactdb-test.herokuapp.com/api/authenticate',
identificationField: 'email',
passwordField: 'password',
tokenPropertyName: 'token',
authorizationPrefix: 'Bearer ',
authorizationHeaderName: 'Authorization',
}
ENV['simple-auth']['crossOriginWhitelist'] = ['https://bactdb-test.herokuapp.com'];
ENV['simple-auth-token']['serverTokenEndpoint'] = 'https://bactdb-test.herokuapp.com/api/authenticate';
ENV.apiURL = 'https://bactdb-test.herokuapp.com';
ENV.contentSecurityPolicy = {
'default-src': "'none'",
'script-src': "'self'",
'font-src': "'self'",
'connect-src': "'self' https://bactdb-test.herokuapp.com",
'img-src': "'self'",
'style-src': "'self'",
'media-src': "'self'"
}
ENV.contentSecurityPolicy['connect-src'] = "'self' https://bactdb-test.herokuapp.com";
// keep test console output quieter
ENV.APP.LOG_ACTIVE_GENERATION = false;
@ -77,29 +55,10 @@ module.exports = function(environment) {
}
if (environment === 'production') {
ENV['simple-auth'] = {
session: 'session:custom',
authorizer: 'simple-auth-authorizer:token',
crossOriginWhitelist: ['https://bactdb.herokuapp.com']
}
ENV['simple-auth-token'] = {
serverTokenEndpoint: 'https://bactdb.herokuapp.com/api/authenticate',
identificationField: 'email',
passwordField: 'password',
tokenPropertyName: 'token',
authorizationPrefix: 'Bearer ',
authorizationHeaderName: 'Authorization',
}
ENV['simple-auth']['crossOriginWhitelist'] = ['https://bactdb.herokuapp.com'];
ENV['simple-auth-token']['serverTokenEndpoint'] = 'https://bactdb.herokuapp.com/api/authenticate';
ENV.apiURL = 'https://bactdb.herokuapp.com';
ENV.contentSecurityPolicy = {
'default-src': "'none'",
'script-src': "'self'",
'font-src': "'self'",
'connect-src': "'self' https://bactdb.herokuapp.com",
'img-src': "'self'",
'style-src': "'self'",
'media-src': "'self'"
}
ENV.contentSecurityPolicy['connect-src'] = "'self' https://bactdb.herokuapp.com";
}
return ENV;