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Merge pull request #863 from NCI-GDC/release/0.3.24.3
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Release/0.3.24.3
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@BedfordWest
BedfordWest committed May 2, 2016
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102 changes: 102 additions & 0 deletions CHANGELOG.md
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<a name"0.3.24.3"></a>
### 0.3.24.3 (2016-04-29)


#### Bug Fixes

* **annotation:**
* add tooltip to project_id ([cf2c32a8](https://github.com/NCI-GDC/portal-ui/commit/cf2c32a8), closes [PGDC-2066](https://jira.opensciencedatacloud.org/browse/PGDC-2066))
* remove annotator ([d07075d6](https://github.com/NCI-GDC/portal-ui/commit/d07075d6), closes [PGDC-2106](https://jira.opensciencedatacloud.org/browse/PGDC-2106))
* **app:**
* 2201 data_category > summary cards ([e59ffa2f](https://github.com/NCI-GDC/portal-ui/commit/e59ffa2f), closes [PGDC-2201](https://jira.opensciencedatacloud.org/browse/PGDC-2201))
* 2073 hide git links in footer ([cb15d763](https://github.com/NCI-GDC/portal-ui/commit/cb15d763), closes [PGDC-2073](https://jira.opensciencedatacloud.org/browse/PGDC-2073))
* 2095 round mb to 2 decimal places ([539b686d](https://github.com/NCI-GDC/portal-ui/commit/539b686d), closes [PGDC-2095](https://jira.opensciencedatacloud.org/browse/PGDC-2095))
* don't use expand whenever possible ([3afc1934](https://github.com/NCI-GDC/portal-ui/commit/3afc1934), closes [PGDC-2023](https://jira.opensciencedatacloud.org/browse/PGDC-2023))
* **bam:** 1888 error handling tweaks ([e7f2d13e](https://github.com/NCI-GDC/portal-ui/commit/e7f2d13e), closes [PGDC-1888](https://jira.opensciencedatacloud.org/browse/PGDC-1888))
* **biospecimen:** 2239 add title to search input ([364d1a60](https://github.com/NCI-GDC/portal-ui/commit/364d1a60), closes [PGDC-2239](https://jira.opensciencedatacloud.org/browse/PGDC-2239))
* **cart:**
* 2113 dont clobber project ids ([30b610a3](https://github.com/NCI-GDC/portal-ui/commit/30b610a3), closes [PGDC-2113](https://jira.opensciencedatacloud.org/browse/PGDC-2113))
* 2222 no undefined in notifications ([ca6efd95](https://github.com/NCI-GDC/portal-ui/commit/ca6efd95), closes [PGDC-2222](https://jira.opensciencedatacloud.org/browse/PGDC-2222))
* 2161 download metadata_files ([b614f352](https://github.com/NCI-GDC/portal-ui/commit/b614f352), closes [PGDC-2161](https://jira.opensciencedatacloud.org/browse/PGDC-2161))
* gather files in click handler ([4466c959](https://github.com/NCI-GDC/portal-ui/commit/4466c959))
* 2063 add all files off by one bug ([bdb0f455](https://github.com/NCI-GDC/portal-ui/commit/bdb0f455), closes [PGDC-2063](https://jira.opensciencedatacloud.org/browse/PGDC-2063))
* 1952 update cart limit warning ([ca3bb8a8](https://github.com/NCI-GDC/portal-ui/commit/ca3bb8a8), closes [PGDC-1952](https://jira.opensciencedatacloud.org/browse/PGDC-1952))
* 'No Files' when no files ([4f6053de](https://github.com/NCI-GDC/portal-ui/commit/4f6053de), closes [PGDC-1981](https://jira.opensciencedatacloud.org/browse/PGDC-1981))
* check for controlled files on click ([8de8c587](https://github.com/NCI-GDC/portal-ui/commit/8de8c587), closes [PGDC-2086](https://jira.opensciencedatacloud.org/browse/PGDC-2086))
* **case:**
* 2199 better display for clinical data ([31ed1ecb](https://github.com/NCI-GDC/portal-ui/commit/31ed1ecb), closes [PGDC-2199](https://jira.opensciencedatacloud.org/browse/PGDC-2199))
* 2134 minor issues in case entity ([1facc757](https://github.com/NCI-GDC/portal-ui/commit/1facc757), closes [PGDC-2134](https://jira.opensciencedatacloud.org/browse/PGDC-2134))
* **chart:** make barchart labels more readable ([38543a39](https://github.com/NCI-GDC/portal-ui/commit/38543a39), closes [PGDC-2042](https://jira.opensciencedatacloud.org/browse/PGDC-2042))
* **charts:** remove undefined fn call ([5356b82e](https://github.com/NCI-GDC/portal-ui/commit/5356b82e), closes [PGDC-2197](https://jira.opensciencedatacloud.org/browse/PGDC-2197))
* **chore:** 2163 null-safety when calling #some ([05d4462e](https://github.com/NCI-GDC/portal-ui/commit/05d4462e), closes [PGDC-2163](https://jira.opensciencedatacloud.org/browse/PGDC-2163))
* **components:**
* 2181 don't humanify fields ([48276153](https://github.com/NCI-GDC/portal-ui/commit/48276153), closes [PGDC-2181](https://jira.opensciencedatacloud.org/browse/PGDC-2181))
* add track by for facetConfig ([ac275683](https://github.com/NCI-GDC/portal-ui/commit/ac275683))
* handle empty fields in gql/facets ([1078fae0](https://github.com/NCI-GDC/portal-ui/commit/1078fae0), closes [PGDC-2126](https://jira.opensciencedatacloud.org/browse/PGDC-2126), [PGDC-2124](https://jira.opensciencedatacloud.org/browse/PGDC-2124))
* if blacklist exists then filter ([b863ba49](https://github.com/NCI-GDC/portal-ui/commit/b863ba49))
* 2067 remove GO btn from prefix ([32e75c52](https://github.com/NCI-GDC/portal-ui/commit/32e75c52), closes [PGDC-2067](https://jira.opensciencedatacloud.org/browse/PGDC-2067))
* **css:** 2150 gdc-app menu layout issue in IE ([3056b212](https://github.com/NCI-GDC/portal-ui/commit/3056b212), closes [PGDC-2150](https://jira.opensciencedatacloud.org/browse/PGDC-2150))
* **download:** 2056 displays progress in button ([b031a942](https://github.com/NCI-GDC/portal-ui/commit/b031a942), closes [PGDC-2056](https://jira.opensciencedatacloud.org/browse/PGDC-2056))
* **entity:**
* 2136 displays treatments ([8bc81964](https://github.com/NCI-GDC/portal-ui/commit/8bc81964), closes [PGDC-2136](https://jira.opensciencedatacloud.org/browse/PGDC-2136))
* 2039 double dash when id is null ([a4c62b39](https://github.com/NCI-GDC/portal-ui/commit/a4c62b39), closes [PGDC-2039](https://jira.opensciencedatacloud.org/browse/PGDC-2039))
* **exportTable:** 2220 include case_id ([b26021b6](https://github.com/NCI-GDC/portal-ui/commit/b26021b6), closes [PGDC-2220](https://jira.opensciencedatacloud.org/browse/PGDC-2220))
* **facet:**
* 2171 custom facet not added in IE ([9596437d](https://github.com/NCI-GDC/portal-ui/commit/9596437d), closes [PGDC-2171](https://jira.opensciencedatacloud.org/browse/PGDC-2171))
* ignored missing in facets ([26920a00](https://github.com/NCI-GDC/portal-ui/commit/26920a00), closes [PGDC-2069](https://jira.opensciencedatacloud.org/browse/PGDC-2069))
* **file:**
* 2198 displays file data as is ([636716eb](https://github.com/NCI-GDC/portal-ui/commit/636716eb), closes [PGDC-2198](https://jira.opensciencedatacloud.org/browse/PGDC-2198))
* 2140 remove date fields from table ([fc69f838](https://github.com/NCI-GDC/portal-ui/commit/fc69f838), closes [PGDC-2140](https://jira.opensciencedatacloud.org/browse/PGDC-2140))
* **gdctable:** never mutate config.headings ([fdb72e08](https://github.com/NCI-GDC/portal-ui/commit/fdb72e08), closes [PGDC-1769](https://jira.opensciencedatacloud.org/browse/PGDC-1769))
* **git:** 2241 reinstated commit info ([a17f9707](https://github.com/NCI-GDC/portal-ui/commit/a17f9707), closes [PGDC-2241](https://jira.opensciencedatacloud.org/browse/PGDC-2241))
* **githut:**
* 2164 link add data_category filter ([9a797c38](https://github.com/NCI-GDC/portal-ui/commit/9a797c38), closes [PGDC-2164](https://jira.opensciencedatacloud.org/browse/PGDC-2164))
* handle NaN values ([75d5cdba](https://github.com/NCI-GDC/portal-ui/commit/75d5cdba))
* **gql:** autocomplete with all OP by default ([416045b3](https://github.com/NCI-GDC/portal-ui/commit/416045b3), closes [PGDC-2195](https://jira.opensciencedatacloud.org/browse/PGDC-2195))
* **header:**
* 2224 remove reports link ([b04663c6](https://github.com/NCI-GDC/portal-ui/commit/b04663c6), closes [PGDC-2224](https://jira.opensciencedatacloud.org/browse/PGDC-2224))
* use flexbox for gdc-apps-menu ([e402b168](https://github.com/NCI-GDC/portal-ui/commit/e402b168), closes [PGDC-1933](https://jira.opensciencedatacloud.org/browse/PGDC-1933))
* **home:**
* update infra numbers ([8445c804](https://github.com/NCI-GDC/portal-ui/commit/8445c804), closes [PGDC-2234](https://jira.opensciencedatacloud.org/browse/PGDC-2234))
* 2178 adjust queries ([1dffaf61](https://github.com/NCI-GDC/portal-ui/commit/1dffaf61), closes [PGDC-2178](https://jira.opensciencedatacloud.org/browse/PGDC-2178))
* **login:**
* 2221 retain my-project toggle state ([b373a26e](https://github.com/NCI-GDC/portal-ui/commit/b373a26e), closes [PGDC-2221](https://jira.opensciencedatacloud.org/browse/PGDC-2221))
* 2151 login not shown in IE ([ff5edebb](https://github.com/NCI-GDC/portal-ui/commit/ff5edebb), closes [PGDC-2151](https://jira.opensciencedatacloud.org/browse/PGDC-2151))
* **projects:** 2172 missing line in facet section ([a69d1666](https://github.com/NCI-GDC/portal-ui/commit/a69d1666), closes [PGDC-2172](https://jira.opensciencedatacloud.org/browse/PGDC-2172))
* **reports:**
* 2098 hide data category ([fefb57d4](https://github.com/NCI-GDC/portal-ui/commit/fefb57d4), closes [PGDC-2098](https://jira.opensciencedatacloud.org/browse/PGDC-2098))
* 2173 remove export btn ([0d3a0205](https://github.com/NCI-GDC/portal-ui/commit/0d3a0205), closes [PGDC-2173](https://jira.opensciencedatacloud.org/browse/PGDC-2173))
* 2137 handle no reports ([ad2d4d2c](https://github.com/NCI-GDC/portal-ui/commit/ad2d4d2c), closes [PGDC-2137](https://jira.opensciencedatacloud.org/browse/PGDC-2137))
* **search:**
* remove file state from default facets ([311e764b](https://github.com/NCI-GDC/portal-ui/commit/311e764b), closes [PGDC-2208](https://jira.opensciencedatacloud.org/browse/PGDC-2208))
* 2177 ICD-10 to Primary Diagnoses ([8e0cfba8](https://github.com/NCI-GDC/portal-ui/commit/8e0cfba8), closes [PGDC-2177](https://jira.opensciencedatacloud.org/browse/PGDC-2177))
* fix pagination not updating ([45ffbbfb](https://github.com/NCI-GDC/portal-ui/commit/45ffbbfb), closes [PGDC-2185](https://jira.opensciencedatacloud.org/browse/PGDC-2185))
* pass expands fields to query ([1c4919c7](https://github.com/NCI-GDC/portal-ui/commit/1c4919c7))
* all facets open by default ([d34f69f6](https://github.com/NCI-GDC/portal-ui/commit/d34f69f6), closes [PGDC-2061](https://jira.opensciencedatacloud.org/browse/PGDC-2061))
* **table:** 2229 update table column layout ([f70b9485](https://github.com/NCI-GDC/portal-ui/commit/f70b9485), closes [PGDC-2229](https://jira.opensciencedatacloud.org/browse/PGDC-2229))
* **tables:** disable export > 2000 rows, exts ([e12dd529](https://github.com/NCI-GDC/portal-ui/commit/e12dd529), closes [PGDC-2071](https://jira.opensciencedatacloud.org/browse/PGDC-2071))


#### Features

* **app:**
* remove direct download links for files ([d9fd0af7](https://github.com/NCI-GDC/portal-ui/commit/d9fd0af7), closes [PGDC-2162](https://jira.opensciencedatacloud.org/browse/PGDC-2162))
* 1755 title case for data category ([58ca6f7c](https://github.com/NCI-GDC/portal-ui/commit/58ca6f7c), closes [PGDC-1755](https://jira.opensciencedatacloud.org/browse/PGDC-1755))
* 2066 tooltips ([475725b9](https://github.com/NCI-GDC/portal-ui/commit/475725b9), closes [PGDC-2066](https://jira.opensciencedatacloud.org/browse/PGDC-2066))
* blacklist data_categories in summary ([0a464140](https://github.com/NCI-GDC/portal-ui/commit/0a464140))
* update data_category fields ([e3467b9c](https://github.com/NCI-GDC/portal-ui/commit/e3467b9c), closes [PGDC-1755](https://jira.opensciencedatacloud.org/browse/PGDC-1755))
* add no js text ([8e069e65](https://github.com/NCI-GDC/portal-ui/commit/8e069e65))
* 2067 update id search facet text ([1ade49c0](https://github.com/NCI-GDC/portal-ui/commit/1ade49c0), closes [PGDC-2067](https://jira.opensciencedatacloud.org/browse/PGDC-2067))
* **components:**
* file.submitter_id > quicksearch ([6aa13b34](https://github.com/NCI-GDC/portal-ui/commit/6aa13b34), closes [PGDC-1792](https://jira.opensciencedatacloud.org/browse/PGDC-1792))
* search bio id fields in tree ([3afd2127](https://github.com/NCI-GDC/portal-ui/commit/3afd2127))
* **facets:** use max, min don't show bar graph ([6d0c2a55](https://github.com/NCI-GDC/portal-ui/commit/6d0c2a55), closes [PGDC-2097](https://jira.opensciencedatacloud.org/browse/PGDC-2097))
* **file:**
* 2170 add workflow facet ([d3b3b956](https://github.com/NCI-GDC/portal-ui/commit/d3b3b956), closes [PGDC-2170](https://jira.opensciencedatacloud.org/browse/PGDC-2170))
* update genome name to GRCh38.d1.vd1 ([15a7de4e](https://github.com/NCI-GDC/portal-ui/commit/15a7de4e))
* downstream_analyses ([4123d50a](https://github.com/NCI-GDC/portal-ui/commit/4123d50a))
* 1470 entity pg updates ([75637e23](https://github.com/NCI-GDC/portal-ui/commit/75637e23), closes [PGDC-1470](https://jira.opensciencedatacloud.org/browse/PGDC-1470))
* **gql:** 1045 support mapping description ([8baede1a](https://github.com/NCI-GDC/portal-ui/commit/8baede1a), closes [PGDC-1045](https://jira.opensciencedatacloud.org/browse/PGDC-1045))
* **reports:** update fields ([f444fe99](https://github.com/NCI-GDC/portal-ui/commit/f444fe99))


<a name"0.3.24.2"></a>
### 0.3.24.2 (2016-04-04)

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29 changes: 22 additions & 7 deletions app/index.html
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Expand Up @@ -65,9 +65,22 @@
#loadingScreen { display: none; }
</style>
<div id="body" tabindex="0">
<p class="noscript">
Javascript is required to use the features of this website.
</p>
<header id="gdc-header" class="navbar navbar-default navbar-static-top" role="banner">
<div class="container-fluid">
<div class="navbar-header">
<a id="gdc-logo" class="navbar-brand" data-ui-sref="home" data-translate="" tabindex="0" href="/">
<span class="ng-scope">GDC Data Portal</span>
</a>
</div>
</div>
</header>
<div class="container-fluid">
<div class="col-lg-8 col-lg-offset-2">
<div class="alert alert-info">
Javascript is required to use the features of this website. Please enable Javascript and reload the page.
</div>
</div>
</div>
</div>
</noscript>

Expand All @@ -78,7 +91,7 @@
<footer id="footer">
<div class="container" role="contentinfo">
<div>
<a href="/">Site Home</a>
<a href="#">Site Home</a>
| <a href="http://www.cancer.gov/global/web/policies">Policies</a>
| <a href="http://www.cancer.gov/global/web/policies/accessibility">Accessibility</a>
| <a href="http://www.cancer.gov/global/web/policies/foia">FOIA</a>
Expand All @@ -92,9 +105,11 @@
<div>
NIH... Turning Discovery Into Health &#174;
</div>
<div>
UI <a href= "{{ config.tag }}">{{ config.version }}</a> @ <a href="{{ config.commitLink }}">{{ config.commitHash }}</a>,
API <a href= "{{ config.apiTag }}">{{ config.apiVersion }}</a><span ng-if="config.apiCommitHash"> @ <a href="{{ config.apiCommitLink }}">{{ config.apiCommitHash | limitTo: 7 }}</a></span>

<div ng-cloak>
UI <strong>{{ ::config.version }}</strong> @ <strong>{{ ::config.commitHash }}</strong>,
API <strong>{{ ::config.apiVersion }}</strong>
<span ng-if="config.apiCommitHash"> @ <strong>{{ ::config.apiCommitHash | limitTo: 7 }}</strong></span>
</div>
</div>
</footer>
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26 changes: 10 additions & 16 deletions app/scripts/annotations/annotations.controllers.ts
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Expand Up @@ -4,6 +4,9 @@ module ngApp.annotations.controllers {
import ICoreService = ngApp.core.services.ICoreService;
import IAnnotationsService = ngApp.annotations.services.IAnnotationsService;
import TableiciousConfig = ngApp.components.tables.directives.tableicious.TableiciousConfig;
import IFacetService = ngApp.components.facets.services.IFacetService;
import IProjectsService = ngApp.projects.services.IProjectsService;


export interface IAnnotationsController {
annotations: IAnnotations;
Expand All @@ -18,7 +21,9 @@ module ngApp.annotations.controllers {

/* @ngInject */
constructor(private $scope: IAnnotationsScope, private AnnotationsService: IAnnotationsService,
private CoreService: ICoreService, private AnnotationsTableModel:TableiciousConfig) {
private CoreService: ICoreService, private AnnotationsTableModel:TableiciousConfig,
private FacetService: IFacetService
) {
CoreService.setPageTitle("Annotations");
$scope.$on("$locationChangeSuccess", (event, next: string) => {
if (next.indexOf("annotations") !== -1) {
Expand All @@ -37,20 +42,7 @@ module ngApp.annotations.controllers {
refresh() {
this.AnnotationsService.getAnnotations({
fields: this.AnnotationsTableModel.fields,
expand: this.AnnotationsTableModel.expand,
facets: [
"annotation_id",
"classification",
"category",
"created_datetime",
"creator",
"status",
"entity_type",
"classification",
"project.primary_site",
"project.program.name",
"project.project_id"
]
facets: this.FacetService.filterFacets(this.AnnotationsTableModel.facets)
}).then((data) => {
if (!data.hits.length) {
this.CoreService.setSearchModelState(true);
Expand All @@ -67,7 +59,9 @@ module ngApp.annotations.controllers {

class AnnotationController implements IAnnotationController {
/* @ngInject */
constructor(public annotation: IAnnotation, private CoreService: ICoreService) {
constructor(public annotation: IAnnotation,
public ProjectsService: IProjectsService,
private CoreService: ICoreService) {
CoreService.setPageTitle("Annotation", annotation.annotation_id);
}
}
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