* first cut at GET /genesets route
* update existing tests to match code changes
* more GET /genesets and initial tests
* add missing test fixture
* geneset validation accepts OTA format
* genesets route: better error handling, more tests
* lint
* genesets reducer and initial load
* fix lint
* add autosave support for genesets
* remove debug logging
* fix typo
* fix another typo
* update smoke test config for genesets
* smoke test fixes
* more fiddling with smoke tests
The HistogramFooter needs to distinguish between an undefined
value and a value of 0. If the pvalAdj was 0, then the logFolChange
was previously not showing up.
#1888
* add long title
* add organism to Dataset Metadata and create headers
* begin HTMLTable for metadata
* switch out truncating for scrolling
* add optional chaining to redux state mapping
Co-authored-by: maniarathi <mani.arathi@gmail.com>
* Revert "Remove Continuous vars with 1 value from histogram, add to info drawer (#1927)"
This reverts commit 242546371b.
* remove conditional rendering cases
* ignore pointer events
Co-authored-by: Madison Dunitz <madison.dunitz@chanzuckerberg.com>
* remove single val continous metadata from histogram, add to info drawer
* refactor to save singleContinuous values in state
* fix edge case, single continuous values reappeard in rsb when clipped
This PR adds a few helpful additions regarding authentication.
Changes:
* e2e tests are now run on test_oauth via a passed config.yaml
* node dev server correctly handles `/login` and `/logout` endpoints to make developing for auth easier
* Introduced auth e2e tests to check that buttons display and work
* remove auth buttons and dataset info from info menu
* add auth buttons to menubar
* remove auth from top left
* new auth buttons
* move infomenu to lsb dir
* styling fixes
* feedback
* more feedback
Co-authored-by: Timmy Huang <thuang@chanzuckerberg.com>
* Remove door icon from log in button
* Move log in and info buttons from the top bar to in line with the cellxgene icon and dataset name
* Hover over on login button should say "Log in to cellxgene"
* Show email
closes#1830
Went through and ensured that undefined/null values were caught and handled correctly in render functions. Also documented some of the more complicated functions.
---
Closes#1825
This PR adds multiple data to the dataset overview drawer provided by the config endpoint and formats them accordingly. The appearance of this new data is contingent on `dataPortalProps.corpora_schema_version === "1.0.0"`
For QA launch cellxgene with a remixed dataset and click on the button in the upper left-hand corner or the updated button in the info menu.
~~Review opening is blocked by merge of #1805~~
---
Closes#1319
* save tiledb array to s3, dont cache user annotations
* Add option to disable annotation filename prompt (#1787)
Co-authored-by: Madison Dunitz <dunitzm@gmail.com>
* set tiledb default context in cxg_adaptor
Co-authored-by: maniarathi <arathi.mani@chanzuckerberg.com>
Co-authored-by: Severiano Badajoz <sbadajoz@chanzuckerberg.com>
* Separate userinfo from the config endpoint
previously information about if the user was logged in and their username
was part of the config endpoint.
However, the config endpoint was previously static, and has a cache control.
Rather than not caching the config, a new endpoint called "userinfo"
is created to handle that information.
The config endpoint still has the non-changing part of the authentication:
config:
authentication:
requires_client_login: True/False
login: <uri to login endoint if requires_client_login is True>
logout: <uri to logout endoint if requires_client_login is True>
The userinfo endpoint returns this information:
userinfo:
is_authenticated: True/False
username: <string if is_authenticated>
if authentication is not enabled then the config does not have an authentication key,
and userinfo returns None.
Also in the PR are a few minor code improvements and bug fixes
Co-authored-by: Colin Megill <colinmegill@gmail.com>
* add user flag feature to annomatrix
* add implicit subsetting for partial embeddings
* lint
* add embedding cell counts to embedding choice menu
* layout
Colin Megill
