Commit Graph

10 Commits

Author SHA1 Message Date
bmccandless
a7a4580944 separate backend base url from frontend (#1819)
* separate backend base url from frontend

This is needed for auth, and to support a different location for the backend api server,
than the frontend.

 part of chanzuckerberg/cellxgene#1778

new server config parameters:   app__api_base_url,   app__web_base_url

Also changed api_base_url in the oauth config section to "oauth_api_base_url" to
be less confusing with the app's api_base_url

Other minor changes:

changed how the jwt decode options are handled.
Previously they needed to be set in a test case, and there was some extra logic to handle that.
Now they are handled through comfig parameters, which makes it more general.

Also, add a feature to set the CORS support credentials, which seems
to be necessary for the backend/frontend separation, at least when run
locally.  This part is sort of experimental, and may be removed or changed later.
2020-09-11 09:50:16 -07:00
Madison Dunitz
65ea1b673f Dunitz 1685 hosted annotations (#1789)
* 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>
2020-08-24 18:26:08 -05:00
maniarathi
bc150a8469 Fixing bugs in cxg conversion tool (#1782) 2020-08-22 09:53:59 -07:00
maniarathi
a5c9ffa880 When reading annotations from tiledb, check if the values are byte literals and if so, decode them. Also pin s3f3 to 0.4.2. (#1788) 2020-08-22 09:42:11 -07:00
maniarathi
994c20c094 Move cxgtool into CLI and modularize conversion functions (#1701) 2020-08-17 17:28:29 -07:00
maniarathi
508889f74b Refactoring cxg utility classes in preparation for CXG conversion tooling (#1739) 2020-08-14 16:51:13 -07:00
Madison Dunitz
b034055c35 update to get_secrets_key (#1755)
* raise exception when get_secrets fails, get db_uri and set as a default_dataset_config var

* log as info not an error
2020-08-14 18:17:21 -05:00
Madison Dunitz
6a82030558 remove db_uri secret (#1751)
* remove db_uri secret

* add test to catch bug in future
2020-08-14 12:38:46 -05:00
Madison Dunitz
2689d8d2c0 Create hosted user annotations [1685] (#1726)
* add function to retrieve latest annotation from db, db updates

* read and write tiledb arrays

* adding tests
2020-08-13 19:07:17 -05:00
maniarathi
cdae4f9f10 Reorganize the server testing directory (#1705) 2020-08-05 08:31:02 -07:00