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Author SHA1 Message Date
atarashansky
aea4864e77 test 2023-04-26 13:52:05 -04:00
Kuni Katsuya
85319d45a4 chore: tech issue template 2023-02-06 15:46:54 -08:00
Andrew Tolopko
514f1627ea Update license copyright year (#2600) 2023-02-03 16:01:53 -05:00
Severiano Badajoz
127de34a20 feat: Add PR Linting (#2560) 2022-10-24 18:08:25 +00:00
Andrew Tolopko
54ab9d79b6 docs: fix test pypi install command (#2515) 
fix test pypi install command in release_process.md
 2022-09-29 19:30:11 +00:00
Andrew Tolopko
f48d06fb90 Bump version: 1.1.0 → 1.1.1 (#2572) 1.1.1 2022-09-21 15:33:28 -04:00
Severiano Badajoz
84563291a0 fix: fix static file serving in webpack (#2574) 
Co-authored-by: Seve Badajoz <severiano.badajoz@chanzuckerberg.com>
 2022-09-21 18:03:03 +00:00
Andrew Tolopko
ddb601c103 feat: annotate command improvements (#2568) 
* Replace --input-h5ad-file with a positional argument, for consistency with other CLI commands
* Replace --update-h5ad-file with --overwrite, for consistency with `prepare` command.
* Fix/clarify various help descriptions
* Fix final output message when input file is overwritten
* Fix annotate top-level help description
 2022-09-15 11:55:58 -04:00
ashin-czi
450261f109 chore: updating Annotate favicon and logo icon (#2556) 
* chore: replacing html icon with png icon and updating favicon
 2022-08-25 16:01:03 +00:00
ashin-czi
c0f4ad6dfa docs: updating readme and display version for rebranding (#2550) 
* docs: updating readme and display version for rebranding

- CELLxGENE -> CELLxGENE Annotate
- reverting __init__.py display_version back to "cellxgene"
- changing page titles to "CELLxGENE | Annotate"
 2022-08-25 15:41:26 +00:00
atarashansky
ff5da77372 fix unit tests (#2562) 
Co-authored-by: atarashansky <atarashansky@CZIMACOS3990.local>
 2022-08-25 08:02:58 -07:00
Andrew Tolopko
a9044b01df release version 1.1.0 (#2548) 
* Bump version: 1.0.1 → 1.1.0-rc.0

* bump version to v1.1.0

* Bump version: 1.1.0-rc.0 → 1.1.0-rc.1

* bump version to v1.1.0 rc1

rc0 was previously used by an aborted release attempt

* Bump version: 1.1.0-rc.1 → 1.1.0

Co-authored-by: Seve Badajoz <severiano.badajoz@chanzuckerberg.com>
Co-authored-by: Severiano Badajoz <sbadajoz@chanzuckerberg.com>
 2022-08-23 10:02:23 -07:00
ashin-czi
11b948369f fix: reverting back to old icon 2022-08-18 14:49:59 -04:00
ashin-czi
a2dc0c25b1 chore: updating Annotate favicon 2022-08-11 13:30:19 -04:00
Andrew Tolopko
a9ef01a6f9 fix test (#2549) 
address issues building mlflow model in GHA test env
1.1.0 v1.1.0 		2022-07-29 11:17:04 -04:00
Andrew Tolopko
03d9e8e6aa fix unit test 
avoid performing pip installs for mlflow-based tests
 2022-07-29 09:57:55 -04:00
Andrew Tolopko
30e19e47c6 feat: add cli annotation subcommand (#2539) 
add `cellxgene annotate` subcommand for invoking MLflow model to generate new `obs` annotations, initially intended for cell type annotations.
 2022-07-29 05:15:54 -07:00
Emanuele Bezzi
d2b20129f7 use fsspec.download for S3 artifacts + additional logging (#2536) 2022-07-29 11:05:36 +00:00
Rohan Agarwal
6c86216f6b Update actions/setup-python version (#2528) 2022-07-28 21:17:46 +00:00
Andrew Tolopko
4df50a7677 fix: s3 user annotations (#2541) 
do _not_ attempt to create the user annotations directory if an s3 location is specified
 2022-07-28 20:00:15 +00:00
Andrew Tolopko
69a6d52240 fix embedding selection (#2543) 
reverted code to previous implementation that was presumably changed due to a "destructuring assignment" lint error; explicitly ignoring error now
 2022-07-28 15:49:33 -04:00
Andrew Tolopko
06da05eb9f skip failing tests to unblock adding of new features (#2545) 
skipped tests will be reinstated in future issues
 2022-07-28 15:11:36 -04:00
Severiano Badajoz
d753441acc chore(webpack): remove script-ext-html-webpack-plugin (#2534) 
Co-authored-by: Seve Badajoz <severiano.badajoz@chanzuckerberg.com>
 2022-07-12 13:42:20 -04:00
Rohan Agarwal
8b4c1e418e chore: replace optimize-css-assets-webpack-plugin with css-minimizer-webpack-plugin (#2525) 
* Replace optimize-css-assets-webpack-plugin with css-minimizer-webpack-plugin

* Fix lint issues in JS

* remove favicons

* update snapshots

* update annotations snapshots

Co-authored-by: Trent Smith <1429913+Bento007@users.noreply.github.com>
Co-authored-by: Seve Badajoz <sbadajoz@chanzuckerberg.com>
 2022-06-07 13:13:17 -07:00
Madison Dunitz
f2bd6ebce1 remove unnecessary postgres req (#2524) 2022-05-27 12:15:17 -07:00
Bruce Martin
de44739f8b add fsspec support to gene set and cell annotations (#2512) 2022-04-20 18:18:47 -07:00
Severiano Badajoz
002c9a5c7f release version 1.0.1 (#2497) 
* Bump version: 1.0.0 → 1.0.1-rc.0

* Bump version: 1.0.1-rc.0 → 1.0.1
1.0.1 		2022-02-28 15:18:21 -08:00
dependabot[bot]
e6a0351079 chore(deps): bump nanoid from 3.1.25 to 3.3.1 in /client (#2488) 
Bumps [nanoid](https://github.com/ai/nanoid) from 3.1.25 to 3.3.1.
- [Release notes](https://github.com/ai/nanoid/releases)
- [Changelog](https://github.com/ai/nanoid/blob/main/CHANGELOG.md)
- [Commits](https://github.com/ai/nanoid/compare/3.1.25...3.3.1)

---
updated-dependencies:
- dependency-name: nanoid
  dependency-type: indirect
...

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
 2022-02-25 09:57:22 -08:00
dependabot[bot]
38fdc649f5 chore(deps): bump axios from 0.21.1 to 0.21.4 in /client (#2491) 
Bumps [axios](https://github.com/axios/axios) from 0.21.1 to 0.21.4.
- [Release notes](https://github.com/axios/axios/releases)
- [Changelog](https://github.com/axios/axios/blob/master/CHANGELOG.md)
- [Commits](https://github.com/axios/axios/compare/v0.21.1...v0.21.4)

---
updated-dependencies:
- dependency-name: axios
  dependency-type: indirect
...

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
 2022-02-24 14:20:17 -08:00
dependabot[bot]
69a5d5e837 chore(deps): bump tmpl from 1.0.4 to 1.0.5 in /client (#2490) 
Bumps [tmpl](https://github.com/daaku/nodejs-tmpl) from 1.0.4 to 1.0.5.
- [Release notes](https://github.com/daaku/nodejs-tmpl/releases)
- [Commits](https://github.com/daaku/nodejs-tmpl/commits/v1.0.5)

---
updated-dependencies:
- dependency-name: tmpl
  dependency-type: indirect
...

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
 2022-02-24 14:05:26 -08:00
dependabot[bot]
b854c58eea chore(deps): bump simple-get from 3.1.0 to 3.1.1 in /client (#2489) 
Bumps [simple-get](https://github.com/feross/simple-get) from 3.1.0 to 3.1.1.
- [Release notes](https://github.com/feross/simple-get/releases)
- [Commits](https://github.com/feross/simple-get/compare/v3.1.0...v3.1.1)

---
updated-dependencies:
- dependency-name: simple-get
  dependency-type: indirect
...

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
 2022-02-24 13:46:07 -08:00
dependabot[bot]
2d650ba50d chore(deps): bump follow-redirects from 1.14.2 to 1.14.8 in /client (#2484) 
Bumps [follow-redirects](https://github.com/follow-redirects/follow-redirects) from 1.14.2 to 1.14.8.
- [Release notes](https://github.com/follow-redirects/follow-redirects/releases)
- [Commits](https://github.com/follow-redirects/follow-redirects/compare/v1.14.2...v1.14.8)

---
updated-dependencies:
- dependency-name: follow-redirects
  dependency-type: indirect
...

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
 2022-02-24 11:57:08 -08:00
Ben MR
8bac98f25c Fix float16 support [#2379] (#2483) 
* Fix float16 support [#2379]

Convert to float32 on startup unless backed, in which case error. scipy does not support complex slicing from float16 data so this is the easiest fix for now.

* minor msg change
 2022-02-10 15:20:47 -08:00
maniarathi
ceb0cc6f27 Update license to 2022. (#2478) 2022-01-14 14:07:35 -05:00
Severiano Badajoz
853976b716 release version 1.0.0 (#2466) 
* Bump version: 0.19.0 → 1.0.0-rc.0

* Bump version: 1.0.0-rc.0 → 1.0.0
1.0.0 		2021-11-02 14:53:26 -07:00
Emanuele Bezzi
a344f292a9 Restore logo and favicon in docs/ (#2464) 2021-10-14 21:13:04 +00:00
Emanuele Bezzi
15d2ce62b8 Migrate to the new documentation website (#2456) 2021-10-14 20:54:54 +00:00
Colin Megill
8e011314e9 Remove log (#2463) 2021-10-14 18:02:54 +00:00
Ben MR
c81731d32c [FE: fix #2371] fix for when labels are null (#2462) 
Categoricals can have nulls
 2021-10-05 12:17:34 -07:00
Colin Megill
3b091d888d Update diffexpButtons.js (#2461) 2021-10-04 15:35:55 -07:00
Timmy Huang
79aeedc6c3 refactor: 2235 remove cookie banner (#2459) 2021-10-04 11:26:01 -07:00
Colin Megill
e6bacf043b typo fix (#2460) 2021-10-01 18:28:47 -07:00
Colin Megill
be020deaa6 Update infoMenu.js (#2455) 
Fixes #2452
 2021-09-29 13:00:55 -07:00
Emanuele Bezzi
4034256d9c Create CNAME file to point docs to the new website (#2453) 
Add a CNAME file that will redirect the current github pages (hosted at https://chanzuckerberg.github.io/cellxgene/) to the new website.
 2021-09-29 13:28:49 -04:00
Ben MR
5163e35e1f fix #2446 update release docs and commands (#2448) 
* update release docs and commands

* update doc on release-test install
 2021-09-29 15:06:35 +00:00
Ben MR
f4986c9c7d Release version 0.19.0 (#2444) 
* Bump version: 0.18.0 → 0.19.0-rc.0

* release can 0.19.0

* Bump version: 0.19.0-rc.0 → 0.19.0-rc.1

* bump rc

* Bump version: 0.19.0-rc.1 → 0.19.0

* release final
0.19.0 		2021-09-28 11:10:24 -07:00
Colin Megill
a0011b0872 cursor pointer on mit license and version (#2447) 2021-09-27 09:47:34 -07:00
Colin Megill
77fff0bd9c Remove pointer on gene (#2445) 
* Remove grab

Fixes #2438

* snapshot

* pointer

* snapshot
 2021-09-24 12:21:32 -07:00
Ben MR
6a4884d97c Re-add bumpversion to makefile (#2443) 2021-09-23 22:08:00 +00:00
Colin Megill
15714e9924 Remove grab (#2439) 
* Remove grab

Fixes #2438

* snapshot
 2021-09-23 10:30:55 -07:00