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Commit Graph
1921 Commits
Author SHA1 Message Date
davelopez a967f8d435 Update user facing release notes 
- Update the WF Invocations Export section
- Add the History Export Tracking section
 2023-04-10 11:26:54 -04:00
Martin Cech 2f16a98065 update 23.1 tag and estimates 2023-04-10 11:26:54 -04:00
Dannon Baker 645500102b Regenerate PRs 2023-04-10 11:26:54 -04:00
Dannon Baker ad0520e2e4 Cleanup in user announce post-regen 2023-04-10 11:26:54 -04:00
Dannon Baker 6171b9b9a3 Regenerate notes to include new PRs. 2023-04-10 11:26:54 -04:00
Helena Rasche 3fd382acb8 add video thanks to @delphine-l 2023-04-10 11:26:54 -04:00
Dannon Baker 8c388c61be Deprecation notice for myexperiment.org workflow exports 2023-04-10 11:26:54 -04:00
Dannon Baker 4dfccd65ac Note trackster deprecation 2023-04-10 11:26:54 -04:00
Helena Rasche e1bf303796 Add separators, labels 
Per @electronicblueberry's suggestion
 2023-04-10 11:26:54 -04:00
Helena Rasche ab5da8605f fix links, make list 2023-04-10 11:26:54 -04:00
Helena Rasche 8649598b9d Write user facing release notes 2023-04-10 11:26:54 -04:00
Helena Rasche abb7d7fc92 Use semantic headings 2023-04-10 11:26:54 -04:00
Helena Rasche 46f2a72319 credit 2023-04-10 11:26:54 -04:00
Helena Rasche 0c6d57fb5c More non-relevant refactorings 2023-04-10 11:26:54 -04:00
Helena Rasche a13e53eb19 Cleanup non-relevant items and refactorings 2023-04-10 11:26:54 -04:00
Helena Rasche 793f112431 Add link to admin highlights 2023-04-10 11:26:54 -04:00
DannonandJohn Davis 0ebd5a10af Update doc/source/releases/23.0_announce_user.rst 
Co-authored-by: John Davis <jdavcs@gmail.com>
 2023-04-10 11:26:54 -04:00
Dannon Baker d5d5515516 More date tweaks 2023-04-10 11:26:54 -04:00
Dannon Baker 6a7bd15ba4 Initial 23.0 release notes 2023-04-10 11:26:54 -04:00
Nicola Soranzo 116ca90fdd Merge pull request #15861 from dannon/drop-legacy-history-config 
Drop use_legacy_history from config
 2023-03-28 18:21:56 +01:00
Dannon 4731290375 Merge pull request #15790 from dannon/update-committers 
[PROCEDURES] Remove jxtx from committers list.
 2023-03-28 11:54:31 -04:00
Dannon Baker fd0690a8fb Drop use_legacy_history from config -- this is no longer possible. 2023-03-28 10:23:59 -04:00
Nicola Soranzo c2eebd0bbe Fix `'myst' cross-reference target not found` warnings 
Also:
- Use auto-generated table of contents in tool schema
 2023-03-27 15:07:21 +01:00
Nicola Soranzo 0f70c68fd9 Migrate to MyST-Parser for Markdown docs 
replacing deprecated recommonmark.

Fix https://github.com/galaxyproject/galaxy/issues/13005 .

Also:
- Drop not very useful ``doc/source/dev/file_upload.md`` .
- Small doc and link fixes.
 2023-03-27 15:01:27 +01:00
Martin Cech 7a1f449760 Merge pull request #15789 from dannon/add-committer-laila 
[PROCEDURES] Add Laila as a committer
 2023-03-24 00:14:20 -04:00
mvdbeek bd753160bb Merge branch 'release_23.0' into dev 2023-03-15 19:20:21 +01:00
Dannon Baker 109edac63c Remove jxtx from committers list. 
Years later now and this is no easier, but I'm pretty sure James would
have wanted this done a while ago.
 2023-03-14 08:06:04 -04:00
Dannon Baker fe08571ea3 Add Laila as a committer 2023-03-14 07:49:19 -04:00
John Davis dda56025cc Run make config-rebuild 2023-03-13 11:59:39 -04:00
David López 8a8c380ac1 Merge pull request #15707 from jmchilton/object_store_docs_1 
More object store documentation.
 2023-03-10 13:49:18 +01:00
Martin Cech d6e7654fd9 update url 2023-03-06 15:04:57 -08:00
John Chilton 7688ac27cc More object store documentation. 2023-03-06 16:54:49 -05:00
Matthias BerntandMarius van den Beek 6ab54a277d reformulations 
Co-authored-by: Marius van den Beek <m.vandenbeek@gmail.com>
 2023-03-06 20:40:52 +01:00
M BerntandMartin Cech 657dd0b430 Apply suggestions from code review 
Co-authored-by: Martin Cech <emulatorer@gmail.com>
 2023-03-06 20:35:38 +01:00
Matthias Bernt b81b01cc63 doc: api doc 
how to access api docs
 2023-03-06 20:03:10 +01:00
Martin Cech e236d6919a update the admin activation docs 2023-02-28 13:08:11 -08:00
Dannon Baker 3aac36d588 Drop myexperiment.org exports 2023-02-14 10:45:52 -05:00
mvdbeek a31eb0489c Use sentry-fastapi integration, expose sampling rate 2023-02-10 13:03:09 +01:00
Dannon Baker 2c69c96dfd Update run_tests_help w/ client targets 2023-01-25 09:13:35 -05:00
Dannon d2a4339c88 Merge pull request #15131 from Paprikant/beacon-integration 
Beacon integration
 2023-01-19 22:00:28 -05:00
Dannon 2c65d8e755 Merge pull request #14035 from dannon/samples-rename 
Rename samples_tool_conf to sample_tool_conf
 2023-01-17 13:03:07 -05:00
Benno Weiss b906e4296d Merge branch 'dev' of https://github.com/galaxyproject/galaxy into beacon-integration 2023-01-17 18:30:22 +01:00
Nicola Soranzo 39c0000c1b Bump minimum pip version to 20.3 . Ignore `--replace-pip and --no-replace-pip` startup options 
Pip 20.3 added support for PEP 600, i.e. manylinux wheels using platform
tags of the form "manylinux_${GLIBCMAJOR}_${GLIBCMINOR}_${ARCH}". Fix
installation of dependencies like pysam 0.20.0 wheels, which otherwise need
to be built from source and can fail as reported by @assuntad23 in
https://gist.github.com/assuntad23/3022db63a6878f044a209961dd40e592

Also:
- Install `wheel` to fix warning like `Using legacy setup.py install for
  beaker, since package 'wheel' is not installed.`
- Drop unnecessary `defaults` channel from conda commands.
- Fix "SC2223: This default assignment may cause DoS due to globbing. Quote
  it." errors reported by `shellcheck -x` .
 2023-01-17 15:01:38 +00:00
Nicola Soranzo 921e5da2e6 Lint 2 previously excluded files with black and isort 2023-01-16 14:34:56 +00:00
Dannon Baker d04fb67396 Rename samples_tool_conf to sample_tool_conf to match datatypes/data_manager naming convention 2023-01-10 10:03:23 -05:00
Nicola Soranzo 5826b429d4 Merge pull request #14849 from mahendrapaipuri/auth_ldap3 
Add LDAP authenticator variant using `ldap3` package
 2023-01-09 15:41:54 +00:00
Mahendra Paipuri c9487b851f Improve wording based on PR comments 2023-01-09 15:16:40 +01:00
Dannon Baker 9de4e72563 Rebuild config including gravity stuff 2022-12-22 21:25:41 -05:00
Laila Los 7d7ac4111b rebuild config 2022-12-22 16:59:27 +01:00
Laila Los 34cbbc5ad6 add persistant theme swapping 2022-12-21 14:01:34 +01:00