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Commit Graph
857 Commits
Author SHA1 Message Date
Nicola Soranzo e08deef224 Merge pull request #14592 from nsoranzo/misc_fixes_202209 
Misc fixes 202209
 2022-09-09 21:34:38 +01:00
Nicola Soranzo 157d9647ea Update docs on adding Python dependencies 
to use Wheelforge instead of Starforge.
 2022-09-09 17:26:30 +01:00
Nicola Soranzo 404da60afa Fix Tool Shed link 2022-09-09 17:20:24 +01:00
Nicola Soranzo cb012c7fb2 Merge branch 'release_22.05' into dev 2022-09-09 17:14:20 +01:00
Nicola Soranzo d8986239a1 Merge branch 'release_22.01' into release_22.05 2022-09-09 17:12:29 +01:00
Marius van den BeekandNicola Soranzo b05462a188 Add sbin to PATH 
Co-authored-by: Nicola Soranzo <nicola.soranzo@gmail.com>
 2022-09-09 13:06:35 +02:00
mvdbeek 0256b34b34 Include /bin in sample systemd unit path 2022-09-09 12:52:05 +02:00
Dannon c7a275b13c Merge pull request #14570 from guerler/logout_url 
Add config option for post logout redirect url
 2022-09-07 08:00:33 -04:00
guerler 8350ff212e Add post logout url to configuration 2022-09-05 14:12:50 -04:00
Nicola Soranzo 0df5c9a5fb Updates for Poetry 1.2.0 
Also:
- Export only dev requirements to `lib/galaxy/dependencies/dev-requirements.txt` .
- Packages don't have a `requirements.txt` file.
 2022-09-05 17:23:18 +01:00
John Chilton 52d982bf74 Merge pull request #14558 from jdavcs/dev_schema_rename_option_ref 
Fix reference to config option in schema
 2022-09-02 14:39:42 -04:00
Nicola Soranzo e7d7c62de6 Merge branch 'release_22.05' into dev 2022-09-02 19:28:55 +01:00
Nate Coraor 86e42b5483 Update Gravity to 0.13.4 and document setting env vars on dynamic 
handlers.
 2022-09-01 10:40:54 -04:00
John Davis 241647c1f1 Run make config-rebuild 2022-08-31 18:08:26 -04:00
mvdbeek 2e22b9e1f8 Merge branch 'release_22.05' into dev 2022-08-22 19:17:35 +02:00
Nicola Soranzo 4fcbe80268 Doc fixes 2022-08-19 18:33:20 +01:00
qiagu 419b6835d5 Reword dependencies in Batch job runner doc 2022-08-18 12:42:39 -07:00
Qiang GuandNuwan Goonasekera 92ec7c60b1 Update doc/source/admin/cluster.md 
Co-authored-by: Nuwan Goonasekera <2070605+nuwang@users.noreply.github.com>
 2022-08-18 12:42:39 -07:00
Qiang GuandNuwan Goonasekera 049a9ee1d8 Update doc/source/admin/cluster.md 
Co-authored-by: Nuwan Goonasekera <2070605+nuwang@users.noreply.github.com>
 2022-08-18 12:42:39 -07:00
qiagu ddb011b698 Add admin doc for aws batch runner 2022-08-18 12:42:38 -07:00
Nate Coraor 4151f176bf Merge remote-tracking branch 'upstream/release_22.05' into dev 2022-08-17 16:37:02 -04:00
Marius van den Beek cd94ccb6c5 Merge pull request #14457 from natefoo/log-rotation 
[22.05] Add log rotation options and update logging documentation
 2022-08-17 19:24:07 +02:00
Nicola Soranzo 3378348d5e Merge branch 'release_22.05' into dev 2022-08-17 01:07:02 +01:00
Nicola Soranzo 961472cfff Merge branch 'release_22.01' into release_22.05 2022-08-16 23:25:42 +01:00
Nate Coraor 3522fd3a49 Add log rotation options and update logging documentation 2022-08-15 20:54:02 -04:00
Nicola Soranzo 69defb7a20 Doc fixes 2022-08-15 19:15:02 +01:00
Nicola Soranzo 575a1d8358 Merge pull request #14430 from bernt-matthias/unlink-job-template 
Deprecate `cluster_files_directory` and store DRMAA job template and PBS shell, error and out files in job working directory
 2022-08-13 01:00:10 +01:00
Dannon Baker 3112181f3e Merge remote-tracking branch 'upstream/release_22.05' into dev 2022-08-12 13:18:53 -04:00
Matthias Bernt b81b2f827e remove more leftover references to cluster_files_directory 2022-08-12 16:07:35 +02:00
mvdbeek 728ceebc8a Fix nested archive unzipping on windows 
We need the directory markers in order for the default windows zip
utility to be able to extract the archives. Also requires
https://github.com/evanmiller/mod_zip/commit/51cf45d3e9f51e02224af017b235d1d30fbf28fb
or newer on the mod_zip side.
 2022-08-10 17:33:29 +02:00
mvdbeek a351bd1ce9 Merge branch 'release_22.05' into dev 2022-08-09 15:12:15 +02:00
Cameron Hyde ffb9b34d89 Update config schema descriptions for tool search 2022-07-28 17:32:32 -05:00
Cameron Hyde 2ca6e7353b Add new config params for tool search 2022-07-28 17:29:58 -05:00
M BerntandNicola Soranzo ed5bdcefec Apply suggestions from code review 
Co-authored-by: Nicola Soranzo <nicola.soranzo@gmail.com>
 2022-07-04 14:27:29 +02:00
Matthias Bernt a75e17e081 move to new top level category 2022-07-01 17:33:13 +02:00
M BerntandMartin Cech fe10f76aba Update doc/source/admin/production.md 
Co-authored-by: Martin Cech <cech.marten@gmail.com>
 2022-07-01 14:07:36 +02:00
M BerntandHelena 99935b64ef Apply suggestions from code review 
Co-authored-by: Helena <hxr@hx42.org>
 2022-07-01 12:44:12 +02:00
M BerntandMarius van den Beek d4473a9939 Update doc/source/admin/production.md 
Co-authored-by: Marius van den Beek <m.vandenbeek@gmail.com>
 2022-07-01 11:38:00 +02:00
Matthias Bernt 84f2c122ab add documentation how to avoid data modification by tools 2022-07-01 11:29:26 +02:00
Nate Coraor 270790edc7 Correct standalone pool names 2022-06-15 11:47:51 -04:00
Dannon Baker adb02555cb Fix proxy_port arg for interactivetools config sample/doc 2022-06-07 10:40:09 -04:00
Dannon 4644922783 Merge pull request #13655 from mvdbeek/metadata_embed 
Create data_fetch and set_metadata celery tasks
 2022-06-07 10:27:06 -04:00
Nicola Soranzo ed9b009ea7 Merge pull request #14013 from qiagu/doc 
Fix a small error in job doc
 2022-06-04 03:05:48 +02:00
Qiang GuandNicola Soranzo bb72b21ae4 Update doc/source/admin/jobs.md 
Co-authored-by: Nicola Soranzo <nicola.soranzo@gmail.com>
 2022-06-03 17:29:12 -07:00
Qiang GuandNicola Soranzo e701a7055d Update doc/source/admin/jobs.md 
Co-authored-by: Nicola Soranzo <nicola.soranzo@gmail.com>
 2022-06-03 17:28:57 -07:00
qiagu fa5eee19d7 Fix job doc 2022-06-03 13:08:44 -07:00
mvdbeek 33a3a203f4 Decrease monitor sleep in tests 2022-05-26 12:48:43 +02:00
mvdbeek d845f2a880 Update config file description 2022-05-25 19:46:05 +02:00
M Bernt d3da6b94f7 Merge branch 'dev' into topic/auth-maxretries 2022-05-21 17:32:31 +02:00
Dannon 71ec553098 Merge pull request #13829 from ahmedhamidawan/Custos_login_enh 
Custos Login Ambiguity enhancement
 2022-05-09 06:23:38 -07:00