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Author SHA1 Message Date
Nate Coraor d7dd9b2b65 WIP: drop stack configurability, this will come later. Cleanup for WIP 
PR
 2017-08-21 21:50:46 -04:00
Nate Coraor 27a0b1ba40 WIP: attempted to support workers shared between pools, but locking 
won't allow for this, since you can't wait on messages from a specific
farm.
 2017-08-21 21:48:01 -04:00
Nate Coraor ece3f242fb Abandoning unprogrammed mules (for now), fixes for programmed mules 2017-08-21 21:46:39 -04:00
Nate Coraor a06d6cf616 WIP: Job handlers as UWSGI mules, attempt at unprogrammed mules. 2017-08-21 21:45:28 -04:00
Nate Coraor c7663a4e2e WIP job handlers as uWSGI mules refactor 2017-08-21 21:40:25 -04:00
Nate Coraor 092a6b4923 WIP uWSGI mule job handlers - it works! 2017-08-21 21:39:30 -04:00
Nate Coraor e2e3e5f7d1 WIP job handlers as uWSGI mules from GCC 2017 Hackathon. 2017-08-21 21:39:00 -04:00
Nate Coraor 85ea2d2728 Script reusage and generate uWSGI mule args 2017-08-21 21:36:48 -04:00
Nate Coraor 36e0e01b6b Run job handlers as uWSGI mules 2017-08-21 21:36:48 -04:00
Nicola Soranzo 63d1d428a1 Merge pull request #4469 from guerler/fix_quota_api 
Fix quota function name
 2017-08-21 16:28:46 +01:00
guerler 092ad6d67f Fix quota function name 2017-08-21 08:28:25 -04:00
John Chilton e3b3457b1f Merge pull request #4465 from mvdbeek/workflow_invocation_security_check 
Fix checking WorkflowInvocation for published workflows
 2017-08-21 07:10:08 -04:00
Martin Cech 2346c0aa7e Merge pull request #4467 from mvdbeek/saved_history_tags 
More items per page in saved history and directly show tags
 2017-08-20 23:21:18 -04:00
mvdbeek a9d5c7c59c Show tag if < 3 tags on history 2017-08-20 17:43:47 +02:00
mvdbeek 0e46888eed Show up to 15 histories by default in saved histories menu 2017-08-20 17:42:18 +02:00
mvdbeek 64f8e74ade Fix subworkflow tests 2017-08-20 12:49:43 +02:00
mvdbeek cff306b86b Only skip check_security checks if check_ownership and check_accessible are false 2017-08-20 11:24:09 +02:00
mvdbeek 2d16470132 Allow admin user to view workflow invocation (thx @nsoranzo) 2017-08-20 11:21:01 +02:00
mvdbeek 80e264d35f Check ownership of invocation, instead of stored_workflow 2017-08-19 16:07:53 +02:00
mvdbeek 0a4203ed92 Fix test to use invocation_id instead of history_id 2017-08-19 14:45:58 +02:00
mvdbeek 413233eec3 Correctly raise Exception if invocation not found 2017-08-19 14:45:58 +02:00
mvdbeek 912da2f3b9 Fix checking WorkflowInvocation for published workflows 2017-08-19 14:45:58 +02:00
Martin Cech fd51a61d01 Merge pull request #1814 from gvlproject/genomespace_workflows 
Galaxy Workflow support for GenomeSpace
 2017-08-18 16:11:26 -04:00
Nuwan Goonasekera 3240197823 Rebuilt galaxy client files 2017-08-19 00:40:21 +05:30
Nuwan Goonasekera 52b26f45a2 Registered genomespace_importer as a tool needing Galaxy's python env 2017-08-19 00:38:08 +05:30
Nuwan Goonasekera 3e8bf3c4e7 Moved genomespace token to environment variable 2017-08-19 00:38:08 +05:30
Nuwan Goonasekera 46dc4a252c Fixed template formatting according to review comments 2017-08-19 00:38:08 +05:30
Nuwan Goonasekera b995e551d4 Fixed alignment of buttons in Genomespace Importer 2017-08-19 00:38:08 +05:30
Nuwan Goonasekera b73e21b584 Formatting and linting fixes for GenomeSpace tool 2017-08-19 00:38:07 +05:30
Nuwan Goonasekera 517fd23fc8 Fixed typo in exporter help text 2017-08-19 00:38:07 +05:30
Nuwan Goonasekera ae6ae8ffe2 Added new config setting for GenomeSpace UI URL 2017-08-19 00:38:07 +05:30
Nuwan Goonasekera 678d575a7a Improved recognition of compressed files 2017-08-19 00:38:07 +05:30
Nuwan Goonasekera 46c04dcbd4 Fix incorrect reference when determining file type through file ext 2017-08-19 00:38:07 +05:30
Nuwan Goonasekera cb1b086324 Fixed pylint errors 2017-08-19 00:38:07 +05:30
slugger70 b04ccbe55b Fixed genomespace_importer.xml command block 2017-08-19 00:38:06 +05:30
Nuwan Goonasekera ad1b613445 Added support for pushing multiple files from GenomeSpace to Galaxy. 2017-08-19 00:38:06 +05:30
Nuwan Goonasekera e39901ef06 Moved back some code to wrapper and added back data type sniffing. 2017-08-19 00:38:06 +05:30
Nuwan Goonasekera 1342c2bd70 Integrated File Browsing and Workflow support for GenomeSpace 2017-08-19 00:38:06 +05:30
Martin Cech 2630183268 Merge pull request #4464 from dannon/rebuild_000 
Client rebuild, @guerler and I were trying to figure out what changed…
 2017-08-18 14:20:10 -04:00
Dannon Baker dd27c1edcc Client rebuild, @guerler and I were trying to figure out what changed in the recently merged #4438 but don't see anything obvious. 2017-08-18 14:16:45 -04:00
Dannon Baker 7f50a8a29f Merge pull request #4438 from guerler/improve_form_modules 
Augment form module separation
 2017-08-18 13:57:32 -04:00
John Chilton cd22de114c Merge pull request #4457 from erasche/sentry-extra-info 
More detailed sentry reports
 2017-08-18 13:02:28 -04:00
Dannon Baker 9c6fd670cf Merge pull request #4455 from nsoranzo/multiline_if_conditionals 
Uniform indentation of multiline if conditionals
 2017-08-18 10:13:05 -04:00
John Chilton e492494282 Merge pull request #4456 from nsoranzo/logging_fixes 
Logging fixes
 2017-08-18 09:51:57 -04:00
E Rasche e987b9b9e4 swap id to username 2017-08-18 14:25:44 +02:00
Marius van den Beek dd89a9c65f Merge pull request #4437 from jmchilton/galaxy_json_rev 
Enhanced tool options for dataset discovery
 2017-08-18 14:18:50 +02:00
E Rasche 8d132b2bca More detailed sentry reports 2017-08-18 14:18:23 +02:00
Eric Rasche b459399ede Merge pull request #4454 from xgaia/interactive_environment 
Interactive Environment: possibility to don't uppercase env variables
 2017-08-18 13:48:25 +02:00
Nicola Soranzo bd88524a10 Fix import order and Python3 compatibility 2017-08-18 12:35:04 +01:00
Nicola Soranzo e32ad2864f Remove container config log message from cleanup scripts logs 2017-08-18 12:35:04 +01:00