opensource/galaxy
3
0
Fork 0
mirror of https://github.com/galaxyproject/galaxy.git synced 2026-10-25 00:12:08 +08:00
Code Issues Packages Projects Releases Wiki Activity
2,024 Commits 62 Branches 243 Tags
6a3f5a925ecc8d730efd2d3acd35ea44389c16c1
Commit Graph
2024 Commits
This Branch
This Branch
All Branches
Author SHA1 Message Date
Greg Von Kuster 6a3f5a925e Eagerload active_datasets for a history rather than activatable_datasets since it throws exceptions in the migration script. 2008-12-23 10:25:54 -05:00
Greg Von Kuster 61951c59e1 More optimization, code cleanup in migration script. 2008-12-23 09:29:58 -05:00
Greg Von Kuster 1cf912260d Bug fixes for my last commit. 2008-12-22 17:12:20 -05:00
Greg Von Kuster 6d9db00839 Speed up script for migrating central to security. 2008-12-22 16:39:36 -05:00
Guruprasad Anada 0eb6e8d521 Pushing changes from central to security.. 
G: Enter commit message.  Lines beginning with 'HG:' are removed.
 2008-12-22 13:38:00 -05:00
Guruprasad Anada 54dc919413 Script to enumerate GOPS JOIN jobs that could have returned an incorrect result before the issue with minimum overlap was fixed last week. 2008-12-22 13:35:01 -05:00
Guruprasad Anada 10d6090e81 Pushing changes from central to Security. 2008-12-22 12:16:14 -05:00
Guruprasad Anada 8c7c765480 Modified sort options in grouping tool to work correctly on older and newer versions of unix sort. Also included functional tests. 2008-12-22 12:15:02 -05:00
Nate Coraor e853cc6f25 Make UCSC build update scripts find elementtree properly 2008-12-22 11:08:23 -05:00
Nate Coraor aedc44b0d5 When require_login is set and an anonymous user accesses display_as, allow it through if it's the Genome Browser. Dataset actions still apply 2008-12-19 15:17:38 -05:00
Wen-Yu Chung 05513833f5 fix for short read score distribution tool. restore test data. passed functional tests in scofield 2008-12-19 14:28:09 -05:00
Wen-Yu Chung b31191d4bd fix for short read score distribution tool. restore test data. 2008-12-19 14:25:43 -05:00
Wen-Yu Chung 1da324ffb5 fixed for short read build distribution tool. remove unused arrays. 2008-12-19 12:28:02 -05:00
Wen-Yu Chung 170f9d2d77 fixed for short read build distribution tool. remove unused arrays. also update test data output. 2008-12-19 12:25:52 -05:00
Greg Von Kuster 9fe613c939 merging from central 2008-12-19 11:06:13 -05:00
Greg Von Kuster 4dc6d12546 Yet another fix for the deleted histories report. 2008-12-19 11:05:54 -05:00
Greg Von Kuster 98135a27bb Fix for deleted histories report in the system controller. 2008-12-19 10:55:42 -05:00
Greg Von Kuster 03726ab6a2 merging from central 2008-12-19 10:55:09 -05:00
Greg Von Kuster b04a216eae merging from central 2008-12-19 10:12:15 -05:00
Greg Von Kuster 373519b650 Add security to reports app, fixes reports. 2008-12-19 09:53:32 -05:00
Greg Von Kuster 8c306a002e Fixes required due to my last merge from central. 2008-12-18 17:19:16 -05:00
Greg Von Kuster db1c1fb660 merging from central 2008-12-18 16:44:34 -05:00
Greg Von Kuster 42ca95a373 Enhance the tool panel, now supports following tags: 
<toolbox>
    <tool file="data_source/upload.xml"/>            # tools outside sections
    <label text="Basic Tools" id="basic_tools" />    # labels outside sections
    <workflow id="529fd61ab1c6cc36" />               # workflows outside sections
    <section name="Get Data" id="getext">            # sections
        <tool file="data_source/biomart.xml" />      # tools inside sections
        <label text="In Section" id="in_section" />  # labels inside sections
        <workflow id="adb5f5c93f827949" />           # workflows inside sections
    </section>
</toolbox>
 2008-12-18 16:35:26 -05:00
Greg Von Kuster 0f6c60b70e merging from central 2008-12-18 09:36:49 -05:00
Greg Von Kuster 5a1637dc28 Pass in a session cookie name when building the app - this enables the Galaxy session to use a different cookie from the Galaxy reports session. Also add exception handling to decoding the session key so server errors won't result from attempting to retrieve an invalid session key from the db. 2008-12-18 09:32:43 -05:00
Guruprasad Anada 14e8c4fcad speed enhancement for incorrect_gops_jobs script. 2008-12-17 12:13:38 -05:00
Guruprasad Anada 25cd5b63f5 central to security 2008-12-17 12:13:32 -05:00
Guruprasad Anada 6e266a9deb Central to security 2008-12-17 11:26:32 -05:00
Guruprasad Anada 42263dd8b2 Fix for a minor bug in my previous commit. 2008-12-17 11:25:35 -05:00
Guruprasad Anada 8bd7ce669b Commiting changes from central to security: 2008-12-17 11:03:27 -05:00
Guruprasad Anada b84c1cb2ab Enhancing incorrect_Gops_job script to output only those jobs whose output has changed since the BitSetSafeReaderWrapper was fixed. 2008-12-17 11:01:57 -05:00
James Taylor d7bb37c95c Merging due to sloppy commit order. 2008-12-16 17:32:20 -05:00
James Taylor d2dfd2db26 Allow workflows to recognize "data_meta" filters in dynamic options as 
forcing runtime validation.
 2008-12-16 17:30:19 -05:00
James Taylor 54385c8313 Allow workflows to recognize "data_meta" filters in dynamic options as 
forcing runtime validation.
 2008-12-16 17:05:28 -05:00
James Taylor 9ca2331917 One more fix for running workflows involving conditional params. 2008-12-16 16:38:46 -05:00
James Taylor 274cc3f1c5 Two fixes for inputs inside conditionals when building and running workflows. 2008-12-16 16:26:03 -05:00
Nate Coraor 5994eb7055 merging heads 2008-12-16 14:32:13 -05:00
Nate Coraor cbaf4609d9 Update bx-python to r459 2008-12-16 14:31:00 -05:00
Greg Von Kuster 36e3f21d7e merging from central 2008-12-16 10:07:10 -05:00
Greg Von Kuster ae84867027 Server errors thrown when switching between Galaxy and reports in the same browser was due to the id_secret being different in the Galaxy config and the reports config, so add comments to ensure this is not repeated. 2008-12-16 10:04:30 -05:00
Nate Coraor 8243eee012 Fix functional tests broken by my last commit 2008-12-15 17:08:35 -05:00
Greg Von Kuster c730aad62c Some code cleanup in framework/__init__.py 2008-12-15 17:04:06 -05:00
Greg Von Kuster 769efedc5e merging from central 2008-12-15 17:03:31 -05:00
Nate Coraor b6d561fb42 Allow users to download a selection of datasets directly from the library in an archive format of their choosing. 2008-12-15 16:37:54 -05:00
Greg Von Kuster 4e48d41c8a Add a necessary closing </div> tag for the library browser, caused indendation problems in Safari, but now fixed. 2008-12-15 14:13:34 -05:00
Greg Von Kuster c90a09e782 Fix for the users reports. 2008-12-15 11:25:47 -05:00
Greg Von Kuster a80cbe30b8 merging from central 2008-12-15 11:25:11 -05:00
Greg Von Kuster dfd5e9827f Rename gbrowse_elegans to wormbase_test, add a config for the wormbase production server. 2008-12-15 10:37:39 -05:00
Greg Von Kuster d3b2a27cee merging from central 2008-12-15 10:37:16 -05:00
Greg Von Kuster 7ecfd7c61e Reset functional test port which somehow got committed when attempting to merge conflicts. 2008-12-15 09:06:11 -05:00