John Chilton
8a6ed0ae8b
Introduce new generation of API decorator...
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Add improved error handling. Introduce error code.
Use new decorator with tested methods in histories API.
2014-01-10 15:10:52 -06:00
John Chilton
a2931e9f55
Pull extract_payload_from_request out of expose_api.
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Needs to be used in new version of API decorator and resulted in too much nesting in there the way it was.
2014-01-10 15:10:52 -06:00
John Chilton
1bd761812d
PEP-8 fixes for pages API.
2014-01-10 15:08:30 -06:00
Carl Eberhard
83ddc3bac6
Library_contents API: Fix permissions and dataset ref on LD delete
2014-01-10 16:03:04 -05:00
Greg Von Kuster
9a39348a1e
Fix tool shed functional test I just broke.
2014-01-10 15:05:57 -05:00
Dave Bouvier
60094ca499
Use class instead of substrings to identify integrated tool panel tools, sections, workflows, and section labels when saving and updating the panel.
2014-01-10 15:02:20 -05:00
Greg Von Kuster
d6ce2f475f
Include the changeset revision date whenever displaying the changeset revision for a repository in the tool shed per request by Ross Lazarus.
2014-01-10 14:30:18 -05:00
Dannon Baker
d85edddba1
Temporarily add simplejson back until webhelpers is updated
2014-01-10 14:22:03 -05:00
Carl Eberhard
ef3678285d
Merged in takadonet/galaxy-central-takadonet (pull request #253 )
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Add API call to allow for deletion/purge of dataset in a data library
2014-01-10 13:59:58 -05:00
Aysam Guerler
9e5d13c430
Fix refresh events for select fields in toolshed grid
2014-01-10 13:07:37 -05:00
Carl Eberhard
03cfab563b
History & HDA API: fix unicode support for tags in update
2014-01-10 13:02:26 -05:00
Carl Eberhard
eaf33b5d40
History & HDA API: fix unicode support in update
2014-01-10 12:55:43 -05:00
Dave Bouvier
cabe4ee445
Merge stable.
2014-01-10 09:52:10 -05:00
John Chilton
e62b2ccb56
Implement framework for testing API...
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... if you can call 1 new class a framework. Includes a few test cases to exercise/drive it. These examples include a histories API test (a typical API test) and a general test of the API framework itself (mostly just the run_as functionality).
This includes changes to interactor.py to make it more useful outside the context of tool/workflow testing as well as a tweak to test Galaxy that gets started to allow testing of the run_as feature.
2014-01-10 08:45:36 -06:00
John Chilton
2ac58018d5
Eliminate interactor dependency on deprecated global variable.
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Lessens the need to import things in a specific order - as long as database context is run before interactor methods everything should be fine now. TODO: Eliminate rest of dependencies on this variable.
2014-01-10 08:45:36 -06:00
John Chilton
22963027d9
Flush out API interactor...
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... this will enable functional testing of API.
2014-01-10 08:45:36 -06:00
John Chilton
02aeedeef7
Rework key injection logic in test framework.
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Pull logic for how master and user API keys are determinined for testing out of functional_tests.py for reuse elsewhere.
This refactoring will help the creation of an API test framework.
2014-01-10 08:45:36 -06:00
Carl Eberhard
32ddbee25e
Remove history panel prefs from session storage on logout; possible fix for duplicating tags_used behavior
2014-01-10 09:32:39 -05:00
Dannon Baker
c1558e8205
One more simplejson/json fix that slipped through the merge.
2014-01-10 07:42:58 -05:00
Dannon Baker
a40457ab09
Merge.
2014-01-10 07:40:02 -05:00
Dannon Baker
559ecb4ec8
Remove dependency on simplejson; convert everything over to using the json module in the python standard library.
2014-01-10 07:29:05 -05:00
Carl Eberhard
8ee0f1c100
Merge
2014-01-09 16:01:23 -05:00
Carl Eberhard
487a51f70c
Functional twill tests (history): remove check box assertion on history/list (as it's rendered in js now), fix history json scanning errors
2014-01-09 16:00:07 -05:00
Greg Von Kuster
3014265a07
Tool Shed API fixes and code cleanup.
2014-01-09 15:59:18 -05:00
Carl Eberhard
dff9cfa5c8
Remove extra includes in index.mako; Functional browser tests: create 'is loaded' fn for home page to simplify, improve loading in user module, misc. fixes
2014-01-09 14:34:25 -05:00
Aysam Guerler
b9de337dd3
Merge
2014-01-09 14:06:19 -05:00
Nate Coraor
3091ce1584
Log native spec on drmaa job submission.
2014-01-09 13:27:47 -05:00
Nate Coraor
3112bdde27
Merge 26da838b778c from stable.
2014-01-09 13:09:52 -05:00
Dave Bouvier
858621943e
Merged in 11734:e059c6607f34 from stable.
2014-01-09 12:58:55 -05:00
Nate Coraor
93cdf33174
Merged in natefoo/galaxy-central (pull request #290 )
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Configurable terminal job state, Slurm enhancements
2014-01-09 12:01:19 -05:00
Daniel Blankenberg
04cb164c1f
Special case genomespace file browser import tool's handling of GenomeSpace format identifier ' http://www.genomespace.org/datamanager/dataformat/unknown ' to cause datatype auto-dection via sniff with a fallback to using filename extention.
2014-01-09 10:54:58 -05:00
Nate Coraor
5a8c6457b9
Fix username argument to PostgreSQL connection in pgcleanup.py
2014-01-09 10:46:01 -05:00
Dave Bouvier
6b4a4cbba2
Use separate methods to deactivate and uninstall repositories.
2014-01-09 08:49:22 -05:00
Greg Von Kuster
844959709a
Handle invalid information from the tool shed API in the tool shed's install and test framework.
2014-01-08 22:29:33 -05:00
Greg Von Kuster
7d261866bd
Eliminate unnecessary RepositoryMetadata.to_dict() method in the tool shed.
2014-01-08 21:25:19 -05:00
Greg Von Kuster
cf154ccd7f
Handle issues with invalid dicts received when from the tool shed api.
2014-01-08 21:15:31 -05:00
Carl Eberhard
32f653b092
Functional browser tests: update history options tests
2014-01-08 17:47:26 -05:00
Greg Von Kuster
6cc918bbb5
Filter out deprecated repositories when resetting metadata on repositories in the tool shed - resetting metadata on deprecated repositories is essential only for ensuring reproducibility.
2014-01-08 16:26:51 -05:00
Carl Eberhard
7b9c4b8ffa
Functional browser tests: update hda state tests
2014-01-08 16:20:28 -05:00
Greg Von Kuster
55476314cf
Fix the single broken tool shed functional test.
2014-01-08 15:48:54 -05:00
Carl Eberhard
5a535afddd
Functional browser tests: update history panel tests
2014-01-08 15:41:32 -05:00
Greg Von Kuster
d3640c6bcf
Fix for pruning content from the tool shed's repository dependencies container.
2014-01-08 15:27:25 -05:00
Carl Eberhard
ba28791824
Functional browser tests: update anon history tests
2014-01-08 15:06:57 -05:00
Dave Bouvier
871c301e35
Allow specifying the functional tests' install_database_connection with an environment variable.
2014-01-08 14:50:19 -05:00
Dave Bouvier
9402faf4fc
Remove files from test-data that are not referenced in any tool test definition or functional test script.
2014-01-08 14:15:53 -05:00
Carl Eberhard
08ee0a479e
Functional browser tests: update/fix upload tests
2014-01-08 14:40:41 -05:00
Martin Cech
f92f01a264
js data libraries refactor, tweaks, logging removal
2014-01-08 13:54:38 -05:00
Carl Eberhard
325889177f
Functional browser tests: update/fix login tests
2014-01-08 13:34:43 -05:00
Dave Bouvier
1351f2a2b7
When a push is received in the hg controller, update the repository on disk after the push is complete.
2014-01-08 12:27:14 -05:00
Dave Bouvier
d780c1e99f
When a push is received in the hg controller, update the repository on disk after the push is complete.
2014-01-08 12:27:14 -05:00
John Chilton