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Author SHA1 Message Date
Carl Eberhard 48fc8fddea Merge 2015-02-12 11:18:40 -05:00
Carl Eberhard 286bf397d3 UI, history multi-view: render and keep drag help text on current histry as an affordance for drag-to-copy 2015-02-12 11:18:21 -05:00
Aysam Guerler 66f7303ba8 ToolForm: Separate tool parameters from sections 2015-02-12 11:10:14 -05:00
Dannon Baker fd500d7493 Fix path insertion vs appending of <galaxy>/lib for unit tests. 2015-02-12 10:37:44 -05:00
Dannon Baker a165e1d9b6 Fix path insertion vs appending of <galaxy>/lib for galaxy/main.py. 2015-02-12 10:36:10 -05:00
Dannon Baker c733ce370b Fix path insertion vs appending of <galaxy>/lib for all scripts. 2015-02-12 10:34:51 -05:00
Carl Eberhard eea2a8a346 UI, history multi-view: simplify header UI, label current history, some clean up 2015-02-12 10:06:37 -05:00
Dannon Baker de1cd01954 Fix path manipulation during fetch_eggs. This getting an external version of pkg_resources (and not ours in lib/) is what is causing the weird egg fetching errors. Newer versions of pkg_resources create a mangled distribution string for some eggs with nonstandard version identifiers. 2015-02-12 08:28:37 -05:00
Dannon Baker 6a46ea7d50 Fix at least one error with zipfile downloads and file permissions not being set correctly. 2015-02-12 07:57:51 -05:00
Dannon Baker 2822b64d3e pep8 in eggs module while trying to fix eggnotfetchable bugs 2015-02-12 07:55:52 -05:00
Aysam Guerler bbc750881e Ui: Drilldown remove unnecessary index 2015-02-12 00:56:29 -05:00
Aysam Guerler 43878c2fff Ui: Drilldown fix state expansion 2015-02-11 22:41:03 -05:00
Aysam Guerler 8bc22ecd91 Ui: Drilldown simplify state expansion 2015-02-11 22:04:53 -05:00
Aysam Guerler 9cdf570585 Ui: Drilldown set initial expand states 2015-02-11 21:58:08 -05:00
Aysam Guerler 3ffcc2448c Charts: Fix error message 2015-02-11 20:56:10 -05:00
Aysam Guerler 7eec63204d Charts: Repack scripts 2015-02-11 20:26:46 -05:00
Daniel Blankenberg 19ffbf7a4f When resetting repository metadata in the toolshed, don't overwrite the already set relative_install_dir. 2015-02-11 17:36:05 -05:00
Daniel Blankenberg c05931024f Always add sample file info to metadata, not only during initial creation.. 2015-02-11 17:31:49 -05:00
Daniel Blankenberg d3759a475b Fix for resetting repository metadata in the toolshed via UI (pass resetting_all_metadata_on_repository=True flag). 2015-02-11 16:50:25 -05:00
Aysam Guerler 0af3cac85c ToolForm: Modify refresh cycle 2015-02-11 16:06:45 -05:00
Daniel Blankenberg 0ea41e7419 Comment out igv local external display application link by default, since it is confusing users (most do not have a local igv running). 2015-02-11 20:39:38 +00:00
Martin Cech 173fd47e32 rename the link from toolform to the Tool Shed 2015-02-11 14:31:13 -05:00
Carl Eberhard be5370a0a6 UI, history multi-view: pressing enter in the history copy dialog will copy the history and close the dialog 2015-02-11 13:52:40 -05:00
Carl Eberhard f0b38eefe2 UI, history multi-view: use Galaxy.options.root or galaxy_config.root for 'Done' button if available 2015-02-11 13:42:12 -05:00
Carl Eberhard 8e84cf68ab Merge 2015-02-11 13:16:20 -05:00
Carl Eberhard 8f498defed UI, paired collection creator: add metrics for init, creation, and filter-change 2015-02-11 13:15:53 -05:00
John Chilton d8179ae64f Fix incorrect constant pointed out by Nicola. 
https://bitbucket.org/galaxy/galaxy-central/pull-request/664/remove-test-data-only-used-by-remaining/diff#comment-5083073.
 2015-02-11 13:15:21 -05:00
Aysam Guerler 65b43ff18f ToolForm: Reduce number of refresh events 2015-02-11 13:12:06 -05:00
John Chilton 700e9f7c94 Merged in jmchilton/galaxy-central-fork-1 (pull request #664) 
Remove test-data only used by remaining tools.
 2015-02-11 13:00:05 -05:00
Carl Eberhard 45c8b441a4 UI, paired collection creator: in-file TODO's, cleanup, change modal/creator render order to allow auto focus on name input 2015-02-11 12:55:25 -05:00
Daniel Blankenberg 4086a68347 Fix for parsing Tool Data Table columns that are defined as individual xml elements. 2015-02-11 12:40:33 -05:00
Daniel Blankenberg 6ef811478e Fix for TabularToolDataTable.get_named_fields_list() when a data line has extra columns. 2015-02-11 12:37:59 -05:00
Daniel Blankenberg 808bfc7efe Fix for Data Tables persisting when .loc file doesn't exist. 2015-02-11 12:33:49 -05:00
Aysam Guerler 2dd560c869 ToolForm: Move debug output 2015-02-11 12:27:18 -05:00
Aysam Guerler 78f2ad4abe ToolForm: Update select validation, remove spaces 2015-02-11 12:20:06 -05:00
Aysam Guerler 9e3c36c50e ToolForm: Remove brackets 2015-02-11 11:19:29 -05:00
Aysam Guerler 04ccb2389c ToolForm: Move forward with drill down element, simplify validation 2015-02-11 11:03:22 -05:00
Aysam Guerler 783660ff59 ToolForm: Place requirements into pulldown menu, add toolshed link, remove spaces 2015-02-10 22:13:42 -05:00
Aysam Guerler cb9d1f6084 ToolForm: Modify refresh trigger 2015-02-10 19:59:03 -05:00
Carl Eberhard 60e2a0b3df UI, paired collection creator: refactor autopairing and add tests 2015-02-10 18:15:43 -05:00
Aysam Guerler 9ce6738959 Ui: Update options 2015-02-10 17:09:13 -05:00
Aysam Guerler 8b5397201b ToolForm: Remove unused variable 2015-02-10 16:36:35 -05:00
Aysam Guerler b8276046a0 ToolForm: Add select/unselect fields, update styles 2015-02-10 16:32:59 -05:00
Carl Eberhard 056aa25590 Fix to 109da69: remove debugging from index.mako 2015-02-10 15:12:46 -05:00
Dannon Baker 8accba13c7 Add reminder for why imports are done this way in s3objectstore for the next time I forget. 2015-02-10 15:06:12 -05:00
Dannon Baker fb8d280528 Merge. 2015-02-10 14:42:26 -05:00
Dannon Baker bdeded4f1f Correctly use log.exception where appropriate in s3objectstore 2015-02-10 14:42:02 -05:00
Dannon Baker a483d76f8c Correct old reference to the wrong get_filename in s3objectstore. 2015-02-10 14:38:58 -05:00
Dannon Baker 1880f94c26 Style standardization in s3objectstore, a couple fixes. 2015-02-10 14:38:01 -05:00
Dannon Baker 863704d850 Followup to PR https://bitbucket.org/galaxy/galaxy-central/pull-request/658/, only continue restarting in the case of a 1 return code from stop_daemon 2015-02-10 14:07:01 -05:00