 Nate Coraor
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949ffbfe20
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Add $__user_name__ to job template.
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2012-09-18 12:13:02 -04:00 |
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Jeremy Goecks
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93f6810ed5
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Viz framework: (a) add generic method to datatypes to get available visualizations and (b) attach available visualizations to dataset visualization icon.
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2012-09-18 11:40:57 -04:00 |
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Dannon Baker
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91ddfaff28
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Grammar. it's -> its in admin panel (and tests)
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2012-09-18 09:34:51 -04:00 |
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Greg Von Kuster
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ca4034cd32
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Apply fix from Jim Johnson for rendering tool dependencies defined in a tool shed repository.
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2012-09-18 09:03:39 -04:00 |
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Jeremy Goecks
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c66679cb26
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Fix bugs when converting BED to FLI and JS module references.
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2012-09-17 17:36:40 -04:00 |
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Carl Eberhard
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5d9348f1f2
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scatterplot.mako: some cleanup
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2012-09-17 17:19:53 -04:00 |
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Carl Eberhard
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68be41d2a9
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initial, un-wired prototype for scatterplot visualization
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2012-09-17 17:12:42 -04:00 |
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James Taylor
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a4216b5a74
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pack
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2012-09-17 16:24:27 -04:00 |
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James Taylor
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d8dac5bfcc
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trackster: moving more stuff out of mako into javascript
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2012-09-17 16:24:13 -04:00 |
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James Taylor
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bb08862dc6
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pack scripts
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2012-09-17 16:15:09 -04:00 |
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James Taylor
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8fbf7a3b0a
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trackster: misc fixes and reorganization
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2012-09-17 16:14:52 -04:00 |
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James Taylor
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893a610e8d
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trackster: fix adding bookmarks
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2012-09-17 15:41:35 -04:00 |
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James Taylor
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ae1a8a894c
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trackster: fix groups
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2012-09-17 15:38:46 -04:00 |
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James Taylor
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3fa6a8ab4e
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trackster fixes
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2012-09-17 15:36:11 -04:00 |
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James Taylor
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2297b49262
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trackster: adding packed scripts
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2012-09-17 15:23:45 -04:00 |
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Nate Coraor
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3bb0588147
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I missed some missing indexes...
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2012-09-17 14:23:00 -04:00 |
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Nate Coraor
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c51a9fb9fb
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Index galaxy_user.email and add a bunch of indexes for columns added to existing tables that were supposed to be indexed.
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2012-09-17 13:54:28 -04:00 |
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Dannon Baker
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987f9ad5fd
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Set header 'X-Content-Type-Options: nosniff' for dataset display. This will prevent IE8 from trying to render as html datasets served as text/plain.
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2012-09-17 13:19:32 -04:00 |
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Nate Coraor
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459d3a2c1d
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More pgcleanup.py fixes and addition of cleanup event tables for library items.
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2012-09-17 12:51:17 -04:00 |
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Nate Coraor
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2371873ccb
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Fix a typo in library permissions check.
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2012-09-17 12:47:13 -04:00 |
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Jeremy Goecks
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dd40fd7c05
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Data providers framework enhancements: (a) add registry object; (b) move all provider lookup code into registry; and (c) integrate ColumnDataProvider into raw_data requests.
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2012-09-17 12:29:48 -04:00 |
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Dannon Baker
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ba6980469c
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Prevent galaxy session cookie from being accessed via script. We don't use it via js anywhere, only other cookies specifically set for dynatree/genetrack.
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2012-09-17 12:27:03 -04:00 |
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James Taylor
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e6ce7b2895
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trackster: merge
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2012-09-17 12:06:02 -04:00 |
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James Taylor
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207ec0bf6f
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trackster: starting to split tackster up and load using require.js
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2012-09-17 11:49:31 -04:00 |
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Jeremy Goecks
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76fcd6c852
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Trackster and sweepster fixes for vis framework refactoring.
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2012-09-16 10:57:30 -04:00 |
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Jeremy Goecks
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ba70f84b8e
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Bug fixes for changeset 6243b992762c that enable tools to be run in Trackster. Also add URL to all datasets and pack scripts.
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2012-09-15 17:06:36 -04:00 |
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Jeremy Goecks
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dd668184dc
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Viz framework refactoring: remove tracks controller, moving code that handles data requests to the API and code that manages track browsers to visualization controller.
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2012-09-15 16:08:41 -04:00 |
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Jeremy Goecks
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5902d7da23
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Viz framework refactoring: move visualization view methods into base class and move chromosome/reference data methods to API.
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2012-09-14 17:57:07 -04:00 |
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Jeremy Goecks
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f4a430961c
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Fixes for controller mixin hierarchy. Move track config response from tracks controller to API datasets controller.
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2012-09-14 17:03:11 -04:00 |
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Daniel Blankenberg
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8d4997c1bb
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Fix for fastq filter tests of paired_end boolean.
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2012-09-14 15:50:38 -04:00 |
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Daniel Blankenberg
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cb6fc57be9
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Fix for unit tests in galaxy.tools.deps
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2012-09-14 14:50:27 -04:00 |
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Jeremy Goecks
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0fc996b3b0
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Summary tree documentation update.
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2012-09-14 14:42:11 -04:00 |
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Jeremy Goecks
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8dbb1b66ff
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Visualization framework: (a) put summary tree back in tracks module because pickling requires it not move modules and (b) move grids from tracks controller to visualization controller.
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2012-09-14 14:40:53 -04:00 |
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Jeremy Goecks
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be5c75e648
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Begin process of migrating Phyloviz data provider to data provider framework.
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2012-09-14 12:35:20 -04:00 |
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Jeremy Goecks
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d86741087b
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Rename tracks package to genome to reflect that code is used for all genome browsers, not just trackster.
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2012-09-14 12:23:03 -04:00 |
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Jeremy Goecks
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06723f2a25
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Codify data providers framework by adding and using a base provider.
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2012-09-14 12:14:15 -04:00 |
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Jeremy Goecks
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977bf31b59
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Add column data provider.
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2012-09-14 11:11:04 -04:00 |
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Dannon Baker
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637439516b
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Update cloudlaunch text to explicitly state that instances cost money.
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2012-09-14 09:52:05 -04:00 |
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Carl Eberhard
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82e776a27f
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history.js: refactored body renderers
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2012-09-13 19:53:12 -04:00 |
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Greg Von Kuster
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b85700936e
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Add fix from Bjorn Gruning for telling the user which file is the offender if an uploaded tarball gets rejected in the tool shed.
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2012-09-13 16:56:44 -04:00 |
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Greg Von Kuster
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f5b1fa4a6b
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Copy required sample files before attempting to load a tool included in a tool shed repository that is being installed into a local Galaxy instance.
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2012-09-13 16:41:03 -04:00 |
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Jeremy Goecks
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26439c39b0
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Move require.js to libs directory.
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2012-09-13 16:23:08 -04:00 |
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Jeremy Goecks
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328d1c3c54
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Fix bug in tool_form JS reorganization and fix labels for two Cuffdiff options.
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2012-09-13 16:04:03 -04:00 |
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Greg Von Kuster
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a536821857
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import re into ~/tools.__init__ since some recent methods use it.
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2012-09-13 15:57:48 -04:00 |
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Jeremy Goecks
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6b3e754dca
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Add mako template for rendering common trackster dependencies. This fixes shared/embedded visualizations, which were broken in recent commits.
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2012-09-13 15:51:50 -04:00 |
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Daniel Blankenberg
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c9f22baad4
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Fix for fastq filter tool single-ended reads.
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2012-09-13 15:41:18 -04:00 |
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Greg Von Kuster
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3ef765e1e6
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Another fix for handling Galaxy's ToolDataTableManager correctly in the tool shed.
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2012-09-13 15:31:56 -04:00 |
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Richard Burhans
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ef312db017
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added missing comma
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2012-09-13 14:47:21 -04:00 |
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Dannon Baker
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8bccccee86
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Merge
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2012-09-13 14:19:49 -04:00 |
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Carl Eberhard
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3ceb124bfb
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fixes to iconButton template; have IconButtonView use that template
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2012-09-13 14:08:09 -04:00 |
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