Dannon Baker
8a747d1e65
Merged in galaxyp/galaxy-central-parallelism-refactorings (pull request #136 )
...
select2 fixes for workflow running.
2013-03-27 11:53:18 -04:00
Jeremy Goecks
ade0bcad06
Trackster: more flexible parsing of location string.
2013-03-25 09:37:17 -04:00
Jeremy Goecks
e08e2f5cba
Simplify help text for eye icon.
2013-03-20 13:18:13 -04:00
Jeremy Goecks
e45a787716
Trackster fixes: (a) render bases/colors in Firefox; (b) make deletions black to avoid color conflicts with colored bases; (c) use group name for composite track. Modal fix: set maximum body height so that it does not overflow the bottom of the page. Pack scripts.
2013-03-20 10:55:24 -04:00
Aysam Guerler
3dd22cf745
Fixed: No confirm on delete permanently (footer button), saved histories
2013-03-15 14:32:30 -04:00
Carl Eberhard
2aefbcdcd3
history panel: remove display, edit, and delete buttons from hdas in the new state; pack scripts
2013-03-12 16:14:37 -04:00
Carl Eberhard
4c5f98a28c
history panel: have 'new' state HDAs display their body properly
2013-03-12 10:42:41 -04:00
John Chilton
5a1fbd832b
Abstract away logic for updating select boxes. For multiple select boxes set closeOnSelect to false, this vastly reduces the clicking required to select many items.
2013-03-07 13:42:11 -06:00
Carl Eberhard
ac34fddc56
history panel and api: if hda.peek is 'no peek' do not send peek through api and do not render peek in expanded hda
2013-03-06 10:02:24 -05:00
Jeremy Goecks
e84d447d07
Trackster: (a) handle corner case when feature starts at tile boundary and (b) remove poor tile index usage. Pack script.
2013-03-01 16:18:23 -05:00
Jeremy Goecks
5be04ef7b9
Trackster: standardize start and end of regions to fall between bases.
2013-02-28 22:54:11 -05:00
Jeremy Goecks
15ca057151
Pack scripts.
2013-02-28 16:55:33 -05:00
Jeremy Goecks
9c97ac4854
Trackster enhancements: (a) rename reference data manager to more appropriate name; (b) fetch reference data more readily so that variants can be drawn even when not zoomed way in; and (c) use base letters to denote variants only when there is sufficient room.
2013-02-28 16:54:26 -05:00
Jeremy Goecks
b7543d7120
Trackster: (a) color reference bases and (b) color variants when reference data is available.
2013-02-28 16:27:31 -05:00
Jeremy Goecks
a5f4b13c98
Trackster: add subsetting functionality to data manager and enable subsetting for line tracks.
2013-02-21 17:10:54 -05:00
Jeremy Goecks
101bf55dd0
Trackster: performance improvements for drawing reference track data.
2013-02-21 14:37:38 -05:00
Jeremy Goecks
1791c8f57c
Trackster: subset reference data when available.
2013-02-21 14:11:09 -05:00
Jeremy Goecks
6ebb660cba
Trackster: prevent data requests for very small regions by using a (configurable) minimum region size. This improves performance when zoomed in on small regions. Pack scripts.
2013-02-19 10:16:21 -05:00
Jeremy Goecks
dde00ed000
Small fixes for trackster resolution calculation.
2013-02-19 08:56:32 -05:00
Jeremy Goecks
283cb406f9
Move grid element initialization to main body to prevent it from happening too early. Pack scripts.
2013-02-17 14:59:02 -05:00
Jeremy Goecks
4f8e9afa7f
Use strict equality operators.
2013-02-15 12:44:08 -05:00
Jeremy Goecks
e3843d0279
Use 0-based coordinates for BBI data and display.
2013-02-14 18:56:27 -05:00
Jeremy Goecks
990297a3d5
More Trackster fixes to standardize on 0-based coordinate system.
2013-02-14 18:31:21 -05:00
Jeremy Goecks
ad07491b37
Standardize on BED format for genome data providers and fix off-by-one issues.
2013-02-14 18:15:34 -05:00
Jeremy Goecks
53352f18b0
Grid framework fixes, including extension of sanitize_text to work with lists of text.
2013-02-14 13:48:52 -05:00
Carl Eberhard
12dbbbf805
Fix to trackster/util.js exports; Fix to docstring in history_contents; Fix alert text in hda-model
2013-02-12 14:26:30 -05:00
Jeremy Goecks
a52ae86a3f
Pack scripts.
2013-02-12 12:01:37 -05:00
Jeremy Goecks
9413818c13
Use tabular chunked data diplay for shared/published datasets.
2013-02-11 15:56:50 -05:00
Jeremy Goecks
6ba5e76ccf
More refactoring for tabular data display.
2013-02-11 12:05:50 -05:00
Jeremy Goecks
e6235d12f3
Minor refactoring that simplifies creation of tabular chunked display.
2013-02-11 10:17:53 -05:00
Carl Eberhard
7e6d58585e
history panel: fix to hda update logging typo
2013-02-06 12:05:56 -05:00
Jeremy Goecks
e4ff2da11b
Refactor tabular chunked display into Backbone and use for displaying tabular data.
2013-02-04 12:37:32 -05:00
Carl Eberhard
9d6d64684b
history panel: ensure deleted or purged datasets are considered ready to the updater; pack scripts
2013-02-04 12:14:23 -05:00
James Taylor
260228e8b1
Add some missing files
2013-02-03 23:22:16 -05:00
James Taylor
56a81d0134
Support for using Sentry for error logging. If sentry_dsn is set in
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universe_wsgi.ini, then:
- A middleware will be installed that send thrown exceptions to sentry
- All logging messages of level WARN and above will be sent to sentry
- All pages extending base/base_panels will have javascript errors
captured and sent to sentry
2013-02-02 17:56:55 -05:00
Jeremy Goecks
0a82687368
Remove debugging statement.
2013-02-01 17:49:25 -05:00
James Taylor
6bcbe88102
Use the select2 library for large select boxes rather than our custom
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implementation based on jquery autocomplete.
2013-02-01 16:49:16 -05:00
Jeremy Goecks
517fb61e20
Fixes for 149f0fc and pack scripts.
2013-01-30 10:54:15 -05:00
Jeremy Goecks
122d274a6a
Add metadata support to JavaScript dataset objects.
2013-01-29 16:41:04 -05:00
Carl Eberhard
ba73ae7c33
history panel: log responseText of history-model update errors; pack scripts
2013-01-28 16:22:47 -05:00
Jeremy Goecks
409ba63a4f
Grid framework refactoring to increase speed and ease of debugging: (1) create and use Backbone object for grid; (2) move grid javascript to its own file; (3) remove webapp parameter; (4) augment search box style so that search button does not wrap. Pack scripts.
2013-01-28 14:02:25 -05:00
Joachim Jacob
111263923d
Changed wording from unpause to resume, in accordance with corresponding history menu item.
2013-01-28 16:46:12 +01:00
Carl Eberhard
612be51063
history panel: fix to edit url in failed_metadata hda smallwarningmessage
2013-01-25 15:05:38 -05:00
Carl Eberhard
b12eb16aba
api/history_contents, index: handle hda_dict building exceptions by appending an error-state hda_dict (instead of 'fail-on-first'); history panel: handle bootstrapped and ajax hda api exceptions more gracefully, show hda api exceptions as hdas in the error state.
2013-01-18 16:32:05 -05:00
Carl Eberhard
f3f4ef46ee
history panel: Show/enable display icon-button for non-ready-state hdas
2013-01-18 10:45:20 -05:00
Jeremy Goecks
e39389b34b
Default to first chromosome if viewport exists but is empty.
2013-01-10 15:26:21 -05:00
Daniel Blankenberg
979c1a6a16
Pack scripts.
2013-01-07 11:45:30 -05:00
Daniel Blankenberg
fce8cce834
Fix for workflow editor when a missing tool is connected to a valid tool. Javascript error would cause the 'Loading worflow editor...' modal window to spin indefinitely.
2013-01-07 11:45:26 -05:00
Carl Eberhard
fc4ca70d27
history panel: panel was not showing deleted datasets when a dataset was purged (even when set to 'include deleted datasets') - fix by using purge_async; history panel: fix history-options menu checkbox with new font awesome class format; pack scripts
2013-01-04 10:57:18 -05:00
Carl Eberhard
0eafc2e21a
history_contents, index & show: add force_history_refresh key/value; history panel: fix broken addHdas when used via the updater, add force_history_refresh to reload the history panel when an hda/tool requests it; pack scripts
2013-01-02 16:30:24 -05:00
Dannon Baker