Nicola Soranzo
46641daaa7
Merge galaxy/galaxy-central default branch.
2014-04-11 12:00:39 +02:00
Jeremy Goecks
80b603902a
Merge next-stable branch to default.
2014-04-10 17:21:38 -04:00
Jeremy Goecks
28ddf4bcc2
Updates to Sweepster to get it working again.
2014-04-10 17:21:00 -04:00
Carl Eberhard
8f179efe71
Metrics: initial commit of client side logger
2014-04-10 16:28:16 -04:00
Martin Cech
4bea6249f3
forgotten files for previous commit
...
data libraries: API refactoring and improvements; backbone decoupling; role UI first implementation
2014-04-10 15:07:01 -04:00
Martin Cech
0dd3187401
data libraries: API refactoring and improvements; backbone decoupling; role UI first implementation
2014-04-10 15:05:33 -04:00
John Chilton
86ee4fdabf
Simplify enable_output_terminal and enable_output_terminal in workflow editor.
...
These functions were taking in a single element and then looping through it. I hope this is not some intententional jQuery pattern to change the value of 'this' I don't quite understand and is just a remnant of when some loop over inputs was on the inside of this function or some other such refactoring.
2014-04-10 13:31:48 -05:00
John Chilton
69ddb38557
Refactor interaction between workflows JS and editor JS for adding nodes.
...
Add abstraction into editor for use by galaxy.workflow.js to hide some editor details from workflow code and reduce duplication between add_node_for_tool and add_node_for_module.
2014-04-10 13:31:47 -05:00
John Chilton
9b0bbb0dab
Remove unused variable?
2014-04-10 13:31:46 -05:00
Nicola Soranzo
f73d5fba6c
Fix old wiki links.
2014-04-10 20:00:45 +02:00
Carl Eberhard
d7dda26c58
Remove debugging statements
2014-04-08 14:14:17 -04:00
Jeremy Goecks
9d64557de5
Trackster: update jQuery selector so that all tool inputs are updated on change rather only <input> elements. Pack script.
2014-04-08 12:07:50 -04:00
Jeremy Goecks
910fc94c94
Pack script.
2014-04-07 12:22:01 -04:00
Jeremy Goecks
5edebad3e6
Visualization client-side framework: use simpler/faster/boundary-condition insensitive calculation for extracting subsets of reference sequence data.
2014-04-07 12:21:43 -04:00
Jeremy Goecks
086e37c557
Trackster: only draw incomplete features when displaying features, not coverage data. Pack script.
2014-04-04 16:33:06 -04:00
Jeremy Goecks
18c2e3fc71
Trackster: fixes for creating and resizing composite line tracks.
2014-04-03 14:33:48 -04:00
Martin Cech
1758f3d63a
libraries: removed unused and deprecated function
2014-04-02 17:21:06 -04:00
Martin Cech
5f928cd92d
libraries: more refactoring fun; full UI for permissions handling; repainting from cache
...
should be ready for stable
2014-04-02 17:18:51 -04:00
Martin Cech
8d2a8f9b7b
libraries: more refactoring; basic UI based on role handling; attaching to global Galaxy object; persistent lib preferences
2014-04-02 11:07:04 -04:00
Jeremy Goecks
579ebf5157
Circster fixes: (a) make compatible with new config object; (b) fix formatting issue with negative values; and (c) clean up debugging statements. Pack scripts.
2014-04-02 10:15:54 -04:00
Jeremy Goecks
fee4cb7333
Trackster: CompositeTrack fixes for recent refactoring. Pack script.
2014-04-02 09:12:07 -04:00
Jeremy Goecks
573456d475
Trackster: show drawn reads across all tiles by pooling incompletely drawn reads and drawing them at the end.
2014-04-01 16:21:32 -04:00
Jeremy Goecks
e2f56b50f2
Trackster: drawing performance improvement. Packed scripts.
2014-04-01 15:09:30 -04:00
Jeremy Goecks
75d9496e10
Genome data providers: (a) organize imports and (b) implement random and nth read iterators to downsample deep coverage regions. Use nth read iterator by default because it is the fastest.
2014-04-01 10:30:12 -04:00
Martin Cech
a1e9cf6f07
data libraries, don't allow showing deleted libraries to non-admins; provide information what actions user is allowed to do on library;
2014-03-31 15:36:49 -04:00
Martin Cech
14760aba92
added is_admin to the javascript user object for UI rendering purposes;
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modified is_admin_user in masthead config to be consistent with standard is_admin check
2014-03-31 12:55:06 -04:00
Carl Eberhard
b1b00a9562
Fix base-mvc SessionStorageModel to require an id; Show alert on disabled sessionStorage
2014-03-31 12:08:21 -04:00
Carl Eberhard
2bb923e892
Fix to add spacing in hda-edit deleted/hidden info boxes between added sentences
2014-03-31 11:21:14 -04:00
Martin Cech
37650b8275
libraries storage prefs: name default prefs for libraries
2014-03-28 14:33:27 -04:00
Martin Cech
4931d4757c
libraries: some serious refactoring, caching of subviews; base-mvc initialAttrs default setting (empty object)
2014-03-28 14:17:57 -04:00
Carl Eberhard
91338a4ce2
Fix: use preventDefault when trying to add display or visualizations to galaxy.frame
2014-03-27 13:19:11 -04:00
Carl Eberhard
212e7d1f5d
Fix to 7155334: add user model to AMD chain for history panel
2014-03-27 12:57:54 -04:00
Aysam Guerler
152fa0db00
Trackster: Fix trackster button in tabular data viewer
2014-03-26 23:00:42 -04:00
Jeremy Goecks
e329872433
Pack script.
2014-03-26 22:15:12 -04:00
Jeremy Goecks
597b88a195
Trackster: (a) default read track block colors to gray in order to show variants; (b) do not set default height of variant track.
2014-03-26 22:14:10 -04:00
Jeremy Goecks
ebaa1c39d3
Visualization JS: fix incorrect method call. Pack script.
2014-03-26 17:53:07 -04:00
Jeremy Goecks
f0e4046998
Pack scripts.
2014-03-26 17:39:58 -04:00
Jeremy Goecks
cba7a6638f
Trackster: fix offset bug that was rendering bases incorrectly.
2014-03-26 17:37:03 -04:00
Jeremy Goecks
27e607a5e2
Fix initialization of boolean values in client-side config object.
2014-03-26 15:39:14 -04:00
Jeremy Goecks
ecef013a11
Trackster: set maximum label length.
2014-03-26 15:12:39 -04:00
Jeremy Goecks
6b6ec0fcfb
Trackster: remove reference to left_offset in painters because it is not needed.
2014-03-26 14:46:29 -04:00
Jeremy Goecks
0d7b0ce91d
Trackster: consolidate read painters.
2014-03-26 13:42:54 -04:00
Carl Eberhard
a53e75ee09
merge
2014-03-25 17:00:03 -04:00
Jeremy Goecks
62f096460f
Trackster: (a) fix bug when trying to subset from supersets with messages; (b) display vertical placeholder until bugs are resolved.
2014-03-25 15:41:40 -04:00
Carl Eberhard
6fcd78d3a9
History API: show: add importable, username_and_slug to returned attributes, update: 1) allow setting importable and published, 2) published automatically makes a history importable, 3) in both cases slug is automatically set set_as_current: now correctly uses the HTTP method PUT (not POST), HDA API: all: histories that are importable and/or published now allow GET'ing the contents properly, create: you can now copy HDAs into your histories if the HDA and it's history are accessible
2014-03-25 15:30:51 -04:00
Aysam Guerler
289ba1f25d
Ui/Upload: Close modal on escape
2014-03-25 14:01:26 -04:00
Martin Cech
36b130ed18
libraries: refactor into separate files for model/views/main+router, showing infoicon for public libraries
2014-03-24 15:12:48 -04:00
Martin Cech
1004d5e125
libraries - exposed to anonymous users, allowed editing, deleting, undeleting, improved 'include deleted' filter, refactoring toolbar to have its own view
2014-03-24 11:16:36 -04:00
Aysam Guerler
a5fa89551f
UI: Modularize scratch book and make it reusable as regular ui element, refactor charts
2014-03-24 04:50:52 -04:00
Aysam Guerler
292444eedf
Charts/Ui: Improvements and fixes
2014-03-21 00:05:21 -04:00
Nicola Soranzo