James Taylor
a633e8cd25
Fix for scroll panel when dropping while still overlapping the edge.
2008-07-17 20:16:13 -04:00
James Taylor
65bf65223f
Handle target = "_parent" in popup menu so that workflow editor doesn't load
...
in the middle frame.
2008-07-17 19:45:17 -04:00
James Taylor
c8d610fa63
Remove javascript log messages
2008-07-14 21:39:28 -04:00
James Taylor
c3a76ab7d5
Fix popup menu positioning
2008-07-14 21:39:08 -04:00
James Taylor
ab6c577e85
Javascript to support popup menus.
2008-07-14 19:47:32 -04:00
James Taylor
9c1474f810
Styles for buttons and popup menus.
2008-07-14 19:47:08 -04:00
James Taylor
538dacd45d
Icon for "add" buttons.
2008-07-14 19:39:19 -04:00
James Taylor
24fed10a05
Add appropriate padding for table headers.
2008-07-14 01:53:10 +00:00
James Taylor
e0eeef9e43
jquery-ui 1.5.2 (various upstream bug fixes).
2008-07-10 19:29:25 +00:00
Daniel Blankenberg
1e1a3e81bf
Update to latest version (June 30, 2008) of GMAJ.
2008-07-09 19:07:03 +00:00
James Taylor
69c4444de2
Workflow: create a new python module for 'WorkflowModules'. Tools are now another type of module, which removes a lot of special cases in the controller. Fixed some problems with validation and parameter groups.
2008-06-27 00:22:02 +00:00
James Taylor
3b39fb87f3
Upgrade jquery to 1.2.6 and jquery-ui to 1.5, drag and drop should be a bit
...
faster. Improvements to scrolling panel in workflow editor. Removed unused
and obsolete jquery plugins.
2008-06-21 03:04:28 +00:00
Anton Nekrutenko
ae1ef0bc59
Unseq genome for June
2008-06-04 01:13:33 +00:00
Daniel Blankenberg
86f0862aa4
Move ucsc and gbrowse data from static to tool-data/shared.
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Cron scripts on test and main will need to be updated when the server is.
GOPS complement tool and annotation profiler will now correctly use chromosome lengths files if available.
2008-06-03 18:53:26 +00:00
Daniel Blankenberg
a52c890c4a
Enhance the displaying of Drill Down menu items.
2008-05-22 20:21:23 +00:00
Daniel Blankenberg
310911f861
Update GMAJ to the latest beta.
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GMAJ can now export MAF blocks back into the user's history.
The Interface for defining annotations has been updated.
2008-05-16 18:39:41 +00:00
Greg Von Kuster
8f944ef045
Changed URL for communicating with elegans server.
2008-05-16 12:15:04 +00:00
Greg Von Kuster
3f9afc5281
Fixes for GBrowse communication.
2008-05-15 13:38:31 +00:00
Greg Von Kuster
c32f87624f
Added code for integration with C. Elegans / GBrowse test server.
2008-05-12 18:55:48 +00:00
James Taylor
8cfa45310e
"Input dataset" module now works for running. Many bug fixes to workflows
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and tools. Moved some methods related to params out of the Tool class, sets
of inputs can also be used in other ways (e.g. for modules). More abstraction
needed here.
2008-05-09 16:18:38 +00:00
James Taylor
24a3ce01c6
Workflows can now have steps of other kinds (not just tools). The first one
...
is "InputDataset" which allows a workflow to have an input dataset which many
different tools can use (without needing to specify it repeatedly. Still need
to extract out a common interface (tools will become another type of "module")
which will clean this up a lot.
2008-05-05 02:08:32 +00:00
James Taylor
95ca08bb99
Workflow: Repeat/Conditional now work in workflows, adding/removing/refreshing
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properly update the 'terminals' for the nodes in the editor. Many other fixes
to saving and loading of workflows (error tracking should now be working
properly).
2008-05-04 20:10:57 +00:00
James Taylor
248797ce5f
Workflow editor now has a drag-to-scroll canvas and auto scrolling for
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contained elements.
2008-05-02 19:03:08 +00:00
James Taylor
3cbff7e4f7
Workflow editor changes. Deleting nodes works again, and you can now delete
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connections! (hover over an input terminal). Many UI improvements (dialogs,
error reporting).
2008-05-01 22:36:08 +00:00
James Taylor
9c3ee604c1
You can now close workflows!
2008-05-01 15:41:35 +00:00
James Taylor
37e53d4788
Fix z-index of nodes in workflow editor.
2008-05-01 15:32:39 +00:00
James Taylor
f4da57df63
Upgraded to jquery-ui ~1.5b2. Workflow now uses *no* iframes, closer to
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working on IE6.
2008-05-01 15:10:38 +00:00
James Taylor
94ae5b018c
We're no longer using ie_pngfix anywhere.
2008-05-01 14:42:14 +00:00
Anton Nekrutenko
4e28cbf1b0
Unseq genome for may
2008-05-01 01:06:42 +00:00
Anton Nekrutenko
63fceb246d
Typo in welcome page
2008-04-29 19:48:57 +00:00
Anton Nekrutenko
406362b8bf
More changes. Also should fix tests
2008-04-29 15:17:36 +00:00
James Taylor
70dce8172e
Layout fixes for IE, Cool button style (for History options link, other
...
future things).
2008-04-29 13:04:17 +00:00
James Taylor
e34c822a5f
Common template for the panel based layouts, used by both the main site and
...
the workflow editor. Some improvements from workflow pushed back to main
interface. IE specific CSS and javascript tweaks removed. No longer relying
on 'quirks mode' to make things work (instead, relying on IE7.js to make IE
behave like a standards compliant browser).
2008-04-28 16:42:08 +00:00
James Taylor
cbffed2950
Blank images needed by IE7.js for layout fixes.
2008-04-28 16:38:12 +00:00
James Taylor
94f96b47c4
Move 'confirm' javascript up to base template (other scripts to be run on
...
every page can be added to galaxy.base.js). Cleaned up history templates
accordingly. Also, added scripts from IE7.js which fix many layout bugs in
older versions of IE.
2008-04-28 16:35:00 +00:00
James Taylor
29de0d5acf
Better style for <hr> on IE
2008-04-28 16:20:29 +00:00
Wen-Yu Chung
780e2728c5
add figures for poisson2test tool.
2008-04-09 17:30:40 +00:00
Anton Nekrutenko
d5221120ab
Unseq. genome april
2008-04-01 00:42:09 +00:00
Wen-Yu Chung
88cf97aa72
add images for short read tools.
2008-03-31 19:31:05 +00:00
Wen-Yu Chung
598462643a
update ucsc builds.txt. now blat tool should pass functional test.
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also update boxplot config file.
2008-03-28 16:07:00 +00:00
Greg Von Kuster
af3b0669aa
Eliminated all Python2.4 references, added necessary assert statements to ensure minimum version of Python 2.4.
2008-03-28 15:24:50 +00:00
Daniel Blankenberg
254077c4e3
Add scripts required to fetch and process data for the Microbial Genome Datasource Tool.
2008-03-27 15:36:13 +00:00
Anton Nekrutenko
304a47e068
Test fixes and first attampt to clean up short read tools
2008-03-21 20:27:24 +00:00
James Taylor
9714e66b00
Upgrading jQuery from 1.2.1 to 1.2.3, this seems to fix the refresh problems
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in some versions of Safari.
2008-03-17 21:04:33 +00:00
Anton Nekrutenko
aa91247bc7
Change to welcome.html to reflect Huck support
2008-03-13 15:28:11 +00:00
Anton Nekrutenko
ce2dc76ef4
All taxonomy analysis tools are now in place
2008-03-13 14:45:10 +00:00
Anton Nekrutenko
85cebb59b6
Bar chart tool for use with taxonomy tools. Requires gnuplot and gnuplot.py. Still needs interface testing
2008-03-10 21:57:32 +00:00
Anton Nekrutenko
f5b8b81a3d
Unseq genome for March
2008-03-05 01:52:13 +00:00
Anton Nekrutenko
d25b346130
Changes to taxonomy fetches and two new datatypes: taxonomy and newick
2008-03-04 20:30:26 +00:00
Anton Nekrutenko
4a09e1508e
Unseq genome Feb
2008-02-02 19:26:38 +00:00
James Taylor