Jeremy Goecks
b64c880315
Remove debugging statement.
2011-03-08 10:26:52 -05:00
Jeremy Goecks
6d4519f363
Trackster: enable full keyboard navigation via arrow keys using jquery.scrollTo plugin.
2011-03-08 10:04:39 -05:00
Jeremy Goecks
23a5d3588a
Trackster: remove form from nav controls so that enter key works properly and sets the chrom/low/high.
2011-03-07 22:00:50 -05:00
Jeremy Goecks
ab50ae5b55
Trackster: another pass on reads insertion display. Fixed bugs, add menu item to show/hide insertions, and improve display of insertions. Pack scripts.
2011-03-05 18:33:06 -05:00
Jeremy Goecks
259ec2d649
Trackster: add another parameter to draw() method that determines whether to clear old tiles immediately or after new tiles have been drawn. This parameter enables draw() to clear a track quickly (e.g. when scrolling fast) or slowly (e.g. when using filters). Also included is a long comment about why clearing tiles after often fails and ways to address this issue.
2011-03-04 15:22:17 -05:00
Jeremy Goecks
35a5196daa
Trackster: refactor filtering functionality out of draw() method and do use CSS classes for information transfer. Also remove unused menu code.
2011-03-04 14:29:19 -05:00
Kanwei Li
0472e3eb6e
trackster: Refactor to use one central tile_data method instead of having separate get_data methods for each type of track.
2011-03-03 21:06:33 -05:00
Jeremy Goecks
2864d89238
Trackster: refactor filters code to use functions and styles from tool parameters.
2011-03-03 17:40:35 -05:00
Kanwei Li
cb076fdd9a
trackster: Fix summary_tree and error messages
2011-03-03 16:32:04 -05:00
Jeremy Goecks
52acff3112
Trackster: refactor and enhance track popup menus so that menu items can be dynamically updated. Improve menu descriptions for showing/hiding filters and tools.
2011-03-03 15:38:48 -05:00
Jeremy Goecks
b3edc1b905
Trackster bug fixes for drawing feature tracks in squish and dense mode.
2011-03-03 11:47:10 -05:00
Kanwei Li
dc108dd26f
trackster: reorganize drawing so that it's callback based. Now it will only draw read tracks after reference sequence is downloaded, if applicable.
2011-03-02 18:03:51 -05:00
Jeremy Goecks
ebf81092c4
Trackster: make visual analytics code compatible with HDA/LDDA changes.
2011-03-02 17:15:08 -05:00
Kanwei Li
fac370ce4e
trackster: Difference view setting for ReadTracks: only see sequence on reads if they don't match reference. Align sequence with positional ticks.
2011-03-01 16:39:46 -05:00
Kanwei Li
2d0ade7288
Update jQuery to 1.5.1, and also jquery.form as old one was incompatible with 1.5
2011-02-24 17:23:16 -05:00
Kanwei Li
ab44dae254
Remove overflow from help text in tool forms, for IE
2011-02-22 18:10:52 -05:00
Jeremy Goecks
bc9955b6fd
Trackster: (a) refactoring back down to a single draw_tile method for FeatureTracks but each track now has a draw_element() method for drawing individual elements; (b) when mode is Auto, enable squish mode when possible to bridge from summary tree to pack.
2011-02-22 11:00:03 -05:00
Jeremy Goecks
e85d70ffa4
Trackster refactoring: (a) move ReadTrack-specific code out of FeatureTrack and into ReadTrack; (b) move VCFTrack-specific code of out FeatureTrack and into VcfTTrack. This makes it easier to modify drawing for each track type but creates some repeated code in draw_tile() for different classes that needs to be cleaned up.
2011-02-21 15:54:22 -05:00
Jeremy Goecks
7bd07d7121
Trackster: save and restore mode for feature and read tracks.
2011-02-21 14:00:39 -05:00
Jeremy Goecks
b7f921f38d
Trackster: enhancements to read track display: insertions and deletions now shown correctly, and some efficiency improvements made using overlap calculations. Added function to compute the type of overlap between two regions.
2011-02-21 11:49:24 -05:00
Kanwei Li
0143be5e83
Use jStorage ( http://www.jstorage.info/ ) instead of jStore. Tested to be working on IE7 and IE8, where the latter was failing. Fixes links not showing up in history pane to expand histories.
2011-02-18 15:06:34 -05:00
Jeremy Goecks
77795a02a1
Trackster: fix max chrom length.
2011-02-15 19:20:39 -05:00
Kanwei Li
c075b3d119
trackster: For feature/bam tracks, new option in dropdown to list chroms/contigs that have data for that dataset. Tweak popup menu system to use a $.data variable that is bound to the anchor link, allowing options to be modified after the first initialization.
2011-02-15 19:09:38 -05:00
Jeremy Goecks
bef7acd139
Trackster: remove bottom border from tiles to prevent poor spacing in summary tree view.
2011-02-15 15:15:54 -05:00
Jeremy Goecks
906d9e98bc
Trackster: better handling when data has a message -- (a) if there's data, show it; and (b) add border to all canvas elements so that they line up when messages are shown and error borders are drawn.
2011-02-14 19:40:40 -05:00
Jeremy Goecks
5e4755172a
Trackster: increase summary tree track height so that max label does not overlap data.
2011-02-14 15:53:39 -05:00
Kanwei Li
09e5692b27
trackster:
...
- Fix bug where tiles were not aligning correctly because of inconsistent w_scale
- Fix tracks with errors or no data not having right background
- Refactoring
2011-02-11 16:55:14 -05:00
Kanwei Li
07d79fcee3
trackster: Remove content-div margin and border-top
2011-02-10 17:43:39 -05:00
Dannon Baker
031b0fca6e
workflows: jquery1.5 fix, quotations.
2011-02-10 13:58:48 -05:00
Kanwei Li
dcc0d780bc
trackster: Recalc slots no matter what level it's on since it's fast enough
2011-02-09 13:24:35 -05:00
Kanwei Li
b5f72b0afe
Make left and right panels openable to 1000px, up from 400px
2011-02-08 18:07:27 -05:00
Kanwei Li
d56e7e4191
trackster:
...
- Fix packing overlap issue due to font calculation being different in dummy context vs drawing context
- Refactor incremental_slots for simplicity/readability
- Properly add padding to text label for "pack"-view feature tracks
2011-02-08 17:45:03 -05:00
Jeremy Goecks
bf8648675f
Fix bug in changeset 36c27bfbb7a8; remove debugging statement.
2011-02-08 16:48:41 -05:00
Jeremy Goecks
a41e40ce60
Trackster: standardization and better handling of track heights. This fixes overly large spacing for zoomed-out interval_index tracks and does away with the no_detail parameter, which is not sufficient for setting track height. Also fixed bug in
...
BAM display label spacing.
2011-02-08 15:21:19 -05:00
Dannon Baker
b40c7e5b40
workflows: Fixed jquery 1.5 errors related to workflow saving and flagging of outputs. Repack.
2011-02-08 13:36:12 -05:00
Kanwei Li
4ed00252db
trackster: fix farb color picker playing badly with tipsy
2011-02-07 18:11:44 -05:00
Kanwei Li
31a66567ec
trackster: move summary count text darker and aligned at the top for better visibility in most cases, and only draw if there is some padding so that numbers don't bunch up
2011-02-07 16:59:12 -05:00
Jeremy Goecks
ea5d68bb76
Partially addressing packing bugs that cause features to be drawn overlapping. Pack scripts.
2011-02-07 15:22:23 -05:00
James Taylor
2af69d58b4
merge
2011-02-07 11:38:34 -05:00
Jeremy Goecks
fa0d2bea2c
Trackster: refactor interval index drawing. Modified interval index squish mode to display blocks and treat intervals as half-open. Also use constants to standardize the drawing height of different modes across tracks.
2011-02-07 09:23:57 -05:00
James Taylor
7ad70716af
trackster: use new jquery defereds to ensure draw happens after predraw_init in line tracks, eliminates failure to draw before scrolling
2011-02-06 14:44:14 -05:00
James Taylor
17352f3de5
jquery updated to 1.5, fixed minor bugs in use of jStore and some dom manipulation in workflows (both problems in our code, not backward incompatibility). Please help test.
2011-02-06 14:42:11 -05:00
James Taylor
b2863ca4af
trackster: tiny tweaks
2011-02-06 11:29:04 -05:00
James Taylor
e80a525fe9
trackster: color picker shows on click, not hover, and below the input element
2011-02-06 10:27:53 -05:00
James Taylor
ca61aa3a54
trackster: packed scripts
2011-02-06 02:21:10 -05:00
James Taylor
1dbbf1818e
trackster: color picker for color track config params
2011-02-06 02:20:31 -05:00
James Taylor
c3af1a8990
trackster: save line track height properly
2011-02-06 00:41:03 -05:00
James Taylor
8e2b990331
trackster: refactor track configuration to be data/configuration driven -- easier to extend
2011-02-06 00:39:09 -05:00
James Taylor
d3ecba9e6f
trackster: Move some CSS rules into trackster.css, fix CSS problem with label tracks
2011-02-05 16:04:30 -05:00
James Taylor
7b7b8a4ebd
Automated merge with https://bitbucket.org/galaxy/galaxy-central
2011-02-05 15:38:11 -05:00
Jeremy Goecks