Details
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Type:
Bug
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Status: Closed (View Workflow)
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Priority:
Minor
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Resolution: Fixed
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Labels:None
Description
Book mark a scene. Change color, then book mark again. Close program. Open again. Select bookmark 1 and open. Now select book mark 2. The track name changes to color2, but the tracks still appear in color 1. Now select book mark 1 again. Tack is now color 2, but track label is color 1.
This is actually relevant - bookmarking a scene several times with different 'highlighted' tracks is an important thing for creating talks, sharing data etc.
Do not used attached bookmarks, use your own made bookmarks...
Attachments
Issue Links
- relates to
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BUG-641 Bookmarks
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- Closed
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Activity
Fixed on trunk.
| Field | Original Value | New Value |
|---|---|---|
| Assignee | Hiral Vora [ hiralv ] | Alyssa Gulledge [ alyssa ] |
| Status | Open [ 1 ] | Resolved [ 5 ] |
| Resolution | Fixed [ 1 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Resolved [ 5 ] | Reopened [ 4 ] |
OK... using the bookmarks I gave you before (imported):
test1 - a scene containing .bam, .bed, .wig and ref sequence tracks in all default colors
color test - each track has a different FG color
bg color test - same fg colors as color test, but with a lilac background
devo test - the same as bg color test, but the name of every track was changed
test part 2 is a new scene using the same data in default colors/name.
If you load a bookmark from scratch (ie the first time the data gets loaded) it properly assigns color. the 'devo' bookmark will even cause the graph track to remember the user assigned name. This all works right.
BUT if you switch between bookmarks, it goes wrong... so,
1) open a fresh IGB, import the test bookmarks
2) open bookmark 'devo'
3) open bookmark 'test part 2'. Notice that the .wig and the .bed return to normal. .bam however has the bg and fg color from the last bookmark.
4) now open 'test1'. Notice that all track LABELS return to the proper starting color, but the .bam track fg remains red
5) Now open bookmark 'color test'. Notice that the track LABELS turn the proper color but the tracks themselves do not (although .bam remains red)
6) now open 'bg color test'. notice that the bg color change works right!
7) At this point if you reselect test 1, all BG reverts to black (properly) BUT if you select test part 2 the BG color of the bam track does NOT revert.
| Attachment | test bookmarks.html [ 10038 ] |
| Assignee | Alyssa Gulledge [ alyssa ] | Hiral Vora [ hiralv ] |
| Assignee | Hiral Vora [ hiralv ] |
| Assignee | Lance Frohman [ lfrohman ] |
| Assignee | Lance Frohman [ lfrohman ] |
Is this still an issue for you? I imported your bookmarks, but it keeps freezing when I open the devo bookmark and the window pops up for username and password. It looks as if its loading but I cant click on anything.
I tested this with my own bookmarks though and it does not seem to be an issue now.
Windows 12043
| Assignee | Alyssa Gulledge [ alyssa ] |
| Description |
Book mark a scene. Change color, then book mark again. Close program. Open again. Select bookmark 1 and open. Now select book mark 2. The track name changes to color2, but the tracks still appear in color 1. Now select book mark 1 again. Tack is now color 2, but track label is color 1. This *is* actually relevant - bookmarking a scene several times with different 'highlighted' tracks is an important thing for creating talks, sharing data etc. |
Book mark a scene. Change color, then book mark again. Close program. Open again. Select bookmark 1 and open. Now select book mark 2. The track name changes to color2, but the tracks still appear in color 1. Now select book mark 1 again. Tack is now color 2, but track label is color 1. This *is* actually relevant - bookmarking a scene several times with different 'highlighted' tracks is an important thing for creating talks, sharing data etc. Do not used attached bookmarks, use your own made bookmarks... |
| Status | Reopened [ 4 ] | Resolved [ 5 ] |
| Assignee | Alyssa Gulledge [ alyssa ] | |
| Resolution | Fixed [ 1 ] |
| Status | Resolved [ 5 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Closed [ 6 ] | Reopened [ 4 ] |
FAILED V.13814, Mac, Java 1.7.0_10
Using Homo sapiens Feb, 2009, a bookmark was created with 3 tracks consisting of 2 VCF files and 1 RefGene track.
- Foreground and Background colors where changed for each track
- A bookmark was made with these colors saved
- Within the saved bookmark, the all track colors were changed again, then a new bookmark was made
- Selecting and opening the first bookmark produced expected results, with the proper colors appearing for track labels, the track, and the track background
- Selecting and opening the second bookmark produces UNEXPECTED results, with the colors of the track labels changing to the correct colors, but the colors of the tracks remaining as the colors of the first bookmark. The backgrounds do change according to the proper bookmark though.
| Assignee | Hiral Vora [ hiralv ] |
Color out of sync is a known bug and cannot be fixed at present.
| Status | Reopened [ 4 ] | Resolved [ 5 ] |
| Assignee | Hiral Vora [ hiralv ] | |
| Resolution | Fixed [ 1 ] |
| Status | Resolved [ 5 ] | Closed [ 6 ] |
This does not appear to be a problem with the background color.