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
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Environment:
URL: https://genoviz.svn.sourceforge.net/svnroot/genoviz/branches/igb_6_5
Repository Root: https://genoviz.svn.sourceforge.net/svnroot/genoviz
Repository UUID: 02abc639-694f-0410-96dc-a5594cd59667
Revision: 8134
Node Kind: directory
Schedule: normal
Last Changed Author: hiralv
Last Changed Rev: 8134
Last Changed Date: 2011-05-12 16:40:41 -0400 (Thu, 12 May 2011)URL: https://genoviz.svn.sourceforge.net/svnroot/genoviz/branches/igb_6_5 Repository Root: https://genoviz.svn.sourceforge.net/svnroot/genoviz Repository UUID: 02abc639-694f-0410-96dc-a5594cd59667 Revision: 8134 Node Kind: directory Schedule: normal Last Changed Author: hiralv Last Changed Rev: 8134 Last Changed Date: 2011-05-12 16:40:41 -0400 (Thu, 12 May 2011)
Description
The display name is incorrectly displayed. Everything before the last "." character should appear as part of the display name.
To repeat:
(0) Reset prefs to default
(1) Run IGB and choose genome version A_thaliana_Jun_2009
(2) Add these two data sets:
http://transvar.org/illumina/tophat_3_processed/CoolHT2.sm.bam
http://transvar.org/illumina/tophat_3_processed/CoolHT2.mm.bam
(Note: difference in file name is "sm" or "mm" - stands for multi versus single mapping reads)
(3) Observe two tracks appear, but the names are both CoolHT2. They should be CoolHT2.sm and CoolHT2.mm
Attachments
Activity
| Field | Original Value | New Value |
|---|---|---|
| Assignee | Hiral Vora [ hiralv ] | Alyssa Gulledge [ alyssa ] |
| Assignee | Alyssa Gulledge [ alyssa ] | Nick Ren [ imnick ] |
| Project | IGB 6.5.1 [ 10032 ] | IGB6.6 [ 10021 ] |
| Key |
|
|
| Assignee | Nick Ren [ imnick ] | Alyssa Gulledge [ alyssa ] |
This bug fixed.
After import 2 data files. It will display CoolHT2.mm and CoolHT2.sm in pref.
| Comment |
[ Fail to import following data to IGB: http://transvar.org/illumina/tophat_3_processed/CoolHT2.mm.bam I've tried to import another 5 different .mm.bam files, but still nothing display. ] |
| Status | Open [ 1 ] | Resolved [ 5 ] |
| Resolution | Fixed [ 1 ] |
| Status | Resolved [ 5 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Closed [ 6 ] | Reopened [ 4 ] |
| Assignee | Alyssa Gulledge [ alyssa ] |
| Status | Reopened [ 4 ] | Resolved [ 5 ] |
| Resolution | Fixed [ 1 ] |
| Status | Resolved [ 5 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Closed [ 6 ] | Reopened [ 4 ] |
| Assignee | Darius Bost [ darius ] |
| Assignee | Darius Bost [ darius ] |
| Assignee | Alyssa Gulledge [ alyssa ] |
Katy, please just test this one
| Assignee | Alyssa Gulledge [ alyssa ] | Katharine Kubiak [ kkubiak ] |
Passed Windows v11948
| Status | Reopened [ 4 ] | Resolved [ 5 ] |
| Assignee | Katharine Kubiak [ kkubiak ] | |
| Resolution | Fixed [ 1 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Resolved [ 5 ] | Reopened [ 4 ] |
Files no longer exist (404 not found).
Please post files again.
Tested mm and sm files from http://igbquickload.org/quickload/A_thaliana_Jun_2009/cold_stress/
for cold_treament.mm.bam and cold_treatment.sm.bam and IGB 7.0(13526) loaded:
cold_treatment.mm.bam
RNA-Seq/Loraine Lab/Mixed Cold/SM/Reads/Cold, alignments (file dragged in was cold_treatment.sm.bam)
Appears to Pass
| Assignee | Alyssa Gulledge [ alyssa ] |
| Status | Reopened [ 4 ] | Resolved [ 5 ] |
| Assignee | Alyssa Gulledge [ alyssa ] | |
| Resolution | Fixed [ 1 ] |
| Status | Resolved [ 5 ] | Closed [ 6 ] |
Fixed on trunk in 8136.