Details
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Type:
Bug
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Status: Closed (View Workflow)
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Priority:
Major
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Resolution: Fixed
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Labels:None
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Environment:
this affects IGB 6.5 and probably 6.6
Description
I'm trying to look up genes in the mouse genome by using the search function.
However, the only way the search feature will work is if I first visit the chromosomes where the gene is located, even when I choose the search genome option.
To repeat:
(0) Reset prefs to defaults, restart IGB
(1) Choose Mus musculus
(2) Choose M_musculus_Jul_2007
(3) Click search tab AND unclick "also search remotely"
(4) Choose IDs or names, genome
(5) enter query: Ctr9
(4) click Search
(5) observe no results appear
(6) Click chr7
(7) Observe gene models load from server
(8) click Search
(9) Observe IGB finds the gene
(10) Click the row
(11) Observe IGB moves to the location and also observe the search results disappear (this is another bug)
Attachments
Issue Links
- is blocked by
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BUG-648 Search bugs
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- Closed
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Activity
| Field | Original Value | New Value |
|---|---|---|
| Assignee | Ann Loraine [ aloraine ] | Hiral Vora [ hiralv ] |
| Assignee | Hiral Vora [ hiralv ] | Ann Loraine [ aloraine ] |
| Comment | [ It is not a bug. When any data is loaded, it's name and id is stored in a hash table. When you search something, it looks up that hash table. So data needs to loaded before searching anything. ] |
| Assignee | Ann Loraine [ aloraine ] | Hiral Vora [ hiralv ] |
As discussed, I have reverted back changes regarding whole genome.
Fixed in 8124.
| Assignee | Hiral Vora [ hiralv ] | Alyssa Gulledge [ alyssa ] |
| Status | Open [ 1 ] | Resolved [ 5 ] |
| Resolution | Fixed [ 1 ] |
Test fails on branch:
Path: .
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)
| Assignee | Alyssa Gulledge [ alyssa ] | Hiral Vora [ hiralv ] |
| Description |
I'm trying to look up genes in the mouse genome by using the search function. However, the only way the search feature will work is if I first visit the chromosomes where the gene is located, even when I choose the search genome option. To repeat: (1) Choose Mus musculus (2) Choose M_musculus_Jul_2007 (3) Click search tab (4) Choose IDs or names, genome (5) enter query: Ctr9 (4) click Search (5) observe no results appear (6) Click chr7 (7) Observe gene models load from server (8) click Search (9) Observe IGB finds the gene (10) Click the row (11) Observe IGB moves to the location and also observe the search results disappear (this is another bug) |
I'm trying to look up genes in the mouse genome by using the search function. However, the only way the search feature will work is if I first visit the chromosomes where the gene is located, even when I choose the search genome option. To repeat: (0) Reset prefs to defaults, restart IGB (1) Choose Mus musculus (2) Choose M_musculus_Jul_2007 (3) Click search tab AND unclick "also search remotely" (4) Choose IDs or names, genome (5) enter query: Ctr9 (4) click Search (5) observe no results appear (6) Click chr7 (7) Observe gene models load from server (8) click Search (9) Observe IGB finds the gene (10) Click the row (11) Observe IGB moves to the location and also observe the search results disappear (this is another bug) |
Results continue to be getting blanked out when user switches to new chromosome.
| Project | IGB6.6 [ 10021 ] | IGB 6.5.1 [ 10032 ] |
| Key |
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Fixed on trunk in 8137.
| Assignee | Hiral Vora [ hiralv ] | Alyssa Gulledge [ alyssa ] |
Deployed a new version with this fix. Test on preview too.
| Resolution | Fixed [ 1 ] | |
| Status | Resolved [ 5 ] | Reopened [ 4 ] |
| Assignee | Alyssa Gulledge [ alyssa ] | Katharine Kubiak [ kkubiak ] |
| Project | IGB 6.5.1 [ 10032 ] | Bug Repository [ 10030 ] |
| Key |
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Passed v9845 Windows
| Assignee | Katharine Kubiak [ kkubiak ] | Anuj Puram [ anuj ] |
Passed 6.7.0 (9891) on Mac
| Assignee | Anuj Puram [ anuj ] | Alyssa Gulledge [ alyssa ] |
| 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 ] |
| Assignee | Fuquan Wang [ fwang4 ] |
Failed on 7.0.0 (11884) Mac, still have to visit the chromosome first to get the correct search result.
| Assignee | Fuquan Wang [ fwang4 ] | Alyssa Gulledge [ alyssa ] |
| Assignee | Alyssa Gulledge [ alyssa ] | Katharine Kubiak [ kkubiak ] |
Also a issue on Windows v11935
You have to click the chromosome first before the search result appears. However the other issue (#11 from original post) of the search results disappearing is no problem now.
| Assignee | Katharine Kubiak [ kkubiak ] | Hiral Vora [ hiralv ] |
It is behaving as expected.
To search the data it must be loaded or remote search should be turned on.
| Assignee | Hiral Vora [ hiralv ] | Katharine Kubiak [ kkubiak ] |
| Status | Reopened [ 4 ] | Resolved [ 5 ] |
| Resolution | Fixed [ 1 ] |
| Status | Resolved [ 5 ] | Closed [ 6 ] |
| Assignee | Katharine Kubiak [ kkubiak ] |
| Resolution | Fixed [ 1 ] | |
| Status | Closed [ 6 ] | Reopened [ 4 ] |
| Assignee | Darius Bost [ darius ] |
| Status | Reopened [ 4 ] | Resolved [ 5 ] |
| Assignee | Darius Bost [ darius ] | |
| Resolution | Fixed [ 1 ] |
| Comment | [ Passed 7.0 (11982) ] |
| Resolution | Fixed [ 1 ] | |
| Status | Resolved [ 5 ] | Reopened [ 4 ] |
| Status | Reopened [ 4 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Closed [ 6 ] | Reopened [ 4 ] |
| Assignee | Tarun Santosh [ tkanapar ] |
Passed (7.0.4) 15384(Mac)
| Status | Reopened [ 4 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Closed [ 6 ] | Reopened [ 4 ] |
| Assignee | Tarun Santosh [ tkanapar ] |
| Status | Reopened [ 4 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] |
Let's make this a top priority to fix - it seriously impairs users ability to look up genes in IGB.