Details
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Type:
Improvement
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Status: Closed (View Workflow)
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Priority:
Major
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Resolution: Fixed
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Affects Version/s: None
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Fix Version/s: None
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Labels:None
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Story Points:0.25
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Sprint:Sprint 2
Description
Visit blueberry genome and then open the attached file.
Observe: IGB displays a dialog and prints a console message with text:
-------------------------------------------------------
ERROR: File contains too many contigs; some will not be shown.
-------------------------------------------------------
This error is not helpful because it doesn't tell the user how to fix the problem.
Attachments
Issue Links
- is blocked by
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DB-166 Refactor Symloaders to allow wrapper response object to be returned instead on only List<? extends SeqSymmetry>
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- Open
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Activity
| Field | Original Value | New Value |
|---|---|---|
| Attachment | SSR Data.bed.zip [ 12386 ] |
| Description |
To Reproduce: Open IGB, open attached file Observe: IGB displays both a graphical dialog box and a message in console saying ------------------------------------------------------- ERROR: File contains too many contigs; some will not be shown. ------------------------------------------------------- This error is unhelpful and possibly unnecessary IGB also does not display the data. Work around: to get IGB to display this data. Open IGB, Open Blueberry genome, WAIT for it to load. Then open attached file in IGB. WAIT FOR IT TO LOAD. Then continue browsing. Additional work around: Create index for file with tabix before opening in IGB. |
To Reproduce: Unzip file, Open IGB, open attached file Observe: IGB displays both a graphical dialog box and a message in console saying ------------------------------------------------------- ERROR: File contains too many contigs; some will not be shown. ------------------------------------------------------- This error is unhelpful and possibly unnecessary IGB also does not display the data. Work around: to get IGB to display this data. Open IGB, Open Blueberry genome, WAIT for it to load. Then open attached file in IGB. WAIT FOR IT TO LOAD. Then continue browsing. Additional work around: Create index for file with tabix before opening in IGB. |
| Epic Link | IGBF-106 [ 14553 ] |
| Rank | Ranked higher |
| Rank | Ranked higher |
| Summary | Opening Bed file triggers "ERROR: File contains too many contigs; some will not be shown. | Iprove error message when user opens Bed file with lots of sequences |
| Issue Type | Bug [ 1 ] | Improvement [ 4 ] |
| Description |
To Reproduce: Unzip file, Open IGB, open attached file Observe: IGB displays both a graphical dialog box and a message in console saying ------------------------------------------------------- ERROR: File contains too many contigs; some will not be shown. ------------------------------------------------------- This error is unhelpful and possibly unnecessary IGB also does not display the data. Work around: to get IGB to display this data. Open IGB, Open Blueberry genome, WAIT for it to load. Then open attached file in IGB. WAIT FOR IT TO LOAD. Then continue browsing. Additional work around: Create index for file with tabix before opening in IGB. |
Visit blueberry genome and then open the attached file.
Observe: IGB displays both a graphical dialog box and a message in console saying ------------------------------------------------------- ERROR: File contains too many contigs; some will not be shown. ------------------------------------------------------- This error is unhelpful and possibly unnecessary IGB also does not display the data. Work around: to get IGB to display this data. Open IGB, Open Blueberry genome, WAIT for it to load. Then open attached file in IGB. WAIT FOR IT TO LOAD. Then continue browsing. Additional work around: Create index for file with tabix before opening in IGB. |
| Story Points | 0.5 |
| Summary | Iprove error message when user opens Bed file with lots of sequences | Improve error message when user opens Bed file with lots of sequences |
| Attachment | BlueberrySSR.bed.gz [ 12455 ] |
| Attachment | SSR Data.bed.zip [ 12386 ] |
| Description |
Visit blueberry genome and then open the attached file.
Observe: IGB displays both a graphical dialog box and a message in console saying ------------------------------------------------------- ERROR: File contains too many contigs; some will not be shown. ------------------------------------------------------- This error is unhelpful and possibly unnecessary IGB also does not display the data. Work around: to get IGB to display this data. Open IGB, Open Blueberry genome, WAIT for it to load. Then open attached file in IGB. WAIT FOR IT TO LOAD. Then continue browsing. Additional work around: Create index for file with tabix before opening in IGB. |
Visit blueberry genome and then open the attached file.
Observe: IGB displays a dialog and prints a console message with text: ------------------------------------------------------- ERROR: File contains too many contigs; some will not be shown. ------------------------------------------------------- This error is not helpful because it doesn't tell the user how to fix the problem. |
| Epic Link | IGBF-106 [ 14553 ] |
| Workflow | classic default workflow [ 14381 ] | Loraine Lab Workflow [ 14611 ] |
| Story Points | 0.5 | 0.25 |
| Sprint | Sprint 2 [ 4 ] |
| Rank | Ranked higher |
| Assignee | David Norris [ dcnorris ] | Tarun Santosh [ tkanapar ] |
| Status | Open [ 1 ] | In Progress [ 3 ] |
| Status | In Progress [ 3 ] | Needs Testing [ 10002 ] |
| Assignee | Tarun Santosh [ tkanapar ] |
| Status | Needs Testing [ 10002 ] | Testing In Progress [ 10003 ] |
| Assignee | Mason Meyer [ mason ] |
| Attachment | TooManySequencesErrorMessage.png [ 12508 ] |
| Status | Testing In Progress [ 10003 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] |
| Workflow | Loraine Lab Workflow [ 14611 ] | Fall 2019 Workflow Update [ 19113 ] |
| Workflow | Fall 2019 Workflow Update [ 19113 ] | Revised Fall 2019 Workflow Update [ 21226 ] |