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: Done
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Affects Version/s: None
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Fix Version/s: 9.1.10 Major Release
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Labels:None
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Story Points:0.25
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Epic Link:
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Sprint:Spring 1 2022 Jan 3 - Jan 14, Spring 2 2022 Jan 18 - Jan 28
Description
Currently, bookmark "default name" looks like:
H_sapiens_Dec_2013, chr1 : 0 - 248,956,422
The "default name" is getting constructed from the genome name (e.g., H_sapiens_Dec_2013), the currently viewed chromosome (e.g., chr1), and the currently visible region (e.g., 0 - 248,956,422).
The format of the default name is OK, but it would be more useful if it used a format accepted by the "samtools view" command. (Samtools is a very popular program in bioinformatics.)
Samtools view accepts a region string that looks like:
chr1:0-248,956,422
Note it is very similar to our current "default" name, but ours contains space characters.
Let's modify our "default" name to look like what samtools view accepts, by removing the space characters in the region string part.
For example:
H_sapiens_Dec_2013, chr1 : 0 - 248,956,422
will be instead:
H_sapiens_Dec_2013, chr1:0-248,956,422
Please change the format so that the "default name" is
Attachments
Issue Links
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- Closed
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Activity
| Field | Original Value | New Value |
|---|---|---|
| Epic Link | IGBF-1765 [ 17855 ] |
| Assignee | Ann Loraine [ aloraine ] |
| Rank | Ranked higher |
| Assignee | Omkar Marne [ omarne ] |
| Attachment | New bookmark name format.png [ 17062 ] |
| Attachment | New bookmark name format.png [ 17062 ] |
| Attachment | New Bookmark name format.png [ 17064 ] |
| Assignee | Omkar Marne [ omarne ] | Ann Loraine [ aloraine ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | To-Do [ 10305 ] |
| Assignee | Ann Loraine [ aloraine ] | Omkar Marne [ omarne ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Attachment | conflict.png [ 17067 ] |
| Assignee | Omkar Marne [ omarne ] | Ann Loraine [ aloraine ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | Ready for Pull Request [ 10304 ] |
| Status | Ready for Pull Request [ 10304 ] | Pull Request Submitted [ 10101 ] |
| Sprint | Spring 1 2022 Jan 3 - Jan 14 [ 136 ] | Spring 1 2022 Jan 3 - Jan 14, Spring 2 2022 Jan 18 - Jan 28 [ 136, 137 ] |
| Rank | Ranked higher |
| Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
| Status | Reviewing Pull Request [ 10303 ] | Merged Needs Testing [ 10002 ] |
| Assignee | Ann Loraine [ aloraine ] |
| Assignee | Omkar Marne [ omarne ] |
| Status | Merged Needs Testing [ 10002 ] | Post-merge Testing In Progress [ 10003 ] |
| Resolution | Done [ 10000 ] | |
| Status | Post-merge Testing In Progress [ 10003 ] | Closed [ 6 ] |
| Fix Version/s | 9.1.10 Major Release [ 10700 ] |