Details
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Type: Task
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Status: Closed (View Workflow)
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Priority: Blocker
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Resolution: Done
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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:4
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Epic Link:
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Sprint:Fall 6 : 28 Oct to 8 Nov, Fall 7 : 11 Nov to 22 Nov, Fall 8 : 25 Nov to 6 Dec
Description
Situation: The current implementation uses a workaround to produce a bedgraph file from the BAI file, then reads in the bedgraph file. The BAI file should instead produce a graph sym object to display in IGB.
Task: Implement a change so that loading the BAI file produces a graph sym object in IGB, and does not output a bedgraph file. In IGB, there are methods for producing graph sym objects from bam files in Track Operations Depth Graph, so we might be able to use the same code.
Attachments
Issue Links
Activity
Nowlan Freese
created issue -
Nowlan Freese
made changes -
Field | Original Value | New Value |
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Epic Link |
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Nowlan Freese
made changes -
Nowlan Freese
made changes -
Nowlan Freese
made changes -
Attachment | pacBio.bam [ 14483 ] | |
Attachment | pacBio.bam.bai [ 14484 ] |
Sai Charan Reddy Vallapureddy (Inactive)
made changes -
Assignee | Sai Charan Reddy Vallapureddy [ svallapu ] |
Sai Charan Reddy Vallapureddy (Inactive)
made changes -
Status | To-Do [ 10305 ] | In Progress [ 3 ] |
Ann Loraine
made changes -
Sprint | Fall 6 : 28 Oct to 8 Nov [ 77 ] | Fall 6 : 28 Oct to 8 Nov, Fall 7 : 11 Nov to 22 Nov [ 77, 78 ] |
Ann Loraine
made changes -
Rank | Ranked higher |
Ann Loraine
made changes -
Sprint | Fall 6 : 28 Oct to 8 Nov, Fall 7 : 11 Nov to 22 Nov [ 77, 78 ] | Fall 6 : 28 Oct to 8 Nov, Fall 7 : 11 Nov to 22 Nov, Fall 8 : 25 Nov to 6 Dec [ 77, 78, 79 ] |
Ann Loraine
made changes -
Rank | Ranked higher |
Sai Charan Reddy Vallapureddy (Inactive)
made changes -
Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
Nowlan Freese
made changes -
Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
Nowlan Freese
made changes -
Assignee | Sai Charan Reddy Vallapureddy [ svallapu ] | Nowlan Freese [ nfreese ] |
Nowlan Freese
made changes -
Status | First Level Review in Progress [ 10301 ] | Ready for Pull Request [ 10304 ] |
Nowlan Freese
made changes -
Assignee | Nowlan Freese [ nfreese ] | Sai Charan Reddy Vallapureddy [ svallapu ] |
Sai Charan Reddy Vallapureddy (Inactive)
made changes -
Status | Ready for Pull Request [ 10304 ] | Pull Request Submitted [ 10101 ] |
Nowlan Freese
made changes -
Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
Nowlan Freese
made changes -
Status | Reviewing Pull Request [ 10303 ] | Merged Needs Testing [ 10002 ] |
Nowlan Freese
made changes -
Status | Merged Needs Testing [ 10002 ] | Post-merge Testing In Progress [ 10003 ] |
Nowlan Freese
made changes -
Assignee | Sai Charan Reddy Vallapureddy [ svallapu ] | Nowlan Freese [ nfreese ] |
Nowlan Freese
made changes -
Attachment | HG002.GRCh38.2x250.bam.bai [ 14546 ] |
Nowlan Freese
made changes -
Resolution | Done [ 10000 ] | |
Status | Post-merge Testing In Progress [ 10003 ] | Closed [ 6 ] |
Nowlan Freese
made changes -
Assignee | Nowlan Freese [ nfreese ] | Sai Charan Reddy Vallapureddy [ svallapu ] |
Note: I'm not exactly sure how partial loading of the bai file will work.