Details
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Type:
Task
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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: None
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Labels:None
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Story Points:5
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Epic Link:
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Sprint:Spring 3, Spring 4, Spring 5, Spring 6, Spring 7
Description
Data has been submitted to SRA and now needs to be reviewed. To do this we perform a rerun of the data by pulling it from SRA directly and pushing it through the nextflow pipeline and prepping it for IGB quick load. To confirm that the data on SRA is correct we can make a few comparisons with the original data.
- Compare files sizes of the original data to the new rerun file sizes.
- Open IGB and compare bam and coverage graphs with the original and rerun data.
- Perform these comparisons for SL4 and SL5
Muday cluster Directories:
Original: /projects/tomato_genome/fnb/dataprocessing/muday-144
Re-run: /projects/tomato_genome/fnb/dataprocessing/SRP460750
Attachments
Issue Links
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Activity
| Field | Original Value | New Value |
|---|---|---|
| Epic Link | IGBF-2993 [ 21429 ] |
| Rank | Ranked higher |
| Rank | Ranked higher |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Sprint | Spring 3 [ 187 ] | Spring 3, Spring 4 [ 187, 188 ] |
| Rank | Ranked higher |
| Story Points | 2 | 5 |
| Attachment | SRR25478302-multiqcreport.png [ 18231 ] | |
| Attachment | 7-are-15-min-28C-multiqcreport.png [ 18232 ] |
| Attachment | SRR25478244-mutliqcreport.png [ 18233 ] | |
| Attachment | 8-VF36-30-min-28C-multiqcreport-A.28.15.8.png [ 18234 ] |
| Attachment | SRR25478302-Noswitch-Igb-Comparison .png [ 18235 ] |
| Attachment | SRR25478244-Switch-IGB-Comparison.png [ 18237 ] |
| Assignee | Molly Davis [ molly ] | Robert Reid [ robertreid ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Assignee | Robert Reid [ robertreid ] | Ann Loraine [ aloraine ] |
| 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 3, Spring 4 [ 187, 188 ] | Spring 3, Spring 4, Spring 5 [ 187, 188, 189 ] |
| Rank | Ranked higher |
| Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
| Status | Reviewing Pull Request [ 10303 ] | To-Do [ 10305 ] |
| Assignee | Ann Loraine [ aloraine ] | Molly Davis [ molly ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Sprint | Spring 3, Spring 4, Spring 5 [ 187, 188, 189 ] | Spring 3, Spring 4, Spring 5, Spring 6 [ 187, 188, 189, 190 ] |
| Rank | Ranked higher |
| Attachment | megaqc_homepage.png [ 18293 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Assignee | Molly Davis [ molly ] | Robert Reid [ robertreid ] |
| Comment |
[ One last comment:
I can easily add some new code to my above Markdown that will identify the correct labels for each SRA record. Request to [~robofjoy]: Should I do this? ] |
| Sprint | Spring 3, Spring 4, Spring 5, Spring 6 [ 187, 188, 189, 190 ] | Spring 3, Spring 4, Spring 5, Spring 6, Spring 7 [ 187, 188, 189, 190, 191 ] |
| Rank | Ranked higher |
| 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 ] |
| Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
| Status | Reviewing Pull Request [ 10303 ] | Merged Needs Testing [ 10002 ] |
| Status | Merged Needs Testing [ 10002 ] | Post-merge Testing In Progress [ 10003 ] |
| Resolution | Done [ 10000 ] | |
| Status | Post-merge Testing In Progress [ 10003 ] | Closed [ 6 ] |