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:2
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Sprint:Spring 1 2022 Jan 3 - Jan 14, Spring 2 2022 Jan 18 - Jan 28, Spring 3 2022 Jan 31 - Feb 11, Spring 4 2022 Feb 14 - Feb 25, Spring 5 2022 Feb 28 - Mar 11
Description
Align and process RNA-Seq data using nf-core/rnaseq pipeline
Attachments
Issue Links
- relates to
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IGBF-3099 Analyze differential expression using RNA-Seq
- To-Do
Activity
Ann Loraine
created issue -
Ann Loraine
made changes -
Field | Original Value | New Value |
---|---|---|
Epic Link | IGBF-3039 [ 21553 ] |
Ann Loraine
made changes -
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 ] |
Ann Loraine
made changes -
Rank | Ranked higher |
Ann Loraine
made changes -
Status | To-Do [ 10305 ] | In Progress [ 3 ] |
Ann Loraine
made changes -
Assignee | Ann Loraine [ aloraine ] |
Ann Loraine
made changes -
Status | In Progress [ 3 ] | To-Do [ 10305 ] |
Ann Loraine
made changes -
Status | To-Do [ 10305 ] | In Progress [ 3 ] |
Ann Loraine
made changes -
Comment |
[ More errors:
{code} >>>>> Now validing the length of the 2 paired-end infiles: A.C.Y.S.3_1_trimmed.fq.gz and A.C.Y.S.3_2_trimmed.fq.gz <<<<< Writing validated paired-end Read 1 reads to A.C.Y.S.3_1_val_1.fq.gz Writing validated paired-end Read 2 reads to A.C.Y.S.3_2_val_2.fq.gz Read 2 output is truncated at sequence count: 23469680, please check your paired-end input files! Terminating... INFO: Cleaning up image... Work dir: /nobackup/lorainelab/salty_rice/rna-seq/work/c7/25844b7fa5600e4c60222407461493 Tip: you can replicate the issue by changing to the process work dir and entering the command `bash .command.run` {code} ] |
Ann Loraine
made changes -
Description | Align and process RNA-Seq data using nf-core/rnaseq pipeline |
Align and process RNA-Seq data using nf-core/rnaseq pipeline
|
Ann Loraine
made changes -
Assignee | Ann Loraine [ aloraine ] |
Ann Loraine
made changes -
Assignee | Ann Loraine [ aloraine ] |
Ann Loraine
made changes -
Status | In Progress [ 3 ] | To-Do [ 10305 ] |
Ann Loraine
made changes -
Status | To-Do [ 10305 ] | In Progress [ 3 ] |
Ann Loraine
made changes -
Status | In Progress [ 3 ] | To-Do [ 10305 ] |
Ann Loraine
made changes -
Sprint | Spring 1 2022 Jan 3 - Jan 14, Spring 2 2022 Jan 18 - Jan 28 [ 136, 137 ] | Spring 1 2022 Jan 3 - Jan 14, Spring 2 2022 Jan 18 - Jan 28, Spring 3 2022 Jan 31 - Feb 11 [ 136, 137, 138 ] |
Ann Loraine
made changes -
Rank | Ranked higher |
Ann Loraine
made changes -
Status | To-Do [ 10305 ] | In Progress [ 3 ] |
Ann Loraine
made changes -
Status | In Progress [ 3 ] | To-Do [ 10305 ] |
Ann Loraine
made changes -
Sprint | Spring 1 2022 Jan 3 - Jan 14, Spring 2 2022 Jan 18 - Jan 28, Spring 3 2022 Jan 31 - Feb 11 [ 136, 137, 138 ] | Spring 1 2022 Jan 3 - Jan 14, Spring 2 2022 Jan 18 - Jan 28, Spring 3 2022 Jan 31 - Feb 11, Spring 4 2022 Feb 14 - Feb 25 [ 136, 137, 138, 139 ] |
Ann Loraine
made changes -
Rank | Ranked higher |
Ann Loraine
made changes -
Status | To-Do [ 10305 ] | In Progress [ 3 ] |
Ann Loraine
made changes -
Status | In Progress [ 3 ] | To-Do [ 10305 ] |
Ann Loraine
made changes -
Status | To-Do [ 10305 ] | In Progress [ 3 ] |
Ann Loraine
made changes -
Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
Ann Loraine
made changes -
Assignee | Ann Loraine [ aloraine ] | Nowlan Freese [ nfreese ] |
Nowlan Freese
made changes -
Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
Nowlan Freese
made changes -
Assignee | Nowlan Freese [ nfreese ] | Ann Loraine [ aloraine ] |
Nowlan Freese
made changes -
Status | First Level Review in Progress [ 10301 ] | To-Do [ 10305 ] |
Ann Loraine
made changes -
Sprint | Spring 1 2022 Jan 3 - Jan 14, Spring 2 2022 Jan 18 - Jan 28, Spring 3 2022 Jan 31 - Feb 11, Spring 4 2022 Feb 14 - Feb 25 [ 136, 137, 138, 139 ] | Spring 1 2022 Jan 3 - Jan 14, Spring 2 2022 Jan 18 - Jan 28, Spring 3 2022 Jan 31 - Feb 11, Spring 4 2022 Feb 14 - Feb 25, Spring 5 2022 Feb 28 - Mar 11 [ 136, 137, 138, 139, 140 ] |
Ann Loraine
made changes -
Rank | Ranked higher |
Ann Loraine
made changes -
Status | To-Do [ 10305 ] | In Progress [ 3 ] |
Ann Loraine
made changes -
Status | In Progress [ 3 ] | To-Do [ 10305 ] |
Ann Loraine
made changes -
Status | To-Do [ 10305 ] | In Progress [ 3 ] |
Ann Loraine
made changes -
Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
Ann Loraine
made changes -
Assignee | Ann Loraine [ aloraine ] |
Nowlan Freese
made changes -
Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
Nowlan Freese
made changes -
Assignee | Nowlan Freese [ nfreese ] |
Nowlan Freese
made changes -
Assignee | Nowlan Freese [ nfreese ] |
Nowlan Freese
made changes -
Status | First Level Review in Progress [ 10301 ] | Ready for Pull Request [ 10304 ] |
Ann Loraine
made changes -
Status | Ready for Pull Request [ 10304 ] | Pull Request Submitted [ 10101 ] |
Ann Loraine
made changes -
Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
Ann Loraine
made changes -
Status | Reviewing Pull Request [ 10303 ] | Merged Needs Testing [ 10002 ] |
Ann Loraine
made changes -
Status | Merged Needs Testing [ 10002 ] | Post-merge Testing In Progress [ 10003 ] |
Ann Loraine
made changes -
Resolution | Done [ 10000 ] | |
Status | Post-merge Testing In Progress [ 10003 ] | Closed [ 6 ] |
Ann Loraine
made changes -
Assignee | Ann Loraine [ aloraine ] |
Nowlan Freese
made changes -
Ann Loraine
made changes -
Summary | Align and process RNA-Seq data using nf-core/rnaseq pipeline | Align and process rice RNA-Seq data using nf-core/rnaseq pipeline |