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QC pipeline Dev - pre alignment QC workflow in nf-core framework #317

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lindaxiang opened this issue Jan 26, 2023 · 9 comments
Closed

QC pipeline Dev - pre alignment QC workflow in nf-core framework #317

lindaxiang opened this issue Jan 26, 2023 · 9 comments
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@lindaxiang
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analysis-workflow nf-core-switch

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@lindaxiang
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wfpm version: https://github.com/icgc-argo-workflows/pre-alignment-qc
@lindaxiang lindaxiang self-assigned this Jan 26, 2023
@puneet-oicr
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In progress, partly completed

@puneet-oicr
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Ongoing work.

@puneet-oicr
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Implementation complete. Documentation pending. PR to be created soon.

@lindaxiang
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New git repo: https://github.com/icgc-argo-workflows/prealnqc

@edsu7
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edsu7 commented May 3, 2023

Test on RDPC. Dependency on up to date nextflow ver.
icgc-argo/workflow-management#196

@lindaxiang lindaxiang changed the title Pilot workflow switch - pre-alignment-qc QC pipeline Dev - pre-alignment-qc Jun 21, 2023
@lindaxiang lindaxiang changed the title QC pipeline Dev - pre-alignment-qc QC pipeline Dev - pre alignment QC workflow in nf-core framework Jun 21, 2023
@lindaxiang
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Test the workflow in RDPC-QA and got an issue: #388

@lindaxiang
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Test the workflow in RDPC-QA and completed successfully:
https://wes.rdpc-qa.cancercollaboratory.org/runs/wes-c6f9a8842bcd48c4a5430384f6fb8e98

@lindaxiang
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lindaxiang commented Nov 22, 2023 •
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Next steps:

@justincorrigible
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Closing as Done

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analysis-workflow nf-core-switch
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@justincorrigible @lindaxiang @edsu7 @puneet-oicr