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Use 'dir' type and checkIfExists for Channel.fromPath #79

Merged
merged 8 commits into from
Sep 19, 2023
Merged

Use 'dir' type and checkIfExists for Channel.fromPath #79

merged 8 commits into from
Sep 19, 2023

Commits on Sep 19, 2023

  1. fix: use Channel.fromPath(type:'dir') for chromosomes dir 

    fixes #78
    @kelly-sovacool
    kelly-sovacool committed Sep 19, 2023
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  2. fix: don't use scratch on interactive node 

    doesn't allow caching between jobs
    @kelly-sovacool
    kelly-sovacool committed Sep 19, 2023
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  3. fix: input normalization requires QC subworkflow

    @kelly-sovacool
    kelly-sovacool committed Sep 19, 2023
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  4. refactor: use Channel.fromPath(type:'dir') for fastq screen 

    obviates need to mount/bind db dir to container
    @kelly-sovacool
    kelly-sovacool committed Sep 19, 2023
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  5. refactor: always call fromPath with checkIfExists: true

    @kelly-sovacool
    kelly-sovacool committed Sep 19, 2023
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  6. fix: include tests subdirs in pkg data 

    towards #71. probably fixes it.
    @kelly-sovacool
    kelly-sovacool committed Sep 19, 2023
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  7. ci: try removing baseDir from params paths 

    also move dummy test genome to ci_stub profile
    @kelly-sovacool
    kelly-sovacool committed Sep 19, 2023
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  8. chore: update changelog

    @kelly-sovacool
    kelly-sovacool committed Sep 19, 2023
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