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lyveset fastq file parsing bugfix and other improvements #156

Merged
merged 6 commits into from
Aug 30, 2023
Merged

lyveset fastq file parsing bugfix and other improvements #156

merged 6 commits into from
Aug 30, 2023

Commits on Aug 9, 2023

  1. correct 3 optional input params for lyveset

    @kapsakcj
    kapsakcj committed Aug 9, 2023
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Commits on Aug 17, 2023

  1. lyveSET task: added ability to handle FASTQ files ending with _R1.fas… 

    …tq.gz. Other small improvements. tested fine in miniwdl, need to test in Terra
    @kapsakcj
    kapsakcj committed Aug 17, 2023
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  2. more concise debug statement for renaming files

    @kapsakcj
    kapsakcj committed Aug 17, 2023
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  3. corrected paths for 2 optional outputs

    @kapsakcj
    kapsakcj committed Aug 17, 2023
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  4. Merge pull request #154 from theiagen/cjk-lyveset-fastq-parsing 

    lyveset fastq parsing
    @kapsakcj
    kapsakcj authored Aug 17, 2023
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Commits on Aug 29, 2023

  1. overhaul of lyveset FASTQ file ingestion; increased default disk size… 

    … to 250GB; rename FASTQ files to replace underscores w dashes except for those surrounding R1/R2; rename FASTQs downloaded via SRA_Fetch and basespace_fetch wfs
    @kapsakcj
    kapsakcj committed Aug 29, 2023
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