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Create subworkflow to filter reads from blacklisted regions #17
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Commits on Oct 19, 2023
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Commits on Oct 20, 2023
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test: use custom test data locally
because the github repo is internal right now, so can't access URLs
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had to do it manually due to nf-core tools not supporing local custom module repos yet for subworkflows.
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Commits on Oct 23, 2023
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refactor: use picard/samtofastq in filter_blacklist
custom/bam2fastq probably fails due to naming scheme not matching nf-core
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refactor: samtools_filter_aligned -> samtools_filteraligned
process names can only have 1 underscore otherwise linting fails in subworkflows that use them
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