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Update fastq_align_star for nf-test and handle transcriptome alignment better #4927
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mashehu
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Feb 16, 2024
mashehu
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sorry, the last review wasn't supposed to be an approval, but a request for comments
maxulysse
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Feb 16, 2024
mashehu
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Feb 16, 2024
Co-authored-by: Matthias Hörtenhuber <mashehu@users.noreply.github.com>
thanks @mashehu ! |
jch-13
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Mar 19, 2024
…t better (nf-core#4927) * Update fastq_align_star for nf-test and handle transcriptome alignment better * Remove backup file * Replace test data with RNA-specific that will actually align * Appease eclint * Add extra test for when trancriptome bam produced but transcriptome not supplied * Fix snapshots * Remove convenience transcriptome creation * Update subworkflows/nf-core/fastq_align_star/meta.yml Co-authored-by: Matthias Hörtenhuber <mashehu@users.noreply.github.com> --------- Co-authored-by: Matthias Hörtenhuber <mashehu@users.noreply.github.com>
jennylsmith
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Mar 20, 2024
…t better (nf-core#4927) * Update fastq_align_star for nf-test and handle transcriptome alignment better * Remove backup file * Replace test data with RNA-specific that will actually align * Appease eclint * Add extra test for when trancriptome bam produced but transcriptome not supplied * Fix snapshots * Remove convenience transcriptome creation * Update subworkflows/nf-core/fastq_align_star/meta.yml Co-authored-by: Matthias Hörtenhuber <mashehu@users.noreply.github.com> --------- Co-authored-by: Matthias Hörtenhuber <mashehu@users.noreply.github.com>
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versions.yml
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PROFILE=docker pytest --tag <MODULE> --symlink --keep-workflow-wd --git-aware
PROFILE=singularity pytest --tag <MODULE> --symlink --keep-workflow-wd --git-aware
PROFILE=conda pytest --tag <MODULE> --symlink --keep-workflow-wd --git-aware