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ci(align_bowtie2): Run tests that depend on bam_sort_samtools

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Edmund Miller 2021-10-27 12:31:35 -05:00
parent 8f7e5c050e
commit 7b65e9e327
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2 changed files with 18 additions and 17 deletions
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3
tests/config/pytest_modules.yml
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@ -1378,12 +1378,13 @@ yara/mapper:
subworkflows/align_bowtie2: subworkflows/align_bowtie2:
- subworkflows/nf-core/align_bowtie2/** - subworkflows/nf-core/align_bowtie2/**
- tests/subworkflows/nf-core/align_bowtie2/** - tests/subworkflows/nf-core/align_bowtie2/**
- *subworkflows/bam_sort_samtools
subworkflows/bam_stats_samtools: &subworkflows/bam_stats_samtools subworkflows/bam_stats_samtools: &subworkflows/bam_stats_samtools
- subworkflows/nf-core/bam_stats_samtools/** - subworkflows/nf-core/bam_stats_samtools/**
- tests/subworkflows/nf-core/bam_stats_samtools/** - tests/subworkflows/nf-core/bam_stats_samtools/**
subworkflows/bam_sort_samtools: subworkflows/bam_sort_samtools: &subworkflows/bam_sort_samtools
- subworkflows/nf-core/bam_sort_samtools/** - subworkflows/nf-core/bam_sort_samtools/**
- tests/subworkflows/nf-core/bam_sort_samtools/** - tests/subworkflows/nf-core/bam_sort_samtools/**
- *samtools/sort - *samtools/sort

32
tests/subworkflows/nf-core/align_bowtie2/test.yml
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@ -5,14 +5,14 @@
- subworkflows/bam_sort_samtools - subworkflows/bam_sort_samtools
- subworkflows/bam_stats_samtools - subworkflows/bam_stats_samtools
# Modules # Modules
- bowtie2 # - bowtie2
- bowtie2/align # - bowtie2/align
- samtools # - samtools
- samtools/index # - samtools/index
- samtools/sort # - samtools/sort
- samtools/stats # - samtools/stats
- samtools/idxstats # - samtools/idxstats
- samtools/flagstat # - samtools/flagstat
files: files:
- path: ./output/bowtie2/test.bam - path: ./output/bowtie2/test.bam
- path: ./output/bowtie2/test.bowtie2.log - path: ./output/bowtie2/test.bowtie2.log
@ -46,14 +46,14 @@
- subworkflows/bam_sort_samtools - subworkflows/bam_sort_samtools
- subworkflows/bam_stats_samtools - subworkflows/bam_stats_samtools
# Modules # Modules
- bowtie2 # - bowtie2
- bowtie2/align # - bowtie2/align
- samtools # - samtools
- samtools/index # - samtools/index
- samtools/sort # - samtools/sort
- samtools/stats # - samtools/stats
- samtools/idxstats # - samtools/idxstats
- samtools/flagstat # - samtools/flagstat
files: files:
- path: ./output/bowtie2/test.bam - path: ./output/bowtie2/test.bam
- path: ./output/bowtie2/test.bowtie2.log - path: ./output/bowtie2/test.bowtie2.log