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Update module: bamtools/split (#885)

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* 👌 IMPROVE: Add some pacbio test files

* 🐛 FIX: Add Pacbio index to test_data.config

* 👌 IMPROVE: Re add 10000 data test

* 👌 IMPROVE: Add some pbindex

* 🐛 FIX: Add pbi extension to files

* 📦 NEW: Add galgal6 chr30 test data

* 📦 NEW: Add bamtools module

* 👌 IMPROVE: Ignore test data

* 👌 IMPROVE: Update to last templates version

* 👌 IMPROVE: Update module to last template version

* 👌 IMPROVE: Update module to last template version

* 👌 IMPROVE: Final version of test datasets config

* 👌 IMPROVE: Remove useless index + Fix Typos

* 👌 IMPROVE: Add some pacbio test files

* 🐛 FIX: Add Pacbio index to test_data.config

* 👌 IMPROVE: Re add 10000 data test

* 👌 IMPROVE: Add some pbindex

* 🐛 FIX: Add pbi extension to files

* 📦 NEW: Add galgal6 chr30 test data

* 📦 NEW: Add bamtools module

* 👌 IMPROVE: Ignore test data

* 👌 IMPROVE: Update to last templates version

* 👌 IMPROVE: Update module to last template version

* 👌 IMPROVE: Update module to last template version

* 👌 IMPROVE: Final version of test datasets config

* 👌 IMPROVE: Remove useless index + Fix Typos

* 👌 IMPROVE: Update with new versions.yml file

* 🐛 FIX: Update meta.yml + correct typos

* Update modules/bamtools/split/meta.yml

Add bam, split, chunk tags

Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>

* 🐛 FIX: Correct meta.yml

* 🐛 FIX: Grab software name using ${getSoftwareName(task.process)}

* 🐛 FIX: Update test.yml

Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
This commit is contained in:
Sébastien Guizard 2021-10-23 19:39:27 +01:00 committed by GitHub
parent 3c8ca3fec4
commit 0a5ddd0ad0
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2 changed files with 5 additions and 5 deletions
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2
modules/bamtools/split/main.nf
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@ -35,7 +35,7 @@ process BAMTOOLS_SPLIT {
cat <<-END_VERSIONS > versions.yml cat <<-END_VERSIONS > versions.yml
${getProcessName(task.process)}: ${getProcessName(task.process)}:
bamtools: \$( bamtools --version | grep -e 'bamtools' | sed 's/^.*bamtools //' ) ${getSoftwareName(task.process)}: \$( bamtools --version | grep -e 'bamtools' | sed 's/^.*bamtools //' )
END_VERSIONS END_VERSIONS
""" """
} }

8
tests/modules/bamtools/split/test.yml
View file

@ -1,10 +1,10 @@
- name: bamtools split test_bamtools_split - name: bamtools split test_bamtools_split
command: nextflow run tests/modules/bamtools/split -entry test_bamtools_split -c tests/config/nextflow.config command: nextflow run tests/modules/bamtools/split -entry test_bamtools_split -c tests/config/nextflow.config
tags: tags:
- bamtools
- bamtools/split - bamtools/split
- bamtools
files: files:
- path: output/bamtools/test.paired_end.sorted.REF_chr22:16570000-16610000.bam - path: output/bamtools/test.paired_end.sorted.REF_chr22.bam
md5sum: 256535b9a3ab5864be0f7dea2218d159 md5sum: b7dc50e0edf9c6bfc2e3b0e6d074dc07
- path: output/bamtools/test.paired_end.sorted.REF_unmapped.bam - path: output/bamtools/test.paired_end.sorted.REF_unmapped.bam
md5sum: 568e058d871d8bc319330360bcae4e43 md5sum: e0754bf72c51543b2d745d96537035fb