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Improved kbtools/count (#1884)

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* Improved kbtools/count

* Update test.yml

removing TODO statements

* Update main.nf

Co-authored-by: Felipe Marques de Almeida <almeidafmarques@gmail.com>
This commit is contained in:
Alexander Peltzer 2022-07-14 14:27:56 +02:00 committed by GitHub
parent c29b3fe11a
commit 013035eb5c
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GPG key ID: 4AEE18F83AFDEB23
2 changed files with 2 additions and 2 deletions
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1
modules/kallistobustools/count/main.nf
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@ -18,6 +18,7 @@ process KALLISTOBUSTOOLS_COUNT {
output: output:
tuple val(meta), path ("*.count"), emit: count tuple val(meta), path ("*.count"), emit: count
path "versions.yml" , emit: versions path "versions.yml" , emit: versions
path "*.count/*/*.mtx" , emit: matrix //Ensure that kallisto finished and produced outputs
when: when:
task.ext.when == null || task.ext.when task.ext.when == null || task.ext.when

3
tests/modules/kallistobustools/count/test.yml
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@ -1,8 +1,8 @@
- name: kallistobustools count test_kallistobustools_count - name: kallistobustools count test_kallistobustools_count
command: nextflow run ./tests/modules/kallistobustools/count -entry test_kallistobustools_count -c ./tests/config/nextflow.config -c ./tests/modules/kallistobustools/count/nextflow.config command: nextflow run ./tests/modules/kallistobustools/count -entry test_kallistobustools_count -c ./tests/config/nextflow.config -c ./tests/modules/kallistobustools/count/nextflow.config
tags: tags:
- kallistobustools
- kallistobustools/count - kallistobustools/count
- kallistobustools
files: files:
- path: output/kallistobustools/cdna.fa - path: output/kallistobustools/cdna.fa
- path: output/kallistobustools/kb_ref_out.idx - path: output/kallistobustools/kb_ref_out.idx
@ -25,7 +25,6 @@
md5sum: b853330f160e06fc8af170a837384ef5 md5sum: b853330f160e06fc8af170a837384ef5
- path: output/kallistobustools/test.count/kb_info.json - path: output/kallistobustools/test.count/kb_info.json
- path: output/kallistobustools/test.count/matrix.ec - path: output/kallistobustools/test.count/matrix.ec
md5sum: 44eb94feb333b70cd3e55b6f4c0a43db
- path: output/kallistobustools/test.count/output.bus - path: output/kallistobustools/test.count/output.bus
md5sum: f5d8efa83f107826824292cbbdb4e37b md5sum: f5d8efa83f107826824292cbbdb4e37b
- path: output/kallistobustools/test.count/output.unfiltered.bus - path: output/kallistobustools/test.count/output.unfiltered.bus