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Update cat module (#1469)
* fix cat stub * add test * commit suggestions Co-authored-by: Jose Espinosa-Carrasco <kadomu@gmail.com>
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2 changed files with 42 additions and 0 deletions
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@ -49,6 +49,8 @@ process CAT_CAT {
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"""
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stub:
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def file_list = files_in.collect { it.toString() }
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prefix = task.ext.prefix ?: "${meta.id}${file_list[0].substring(file_list[0].lastIndexOf('.'))}"
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"""
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touch $prefix
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@ -7,6 +7,14 @@
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- path: output/cat/test.fasta
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md5sum: f44b33a0e441ad58b2d3700270e2dbe2
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- name: cat unzipped unzipped stub
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command: nextflow run ./tests/modules/cat/cat -entry test_cat_unzipped_unzipped -c ./tests/config/nextflow.config -c ./tests/modules/cat/cat/nextflow.config -stub-run
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tags:
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- cat
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- cat/cat
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files:
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- path: output/cat/test.fasta
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- name: cat zipped zipped
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command: nextflow run ./tests/modules/cat/cat -entry test_cat_zipped_zipped -c ./tests/config/nextflow.config -c ./tests/modules/cat/cat/nextflow.config
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tags:
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@ -15,6 +23,14 @@
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files:
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- path: output/cat/test.gz
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- name: cat zipped zipped stub
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command: nextflow run ./tests/modules/cat/cat -entry test_cat_zipped_zipped -c ./tests/config/nextflow.config -c ./tests/modules/cat/cat/nextflow.config -stub-run
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tags:
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- cat
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- cat/cat
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files:
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- path: output/cat/test.gz
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- name: cat zipped unzipped
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command: nextflow run ./tests/modules/cat/cat -entry test_cat_zipped_unzipped -c ./tests/config/nextflow.config -c ./tests/modules/cat/cat/nextflow.config
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tags:
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@ -24,6 +40,14 @@
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- path: output/cat/cat.txt
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md5sum: c439d3b60e7bc03e8802a451a0d9a5d9
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- name: cat zipped unzipped stub
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command: nextflow run ./tests/modules/cat/cat -entry test_cat_zipped_unzipped -c ./tests/config/nextflow.config -c ./tests/modules/cat/cat/nextflow.config -stub-run
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tags:
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- cat
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- cat/cat
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files:
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- path: output/cat/cat.txt
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- name: cat unzipped zipped
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command: nextflow run ./tests/modules/cat/cat -entry test_cat_unzipped_zipped -c ./tests/config/nextflow.config -c ./tests/modules/cat/cat/nextflow.config
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tags:
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@ -32,6 +56,14 @@
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files:
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- path: output/cat/cat.txt.gz
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- name: cat unzipped zipped stub
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command: nextflow run ./tests/modules/cat/cat -entry test_cat_unzipped_zipped -c ./tests/config/nextflow.config -c ./tests/modules/cat/cat/nextflow.config -stub-run
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tags:
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- cat
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- cat/cat
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files:
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- path: output/cat/cat.txt.gz
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- name: cat one file unzipped zipped
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command: nextflow run ./tests/modules/cat/cat -entry test_cat_one_file_unzipped_zipped -c ./tests/config/nextflow.config -c ./tests/modules/cat/cat/nextflow.config
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tags:
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@ -39,3 +71,11 @@
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- cat/cat
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files:
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- path: output/cat/cat.txt.gz
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- name: cat one file unzipped zipped stub
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command: nextflow run ./tests/modules/cat/cat -entry test_cat_one_file_unzipped_zipped -c ./tests/config/nextflow.config -c ./tests/modules/cat/cat/nextflow.config -stub-run
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tags:
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- cat
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- cat/cat
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files:
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- path: output/cat/cat.txt.gz
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