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tests: add input to test_data.config

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This commit is contained in:
Lucas Taniguti 2022-06-08 08:10:25 -03:00
parent d5e077a2e9
commit f26979c44e
2 changed files with 3 additions and 2 deletions
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2
tests/config/test_data.config
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@ -328,6 +328,8 @@ params {
test_rnaseq_vcf = "${test_data_dir}/genomics/homo_sapiens/illumina/vcf/test.rnaseq.vcf" test_rnaseq_vcf = "${test_data_dir}/genomics/homo_sapiens/illumina/vcf/test.rnaseq.vcf"
test_sv_vcf = "${test_data_dir}/genomics/homo_sapiens/illumina/vcf/sv_query.vcf.gz" test_sv_vcf = "${test_data_dir}/genomics/homo_sapiens/illumina/vcf/sv_query.vcf.gz"
test_mito_vcf = "${test_data_dir}/genomics/homo_sapiens/illumina/vcf/NA12878_chrM.vcf.gz"
test_pytor = "${test_data_dir}/genomics/homo_sapiens/illumina/pytor/test.pytor" test_pytor = "${test_data_dir}/genomics/homo_sapiens/illumina/pytor/test.pytor"
test_flowcell = "${test_data_dir}/genomics/homo_sapiens/illumina/bcl/flowcell.tar.gz" test_flowcell = "${test_data_dir}/genomics/homo_sapiens/illumina/bcl/flowcell.tar.gz"

3
tests/modules/haplocheck/main.nf
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@ -8,8 +8,7 @@ workflow test_haplocheck {
input = [ input = [
[ id:'test' ], // meta map [ id:'test' ], // meta map
// TODO: change to "params.test_data[]" file(params.test_data['homo_sapiens']['illumina']['vcf']['test_mito_vcf'], checkIfExists: true)
file("https://github.com/nf-core/test-datasets/raw/5101234ce48c3eb08adeed922e30a6e57e4fe5fb/testdata/NA12878_chrM.vcf.gz", checkIfExists: true)
] ]
HAPLOCHECK ( input ) HAPLOCHECK ( input )