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fix test

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This commit is contained in:
Ramprasad Neethiraj 2022-06-08 14:48:16 +02:00
parent ea4dc866e0
commit c079ee2025
2 changed files with 5 additions and 2 deletions
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3
modules/bcftools/roh/meta.yml
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@ -23,6 +23,9 @@ input:
- af_file: - af_file:
type: file type: file
description: "Read allele frequencies from a tab-delimited file containing the columns: CHROM\tPOS\tREF,ALT\tAF." description: "Read allele frequencies from a tab-delimited file containing the columns: CHROM\tPOS\tREF,ALT\tAF."
- af_file_tbi:
type: file
description: "tbi index of af_file."
- genetic_map: - genetic_map:
type: file type: file
description: "Genetic map in the format required also by IMPUTE2." description: "Genetic map in the format required also by IMPUTE2."

4
tests/modules/bcftools/roh/main.nf
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@ -10,7 +10,7 @@ workflow test_bcftools_roh {
file(params.test_data['sarscov2']['illumina']['test_vcf_gz'], checkIfExists: true), file(params.test_data['sarscov2']['illumina']['test_vcf_gz'], checkIfExists: true),
file(params.test_data['sarscov2']['illumina']['test_vcf_gz_tbi'], checkIfExists: true)] file(params.test_data['sarscov2']['illumina']['test_vcf_gz_tbi'], checkIfExists: true)]
af_file = [] af_file = [[],[]]
gen_map = [] gen_map = []
regions = [] regions = []
targets = [] targets = []
@ -25,7 +25,7 @@ workflow test_bcftools_roh_stub {
file(params.test_data['sarscov2']['illumina']['test_vcf_gz'], checkIfExists: true), file(params.test_data['sarscov2']['illumina']['test_vcf_gz'], checkIfExists: true),
file(params.test_data['sarscov2']['illumina']['test_vcf_gz_tbi'], checkIfExists: true)] file(params.test_data['sarscov2']['illumina']['test_vcf_gz_tbi'], checkIfExists: true)]
af_file = [] af_file = [[],[]]
gen_map = [] gen_map = []
regions = [] regions = []
targets = [] targets = []