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add PE sorted test

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This commit is contained in:
Matthias De Smet 2022-05-13 19:16:50 +02:00
parent 04f82d4d34
commit 5a2e303522
1 changed files with 16 additions and 0 deletions
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16
tests/modules/bowtie2/align/main.nf
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@ -51,6 +51,22 @@ workflow test_bowtie2_align_paired_end {
BOWTIE2_ALIGN ( input, BOWTIE2_BUILD.out.index, save_unaligned, sort ) BOWTIE2_ALIGN ( input, BOWTIE2_BUILD.out.index, save_unaligned, sort )
} }
workflow test_bowtie2_align_paired_end_sorted {
input = [
[ id:'test', single_end:false ], // meta map
[
file(params.test_data['sarscov2']['illumina']['test_1_fastq_gz'], checkIfExists: true),
file(params.test_data['sarscov2']['illumina']['test_2_fastq_gz'], checkIfExists: true)
]
]
fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
save_unaligned = false
sort = true
BOWTIE2_BUILD ( fasta )
BOWTIE2_ALIGN ( input, BOWTIE2_BUILD.out.index, save_unaligned, sort )
}
workflow test_bowtie2_align_single_end_large_index { workflow test_bowtie2_align_single_end_large_index {
input = [ input = [
[ id:'test', single_end:true ], // meta map [ id:'test', single_end:true ], // meta map