nf-core_modules/tests/modules/umitools/dedup/test.yml

- name: umitools dedup test_umitools_dedup_no_umi
  command: nextflow run ./tests/modules/umitools/dedup -entry test_umitools_dedup_no_umi -c ./tests/config/nextflow.config  -c ./tests/modules/umitools/dedup/nextflow.config
  tags:
    - umitools/dedup
    - umitools
  files:
    - path: output/umitools/test.dedup.bam

- name: umitools dedup test_umitools_dedup_single_end_no_stats
  command: nextflow run ./tests/modules/umitools/dedup -entry test_umitools_dedup_single_end_no_stats -c ./tests/config/nextflow.config  -c ./tests/modules/umitools/dedup/nextflow.config
  tags:
    - umitools/dedup
    - umitools
  files:
    - path: output/bwa/bwa/genome.amb
      md5sum: 3a68b8b2287e07dd3f5f95f4344ba76e
    - path: output/bwa/bwa/genome.ann
      md5sum: c32e11f6c859f166c7525a9c1d583567
    - path: output/bwa/bwa/genome.bwt
      md5sum: 0469c30a1e239dd08f68afe66fde99da
    - path: output/bwa/bwa/genome.pac
      md5sum: 983e3d2cd6f36e2546e6d25a0da78d66
    - path: output/bwa/bwa/genome.sa
      md5sum: ab3952cabf026b48cd3eb5bccbb636d1
    - path: output/bwa/test.bam
      md5sum: 3ecbe569cadb9b6c881917ce60779f75
    - path: output/samtools/test.bam.bai
      md5sum: 095af0ad3921212597ffd7c342ecd5a0
    - path: output/umitools/test.dedup.bam
    - path: output/umitools/test.umi_extract.fastq.gz
    - path: output/umitools/test.umi_extract.log

- name: umitools dedup test_umitools_dedup_paired_end_no_stats
  command: nextflow run ./tests/modules/umitools/dedup -entry test_umitools_dedup_paired_end_no_stats -c ./tests/config/nextflow.config  -c ./tests/modules/umitools/dedup/nextflow.config
  tags:
    - umitools/dedup
    - umitools
  files:
    - path: output/bwa/bwa/genome.amb
      md5sum: 3a68b8b2287e07dd3f5f95f4344ba76e
    - path: output/bwa/bwa/genome.ann
      md5sum: c32e11f6c859f166c7525a9c1d583567
    - path: output/bwa/bwa/genome.bwt
      md5sum: 0469c30a1e239dd08f68afe66fde99da
    - path: output/bwa/bwa/genome.pac
      md5sum: 983e3d2cd6f36e2546e6d25a0da78d66
    - path: output/bwa/bwa/genome.sa
      md5sum: ab3952cabf026b48cd3eb5bccbb636d1
    - path: output/bwa/test.bam
      md5sum: e7dcbac1825bf210409b762dbb4fec8f
    - path: output/samtools/test.bam.bai
      md5sum: f75780d1de7860329b7fb4afeadc4bed
    - path: output/umitools/test.dedup.bam
    - path: output/umitools/test.umi_extract.log
    - path: output/umitools/test.umi_extract_1.fastq.gz
    - path: output/umitools/test.umi_extract_2.fastq.gz

- name: umitools dedup test_umitools_dedup_paired_end_stats
  command: nextflow run ./tests/modules/umitools/dedup -entry test_umitools_dedup_paired_end_stats -c ./tests/config/nextflow.config  -c ./tests/modules/umitools/dedup/nextflow.config
  tags:
    - umitools/dedup
    - umitools
  files:
    - path: output/bwa/bwa/genome.amb
      md5sum: 3a68b8b2287e07dd3f5f95f4344ba76e
    - path: output/bwa/bwa/genome.ann
      md5sum: c32e11f6c859f166c7525a9c1d583567
    - path: output/bwa/bwa/genome.bwt
      md5sum: 0469c30a1e239dd08f68afe66fde99da
    - path: output/bwa/bwa/genome.pac
      md5sum: 983e3d2cd6f36e2546e6d25a0da78d66
    - path: output/bwa/bwa/genome.sa
      md5sum: ab3952cabf026b48cd3eb5bccbb636d1
    - path: output/bwa/test.bam
      md5sum: e7dcbac1825bf210409b762dbb4fec8f
    - path: output/samtools/test.bam.bai
      md5sum: f75780d1de7860329b7fb4afeadc4bed
    - path: output/umitools/test.dedup.bam
    - path: output/umitools/test.dedup_edit_distance.tsv
      md5sum: c247a49b58768e6e2e86a6c08483e612
    - path: output/umitools/test.dedup_per_umi.tsv
      md5sum: 10e35ca37f2bfb521ac6dd7314951a68
    - path: output/umitools/test.dedup_per_umi_per_position.tsv
      md5sum: 2e1a12e6f720510880068deddeefe063
    - path: output/umitools/test.umi_extract.log
    - path: output/umitools/test.umi_extract_1.fastq.gz
    - path: output/umitools/test.umi_extract_2.fastq.gz