- name: lima test_lima_bam
  command: nextflow run ./tests/modules/lima -entry test_lima_bam -c ./tests/config/nextflow.config -c ./tests/modules/lima/nextflow.config
  tags:
    - lima
  files:
    - path: output/lima/test.fl.NEB_5p--NEB_Clontech_3p.bam
      md5sum: 14b51d7f44e30c05a5b14e431a992097
    - path: output/lima/test.fl.NEB_5p--NEB_Clontech_3p.bam.pbi
      md5sum: 6ae7f057304ad17dd9d5f565d72d3f7b
    - path: output/lima/test.fl.NEB_5p--NEB_Clontech_3p.consensusreadset.xml
      contains: [ 'ConsensusReadSet' ]
    - path: output/lima/test.fl.json
      contains: [ 'ConsensusReadSet' ]
    - path: output/lima/test.fl.lima.clips
      md5sum: fa03bc75bd78b2648a139fd67c69208f
    - path: output/lima/test.fl.lima.counts
      md5sum: 842c6a23ca2de504ced4538ad5111da1
    - path: output/lima/test.fl.lima.guess
      md5sum: d3675af3ca8a908ee9e3c231668392d3
    - path: output/lima/test.fl.lima.report
      md5sum: dc073985322ae0a003ccc7e0fa4db5e6
    - path: output/lima/test.fl.lima.summary
      md5sum: bcbcaaaca418bdeb91141c81715ca420

- name: lima test_lima_fa
  command: nextflow run ./tests/modules/lima -entry test_lima_fa -c ./tests/config/nextflow.config -c ./tests/modules/lima/nextflow.config
  tags:
    - lima
  files:
    - path: output/lima/test.fl.lima.clips
      md5sum: 1012bc8874a14836f291bac48e8482a4
    - path: output/lima/test.fl.lima.counts
      md5sum: a4ceaa408be334eaa711577e95f8730e
    - path: output/lima/test.fl.lima.guess
      md5sum: 651e5f2b438b8ceadb3e06a2177e1818
    - path: output/lima/test.fl.lima.report
      md5sum: bd4a8bde17471563cf91aab4c787911d
    - path: output/lima/test.fl.lima.summary
      md5sum: 03be2311ba4afb878d8e547ab38c11eb

- name: lima test_lima_fa_gz
  command: nextflow run ./tests/modules/lima -entry test_lima_fa_gz -c ./tests/config/nextflow.config -c ./tests/modules/lima/nextflow.config
  tags:
    - lima
  files:
    - path: output/lima/test.fl.lima.clips
      md5sum: 1012bc8874a14836f291bac48e8482a4
    - path: output/lima/test.fl.lima.counts
      md5sum: a4ceaa408be334eaa711577e95f8730e
    - path: output/lima/test.fl.lima.guess
      md5sum: 651e5f2b438b8ceadb3e06a2177e1818
    - path: output/lima/test.fl.lima.report
      md5sum: bd4a8bde17471563cf91aab4c787911d
    - path: output/lima/test.fl.lima.summary
      md5sum: 03be2311ba4afb878d8e547ab38c11eb

- name: lima test_lima_fq
  command: nextflow run ./tests/modules/lima -entry test_lima_fq -c ./tests/config/nextflow.config -c ./tests/modules/lima/nextflow.config
  tags:
    - lima
  files:
    - path: output/lima/test.fl.NEB_5p--NEB_Clontech_3p.fastq
      md5sum: ef395f689c5566f501e300bb83d7a5f2
    - path: output/lima/test.fl.lima.clips
      md5sum: 5c16ef8122f6f1798acc30eb8a30828c
    - path: output/lima/test.fl.lima.counts
      md5sum: 767b687e6eda7b24cd0e577f527eb2f0
    - path: output/lima/test.fl.lima.guess
      md5sum: 31b988aab6bda84867e704b9edd8a763
    - path: output/lima/test.fl.lima.report
      md5sum: ad2a9b1eeb4cda4a1f69ef4b7520b5fd
    - path: output/lima/test.fl.lima.summary
      md5sum: e91d3c386aaf4effa63f33ee2eb7da2a

- name: lima test_lima_fq_gz
  command: nextflow run ./tests/modules/lima -entry test_lima_fq_gz -c ./tests/config/nextflow.config -c ./tests/modules/lima/nextflow.config
  tags:
    - lima
  files:
    - path: output/lima/test.fl.NEB_5p--NEB_Clontech_3p.fastq.gz
      md5sum: 32c11db85f69a1b4454b6bbd794b6df2
    - path: output/lima/test.fl.lima.clips
      md5sum: 5c16ef8122f6f1798acc30eb8a30828c
    - path: output/lima/test.fl.lima.counts
      md5sum: 767b687e6eda7b24cd0e577f527eb2f0
    - path: output/lima/test.fl.lima.guess
      md5sum: 31b988aab6bda84867e704b9edd8a763
    - path: output/lima/test.fl.lima.report
      md5sum: ad2a9b1eeb4cda4a1f69ef4b7520b5fd
    - path: output/lima/test.fl.lima.summary
      md5sum: e91d3c386aaf4effa63f33ee2eb7da2a