- name: Run qualimap bamqc test workflow
  command: nextflow run ./tests/software/qualimap/bamqc -entry test_qualimap_bamqc -c tests/config/nextflow.config
  tags:
    - qualimap
    - qualimap_bamqc
  files:
    - path: output/qualimap/test/raw_data_qualimapReport/coverage_across_reference.txt
      md5sum: 0e2ae3deae8adbe6c66db4dadb260c76
    - path: output/qualimap/test/raw_data_qualimapReport/coverage_histogram.txt
      md5sum: 0e9f37aabb761969526f445ed8d3173b
    - path: output/qualimap/test/raw_data_qualimapReport/duplication_rate_histogram.txt
      md5sum: 2299c92a3049270b9d7b1f521cafbb86
    - path: output/qualimap/test/raw_data_qualimapReport/genome_fraction_coverage.txt
      md5sum: 89c8c882c9423fafe03b4fc98e2bfb5a
    - path: output/qualimap/test/raw_data_qualimapReport/insert_size_across_reference.txt
      md5sum: 966230f2bbe796788beac30678597e79
    - path: output/qualimap/test/raw_data_qualimapReport/insert_size_histogram.txt
      md5sum: b3049afc6c3c57c3b278abd66a66a690
    - path: output/qualimap/test/raw_data_qualimapReport/mapped_reads_gc-content_distribution.txt
      md5sum: e9e0189463430b5565ea6da1d5976e40
    - path: output/qualimap/test/raw_data_qualimapReport/mapped_reads_nucleotide_content.txt
      md5sum: fa1566299e1bcd2d65c95b32ae2ca3d1
    - path: output/qualimap/test/raw_data_qualimapReport/mapping_quality_across_reference.txt
      md5sum: 40b6951739a602da545e38a00b698fde
    - path: output/qualimap/test/raw_data_qualimapReport/mapping_quality_histogram.txt
      md5sum: c66579f0114a9aedc70820fa609fb1ec