- name: ultra align test_ultra_align
  command: nextflow run ./tests/modules/ultra/align -entry test_ultra_align -c ./tests/config/nextflow.config  -c ./tests/modules/ultra/align/nextflow.config
  tags:
    - ultra/align
    - ultra
  files:
    - path: output/gffread/genome_sorted.gtf
      md5sum: c0b034860c679a354cd093109ed90437
    - path: output/gunzip/test_hifi.fastq
      md5sum: 20e41c569d5828c1e87337e13a5185d3
    - path: output/ultra/all_splice_pairs_annotations.pickle
    - path: output/ultra/all_splice_sites_annotations.pickle
    - path: output/ultra/chr_to_id.pickle
    - path: output/ultra/database.db
    - path: output/ultra/exon_choordinates_to_id.pickle
    - path: output/ultra/flank_choordinates.pickle
    - path: output/ultra/gene_to_small_segments.pickle
    - path: output/ultra/id_to_chr.pickle
    - path: output/ultra/max_intron_chr.pickle
    - path: output/ultra/parts_to_segments.pickle
    - path: output/ultra/ref_exon_sequences.pickle
    - path: output/ultra/ref_flank_sequences.pickle
    - path: output/ultra/ref_part_sequences.pickle
    - path: output/ultra/ref_segment_sequences.pickle
    - path: output/ultra/refs_id_lengths.pickle
    - path: output/ultra/refs_lengths.pickle
    - path: output/ultra/segment_id_to_choordinates.pickle
    - path: output/ultra/segment_to_gene.pickle
    - path: output/ultra/segment_to_ref.pickle
    - path: output/ultra/splices_to_transcripts.pickle
    - path: output/ultra/test.bam
      md5sum: b34c3631a899ba800602ff07b8183f87
    - path: output/ultra/transcripts_to_splices.pickle