.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION (RGB_RLP_lowDV_1ststrand_42C_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/24/adfa7dc96813ad3fa165a5cd4ad6d3/.command.log
Size: 17.7 KB
Task: NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION (RGB_RLP_lowDV_1ststrand_42C_1)
Attempt
Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/31/c2c47b304766f298dcbac904dfbe02/RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/24/adfa7dc96813ad3fa165a5cd4ad6d3/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/arriba/cytobands_hg38_GRCh38_v2.4.0.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b4/06ed62ea3460fcd6ddf1fddb3189ad/RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_annot.gtf
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/arriba/protein_domains_hg38_GRCh38_v2.4.0.gff3
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/24/adfa7dc96813ad3fa165a5cd4ad6d3/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0c/bf082e4856c2501251fccffcc2bb0e/RGB_RLP_lowDV_1ststrand_42C_1.FusionInspector.fusions.tsv
==> STAGING COMPLETE (8 inputs)

Loading annotation
Read 3041209 records
Warning in parseGtfAttribute("exon_number", exons) :
  Failed to parse 'exon_number' attribute of 8 record(s).
Loading protein domains
Read 134356 records
Drawing fusion #1: SREBF1:NCOR1
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #2: SRGAP2B:SEC22B3P
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #3: PCDHA6:PCDHAC1
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #4: PCDHA6:PCDHAC2
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #5: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #6: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #7: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #8: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #9: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #10: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #11: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #12: SUZ12P1:AFMID
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #13: SUZ12P1:AFMID
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #14: SUZ12P1:AFMID
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #15: SUZ12P1:AFMID
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #16: TLK2:AC240565.1
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #17: ATP11A:MCF2L
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #18: ATP11A:MCF2L
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #19: ATP11A:MCF2L
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #20: ATP11A:MCF2L
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #21: GTF2I:CLIP2
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #22: METRNL:CTDNEP1
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #23: METRNL:CTDNEP1
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #24: CAB39:ARFIP1
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #25: CAB39:ARFIP1
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #26: CAB39:ARFIP1
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #27: SPATA6:AGBL4
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #28: SPATA6:AGBL4
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #29: ASPH:LINC02842
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #30: ASPH:LINC02842
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #31: STARD13:FLT1
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: RGB_RLP_lowDV_1ststrand_42C_1.Aligned.sortedByCoord.out.bam.bai
Done