.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION (659_cTi-T1-TRNA-1_B23WHTKLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f2/f2551c93112207fcf0a273d55e996d/.command.log
Size: 16.2 KB
Task: NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION (659_cTi-T1-TRNA-1_B23WHTKLT4_1)
Attempt
Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/0281707304675ac77d260ee8a80a87/659_cTi-T1-TRNA-1_B23WHTKLT4_1.FusionInspector.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/e85caf98ee23a09a0c80d541fe28ad/659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f2/f2551c93112207fcf0a273d55e996d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0f/446451d3d89ff3671a2d60ed9f0977/659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/arriba/cytobands_hg38_GRCh38_v2.4.0.tsv
  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/f2/f2551c93112207fcf0a273d55e996d/.command.run
==> 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: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #2: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #3: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #4: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #5: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #6: AC083805.1:TSFM
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #7: AC083805.1:TSFM
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #8: TMEM243:AC020637.1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #9: TMEM243:AC020637.1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #10: TMEM243:AC020637.1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #11: TMEM243:AC020637.1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #12: TMEM243:AC020637.1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #13: SRGAP1:GRIP1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #14: RAP1B:SRGAP1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #15: RAP1B:SRGAP1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #16: RAP1B:SRGAP1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #17: EEF1AKMT3:CTDSP2
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #18: EEF1AKMT3:CTDSP2
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #19: SAV1:SOS2
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #20: TYW1:VKORC1L1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #21: TYW1:VKORC1L1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #22: AC083805.1:EEF1AKMT3
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #23: AC083805.1:EEF1AKMT3
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #24: TLK2P1:AC110079.1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #25: PPP2R3B:TMLHE
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #26: PPP2R3B:TMLHE
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #27: AC020637.1:TMEM243
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #28: KLRC4:KLRK1
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: 659_cTi-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
Done