.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION (tih_rna_sample_00583_B23MVV7LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d8/add344f43c570e776160356e792bf7/.command.log
Size: 10.5 KB
Task: NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION (tih_rna_sample_00583_B23MVV7LT4_1)
Attempt
Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/d5b30b5c555e65f86d396f2b0b819d/tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d8/add344f43c570e776160356e792bf7/.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/8d/08dafc3210e5fda7b1702132a7d3dc/tih_rna_sample_00583_B23MVV7LT4_1.FusionInspector.fusions.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/d8/add344f43c570e776160356e792bf7/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/b724c06212afc95d99568379522bf8/tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
==> 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: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #2: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #3: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #4: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #5: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #6: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #7: STX16:NPEPL1
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #8: STX16:NPEPL1
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #9: STX16:NPEPL1
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #10: TLK2P1:AC110079.1
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #11: GRHL2:NCALD
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #12: PCDHA3:PCDHAC1
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #13: PCDHA3:PCDHAC2
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #14: TLK2:AC240565.1
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #15: SNX16:TRPS1
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #16: AL669831.1:SEPTIN14
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #17: ZNF703:MTSS1
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00583_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Done