.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION (tih_rna_sample_00090_23H5VFLT4_s32)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/36/5cd6779ebf41145bed946dc66d9d0c/.command.log
Size: 10.1 KB
Task: NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION (tih_rna_sample_00090_23H5VFLT4_s32)
Attempt
Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/36/5cd6779ebf41145bed946dc66d9d0c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/94/77bc9fbe086b5f96aead23d671d97b/tih_rna_sample_00090_23H5VFLT4_s32.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-rnd-pltf-dev-nextflow-scratch-01/work/4a/038f07b772c0eb1b53f89edbec8dfd/tih_rna_sample_00090_23H5VFLT4_s32.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/36/5cd6779ebf41145bed946dc66d9d0c/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/83/0c870e2a2227a10d86d83776e1845b/tih_rna_sample_00090_23H5VFLT4_s32.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: CDH1:TANGO6
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #2: CDH1:TANGO6
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #3: ABHD12:NINL
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #4: ABHD12:NINL
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.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_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.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_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #7: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #8: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #9: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #10: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #11: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #12: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #13: STX16:NPEPL1
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #14: PCDHA11:PCDHAC1
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #15: PCDHA11:PCDHAC2
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #16: SH3YL1:FAM110C
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00090_23H5VFLT4_s32.Aligned.sortedByCoord.out.bam.bai
Done