File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/72/ef442233dc3604bde152e41a693863/.command.log
Size
2.9 KB
Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION (aih-tih-sc-13a2f6-R1_B23WHYVLT4_1)
Attempt

Content

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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/93/21cf7077b2ac62de218338996269e8/aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.FusionInspector.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/72/ef442233dc3604bde152e41a693863/.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/d6/465b1127a57e0c5a7890d88dbc1e6a/aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam
  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/72/ef442233dc3604bde152e41a693863/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8d/28ab5e6267b7dc6a6f85aaca6d24cb/aih-tih-sc-13a2f6-R1_B23WHYVLT4_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: TLK2P1:AC110079.1
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #2: RSBN1:PTPN22
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #3: RUNX1:EPM2A
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-13a2f6-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
Done