File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/22/db24a14a02a06c9817cbb4d2a4a85a/.command.log
Size
2.9 KB
Task
NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION (aih-tih-sc-487f7f-R1_A23WJ53LT4_1)
Attempt

Content

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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/94d374c8b8b669b7c0ce37dcf441c4/aih-tih-sc-487f7f-R1_A23WJ53LT4_1.FusionInspector.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/00/5f13583f2c39266d5f3126fc8e3caa/aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/22/db24a14a02a06c9817cbb4d2a4a85a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/18/18696cfd2781b7b428a69a4f2a3b8e/aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
  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/22/db24a14a02a06c9817cbb4d2a4a85a/.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: STX16:NPEPL1
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #2: STX16:NPEPL1
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #3: FSIP1:AC013652.1
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-487f7f-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
Done