File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/15/8849ed61b513a4c3c93930b42e7011/.command.log
Size
1.5 KB
Task
NFCORE_RNAFUSION:RNAFUSION:STARFUSION_WORKFLOW:STARFUSION (BT-20_FFPE_RNA_0001_B23LG7FLT4_3)
Attempt

Content

View in new tab 
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/15/8849ed61b513a4c3c93930b42e7011/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/15/8849ed61b513a4c3c93930b42e7011/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8b/22ced9b0dd4f79775e9f05aa9e9770/BT-20_FFPE_RNA_0001_B23LG7FLT4_3_2.fastp.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8b/22ced9b0dd4f79775e9f05aa9e9770/BT-20_FFPE_RNA_0001_B23LG7FLT4_3_1.fastp.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ea/7ae0417ca64cd752e041b073380633/BT-20_FFPE_RNA_0001_B23LG7FLT4_3.Chimeric.out.junction
==> STAGING COMPLETE (6 inputs)

-ctat genome lib [/tmp/nxf.EoBcncEMzr/ctat_genome_lib_build_dir] validates.
CMD: mkdir -p /tmp/nxf.EoBcncEMzr/./_starF_checkpoints
CMD: mkdir -p /tmp/nxf.EoBcncEMzr/./star-fusion.preliminary
-sample contains 81102162 rnaseq fragments
* Running CMD: /usr/local/src/STAR-Fusion/util/STAR-Fusion.map_chimeric_reads_to_genes  --genome_lib_dir /tmp/nxf.EoBcncEMzr/ctat_genome_lib_build_dir  -J /tmp/nxf.EoBcncEMzr/BT-20_FFPE_RNA_0001_B23LG7FLT4_3.Chimeric.out.junction  -O /tmp/nxf.EoBcncEMzr/./star-fusion.preliminary/star-fusion.junction_breakpts_to_genes.txt --CPU 4 
-parsing fusion evidence: /tmp/nxf.EoBcncEMzr/BT-20_FFPE_RNA_0001_B23LG7FLT4_3.Chimeric.out.junction