.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (659_gK-T1-TRNA-1_B23MHV2LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/27fb8ef2cd775b9ac9cbcb3e372690/.command.log
Size: 819 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM (659_gK-T1-TRNA-1_B23MHV2LT4_1)
Attempt

Content

  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/27fb8ef2cd775b9ac9cbcb3e372690/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/27fb8ef2cd775b9ac9cbcb3e372690/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/af9d5fb2fd382c84c9bee557f4ba8f/659_gK-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b1/2d7294b1353f85f739be9d302c05a8/659_gK-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

ls: *.sam: No such file or directory
ls: *.csi: No such file or directory
ls: *.crai: No such file or directory