.command.log - Workdir - NFCORE_SAREK:SAREK:CRAM_SAMPLE_INTEGRITY:CRAM_QC_RECAL:MOSDEPTH (1029_01S-T1-TDNA-1_B23KFCWLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/e4c2ce0f93bfa3ac14f9cd98905c4b/.command.log
Size: 1.3 KB
Task: NFCORE_SAREK:SAREK:CRAM_SAMPLE_INTEGRITY:CRAM_QC_RECAL:MOSDEPTH (1029_01S-T1-TDNA-1_B23KFCWLT4_1)
Attempt

Content

  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260318_LH00519_0070_B23KFCWLT4__d7a6b981--20260320-092016/alignments/recalibrated/1029_01S-T1-TDNA-1_B23KFCWLT4_1/1029_01S-T1-TDNA-1_B23KFCWLT4_1.recalibrated.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/e4c2ce0f93bfa3ac14f9cd98905c4b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/e4c2ce0f93bfa3ac14f9cd98905c4b/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260318_LH00519_0070_B23KFCWLT4__d7a6b981--20260320-092016/alignments/recalibrated/1029_01S-T1-TDNA-1_B23KFCWLT4_1/1029_01S-T1-TDNA-1_B23KFCWLT4_1.recalibrated.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/intervals/altera_intervals/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed
==> STAGING COMPLETE (6 inputs)

[W::hts_idx_load3] The index file is older than the data file: 1029_01S-T1-TDNA-1_B23KFCWLT4_1.recalibrated.bam.bai