File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fe/e5c91e152aae965c6da8b2f9f871a5/.command.log
Size
1.3 KB
Task
NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:TRANSFER_CALLER_AD (HCC1395_BL)
Attempt

Content

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  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fe/e5c91e152aae965c6da8b2f9f871a5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a7/96f946cbce2504cc51cf08e39ceb1e/HCC1395_BL.prefiltered.vcf.gz
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta.fai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/2dd8e7f8b139ae23634c738ada5db5/HCC1395_BL.tumor_genotyped.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/2dd8e7f8b139ae23634c738ada5db5/HCC1395_BL.tumor_genotyped.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a7/96f946cbce2504cc51cf08e39ceb1e/HCC1395_BL.prefiltered.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fe/e5c91e152aae965c6da8b2f9f871a5/.command.run
==> STAGING COMPLETE (8 inputs)

Lines   total/split/joined/realigned/skipped:	0/0/0/0/0
[INFO] Indexing tumor force-call VCF: tumor_norm.vcf.gz
[INFO] Tumor: 0 alleles indexed
[INFO] Processed 254 variants
[INFO] Blood: 254 annotated, 0 missing
[INFO] Tumor: 0 annotated, 254 missing