File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1b/1cf2f44b6e6ee002ff60e2570756a9/.command.log
Size
1.4 KB
Task
NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:TRANSFER_CALLER_AD (Sig_18_Blood)
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/1b/1cf2f44b6e6ee002ff60e2570756a9/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/79f5a5e6957dbaf9df90752cc6c450/Sig_18_Blood.prefiltered.vcf.gz.tbi
  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/9b/79f5a5e6957dbaf9df90752cc6c450/Sig_18_Blood.prefiltered.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/51/be57227ac524e576a2c2dc88ca37ae/Sig_18_Blood.tumor_genotyped.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1b/1cf2f44b6e6ee002ff60e2570756a9/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/51/be57227ac524e576a2c2dc88ca37ae/Sig_18_Blood.tumor_genotyped.vcf.gz
==> 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 321 variants
[INFO] Blood: 321 annotated, 0 missing
[INFO] Tumor: 0 annotated, 321 missing