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/bd/0523eecc2ed07cb6a58fbafdba6721/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d6/94046fe7be03debaf545fa2f80b76b/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/d6/94046fe7be03debaf545fa2f80b76b/Sig_18_Blood.prefiltered.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f5/a68ecd2abb09f290f5b41355c83314/Sig_18_Blood.tumor_genotyped.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/0523eecc2ed07cb6a58fbafdba6721/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f5/a68ecd2abb09f290f5b41355c83314/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