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Canvas - Copy number variant (CNV) calling from DNA sequencing data
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Germline-WGS:ERROR: Either option sample-b-allele-vcf or option population-b-allele-vcf must be specified #131

Closed zhaoxia-genedock closed 5 years ago

zhaoxia-genedock commented 5 years ago

hi, I am running:

Canvas Germline-WGS --bam bam/iw163.bam --sample-name 163 --output out --reference hg19/ucsc.hg19.fasta --population-b-allele-vcf dbsnp.vcf --genome-folder hg19/ --filter-bed filter13.bed 2019-09-02T03:25:36+00:00, 2019-09-02T03:25:36+00:00,Running checkpoint 01: Validate input 2019-09-02T03:25:36+00:00,ERROR: Either option sample-b-allele-vcf or option population-b-allele-vcf must be specified 2019-09-02T03:25:36+00:00,ERROR: 2019-09-02T03:25:36+00:00,ERROR: Canvas 1.39.0.1598+master Copyright © Illumina 2018

Any idea please ? Thanks a lot in advance. Best, --ZX

eroller commented 5 years ago

Try SmallPedigree-WGS instead of Germline-WGS. Germline-WGS has been deprecated.