Polaris 2.1 hg38: missing GT and CN info for depth-based calls in HG002

[mgonzalezporta]

I've noticed that depth-based calls are missing GT/CN info for HG002; whilst this info is available for other samples. Would it be possible to add it? Thanks!

gonzalez@gis01$ bcftools view -s NA24385 -f PASS all_merge.vcf.gz | bcftools query -f '%ID %INFO/SOURCE [%GT %CN]\n' | grep depth | head
c1-1 depth_manta_hiseq,depth_canvas_hiseq . .
c1-2 depth_canvas_hiseq . .
c4-1 depth_genome_depth_scan_hiseq . .
c1-3 depth_canvas_hiseq . .
c1-4 depth_manta_hiseq,depth_canvas_hiseq . .
c2-1 depth_manta_hiseq,depth_canvas_hiseq . .
c3-335 depth_CASCv0.2a . .
c1-8 depth_manta_hiseq,depth_canvas_hiseq . .
c2-3 depth_manta_hiseq,depth_canvas_hiseq . .
c1-10 depth_manta_hiseq,depth_canvas_hiseq . .

gonzalez@gis01$ bcftools view -s NA12878 -f PASS all_merge.vcf.gz | bcftools query -f '%ID %INFO/SOURCE [%GT %CN]\n' | grep depth | head
c1-1 depth_manta_hiseq,depth_canvas_hiseq 0/0 2
c1-2 depth_canvas_hiseq 0/0 2
c4-1 depth_genome_depth_scan_hiseq 0/0 2
c1-3 depth_canvas_hiseq . 0
c1-4 depth_manta_hiseq,depth_canvas_hiseq 0/0 2
c2-1 depth_manta_hiseq,depth_canvas_hiseq 0/0 2
c3-335 depth_CASCv0.2a 0/0 2
c1-8 depth_manta_hiseq,depth_canvas_hiseq 0/0 2
c2-3 depth_manta_hiseq,depth_canvas_hiseq 0/0 2
c1-10 depth_manta_hiseq,depth_canvas_hiseq 0/0 2