Hello– I'm running phase_common and it is removing all my sites (says that they are multi-allelic) and then exits because there are no variants to phase. This is commit 5cc58e4 (4 Apr 2023). I also have phase_common from commit 1d357ac (2 Feb 2023) compiled and it successfully phases the same vcf. Any idea what's going on here?
Edit: I saw another post with the same problem where you had them post the output of bcftools view -G -H [vcf]. Here are the first few lines of that output (and I can attach the whole file if needed)
Hello– I'm running phase_common and it is removing all my sites (says that they are multi-allelic) and then exits because there are no variants to phase. This is commit 5cc58e4 (4 Apr 2023). I also have phase_common from commit 1d357ac (2 Feb 2023) compiled and it successfully phases the same vcf. Any idea what's going on here?
Edit: I saw another post with the same problem where you had them post the output of
bcftools view -G -H [vcf]
. Here are the first few lines of that output (and I can attach the whole file if needed)