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Hi there,
Just trying out pggb with singularity
There is a recommended command to run singularity on some test data but it errors out
singularity run -B ${PWD}/data:/data ../pggb_latest.sif pggb -i /data/HLA/DRB1-3123.fa.gz -n 12 -t 16 -V 'gi|568815561' -o /data/out
[pggb] warning: there are sequence names (like 'gi|568815592:32578768-32589835') that do not match the Pangenome Sequence Naming (PanSN).
[pggb] ERROR: -V/--vcf-spec cannot be used if the Pangenome Sequence Naming (PanSN) is not respected.
Simple fix is probably to remove -V part of the command (presumably -V 'gi|568815561')
Could also be interesting to get that -V part of the command working though
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