ksamuk/pixy

Hello, While running the pixy software after converting vcf file with invariant sites using bcftools, I am getting the following error:UnicodeDecodeError: 'utf-8' codec cant decode byte 0x8b in position 1: invalid start byte; Could you please help me to resolve this error?

kanikaghildiyal opened this issue · 4 comments

kanikaghildiyal commented
Hello, While running the pixy software after converting vcf file with invariant sites using bcftools, I am getting the following error:UnicodeDecodeError: 'utf-8' codec cant decode byte 0x8b in position 1: invalid start byte; Could you please help me to resolve this error?
ksamuk commented

Hi there, pixy currently doesn't support sample or chromosome/contig names with special characters, particularly semi-colons, commas, or letters with accent characters etc. We are hoping to resolve this in a future release. In the meantime, the solution is to simplify your sample or chromosome/contig names before running pixy.

kanikaghildiyal commented
ksamuk commented

Hi, unfortunately, pixy doesn't have support for this type of dataset at the moment, so you'll have to wait until we fully address this issue in a later release.

amanda128891 commented

Hi there,

I know you closed this issue but I just ran into the same problem. I'm going to try to rework the sample names in my VCF but if this issue could be addressed that would make things a lot easier!

Thanks,
-Amanda