Hi,
First, thank you for providing this tool that would be of great service to me.
I was surprised by some of the errors. Here is my perspective:
Error: Info field value is not a comma-separated list of valid strings (maybe it contains whitespaces?).
There are spaces in my input VCF's INFO fields but they have been allowed in the values of INFO fields since VCF specification 4.3
Error: Info key is not a sequence of alphanumeric and/or punctuation characters.
Error: Format is not a colon-separated list of alphanumeric strings.
Those errors seem to be triggered by the presence of underscores in my INFO and FORMAT keys, but both are allowed by the VCF specification: keys must match the regular expression ^([A-Za-z_][0-9A-Za-z_.]*|1000G)$
Is there anything I am misunderstanding here either in the specification or the error message?
I am using vcf_validator version 0.10.2 ; installed through bioconda.
Best regards,
Hi,
First, thank you for providing this tool that would be of great service to me.
I was surprised by some of the errors. Here is my perspective:
There are spaces in my input VCF's INFO fields but they have been allowed in the values of INFO fields since VCF specification 4.3
Those errors seem to be triggered by the presence of underscores in my INFO and FORMAT keys, but both are allowed by the VCF specification: keys must match the regular expression ^([A-Za-z_][0-9A-Za-z_.]*|1000G)$
Is there anything I am misunderstanding here either in the specification or the error message?
I am using vcf_validator version 0.10.2 ; installed through bioconda.
Best regards,