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Illegal argument in garnish_variants #157

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saharlccSCSU opened this issue Nov 17, 2023 · 0 comments
Open

Illegal argument in garnish_variants #157

saharlccSCSU opened this issue Nov 17, 2023 · 0 comments

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@saharlccSCSU
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saharlccSCSU commented Nov 17, 2023 •
edited

Hi,
We are trying to run antigen garnish on a GATK generated vcf. We get the error below when calling garnish_variants(file). Any insights?

All variants processed
Error in stri_replace_all_regex(string, pattern, fix_replacement(replacement), :
Illegal argument. (U_ILLEGAL_ARGUMENT_ERROR)
Calls: garnish_variants ... -> -> stri_replace_all_regex
Execution halted

Thank you,
Sahar
@saharlccSCSU saharlccSCSU changed the title Illegal argument jn garnish_variants Illegal argument in garnish_variants Nov 17, 2023
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