Clair3 1.0.4 from bioconda does not write out INFO/END header

HKU-BAL / Clair3

Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling

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Clair3 1.0.4 from bioconda does not write out INFO/END header #209

Closed holtgrewe closed 1 year ago

holtgrewe commented 1 year ago

The clair3 package in version 1.0.4 from bioconda does not write tout the header from INFO/END. Consequently, gCNV merging/calling using GATK fails.

holtgrewe commented 1 year ago

The same appears to be true for FORMAT/MIN_DP.

zhengzhenxian commented 1 year ago

@holtgrewe,

Thanks for reporting the issue. We have updated the bioconda package with the issue fixed, pls try to re-install the conda environment.