Hi, our variant catalog contains OfftargetRegions on alternate contigs, e.g. "chr4_KI270790v1_alt:200469-201085" ExpansionHunter works without issues and i get a valid vcf-file. When starting REviewer with the exact same assembly reference and catalog, i get the error: `[error] Invalid contig name chr4_KI270790v1_alt` Removing all alt. contigs from the catalog results in the error: `[error] Failed to extract reads from the specified region` This is the catalog file: [variant_catalog_gnomAD_with_offtargets.GRCh38_202306.json](https://github.com/Illumina/REViewer/files/13841100/variant_catalog_gnomAD_with_offtargets.GRCh38_202306.json)
Hi,
our variant catalog contains OfftargetRegions on alternate contigs, e.g. "chr4_KI270790v1_alt:200469-201085"
ExpansionHunter works without issues and i get a valid vcf-file.
When starting REviewer with the exact same assembly reference and catalog, i get the error:
[error] Invalid contig name chr4_KI270790v1_altRemoving all alt. contigs from the catalog results in the error:
[error] Failed to extract reads from the specified regionThis is the catalog file: variant_catalog_gnomAD_with_offtargets.GRCh38_202306.json