I'm trying to run sarek 3.8.1 using the igenomes G...
# sarek
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I'm trying to run sarek 3.8.1 using the igenomes GATK.GRCh37 However, I get this error:
The following invalid input values have been detected:
* --intervals (<s3://ngi-igenomes/igenomes//Homo_sapiens/GATK/GRCh37/Annotation/intervals/wgs_calling_regions_Sarek.list>): "<s3://ngi-igenomes/igenomes//Homo_sapiens/GATK/GRCh37/Annotation/intervals/wgs_calling_regions_Sarek.list>" does not match regular expression [\S+\.(bed|interval_list)$]
It appears the igenomes default doesn't conform to expected format. What is the recommended set of intervals for WGS in this context?