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GenomicsDBImport problem to use more than one chromosome as intervals

I Have mapped and called gvcf files with HaplotypeCaller using a genome which chromosomes are defined with ncbi type numbers, i.e., NC_018723.3. When using GenomicsDBImport then, if I use as interval a single chromosome using -L NC_018723.3 the programs runs as expected, but if I specify more than one chromosome using the recommended syntax: -L NC_018723.3,NC_018724.3 then I receive the following error message:
A USER ERROR has occurred: Badly formed genome unclippedLoc: Query interval "NC_018723.3,NC_018724.3" is not valid for this input
How can I specify several chromosomes as intervals when they are named in this way? I tied single quotes but it gave the same error message?

Best Answer


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