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TRGT genotype completes with exit code 0 even if every locus in the input catalog fails due to incorrect format #94

@bw2

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@bw2

When I accidentally passed the wrong BED file to trgt genotype, it completed successfully after outputting an error message for every locus like

....
[ERROR] - Locus processing: Error at BED line 9: Expected 4 fields in the format 'chrom start end info', found 5: chr1	52256	52303
...

I think it would be more intuitive if it ran the validate subcommand internally before starting to genotype.

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