Coverage 0 for entire chr when using --by
Hi,
I'm trying to run mosdepth (`mosdepth --threads {threads} -b {input.bed} qc/{wildcards.sample}_{wildcards.seqID}/{wildcards.sample}_{wildcards.seqID} {input.bam}`)  on our new panel and 16/20 samples keep on "losing" a chr. Mosdepth claims the coverage is 0 over all regions on that chromosome, despite `samtools depth` clearly finding a coverage of 100-200x. The chromosome varies between samples but the same sample always loses the same chromosome.

I've tried both v.0.3.2 and v.0.3.1 (quay.io/biocontainers/mosdepth:0.3.2--h01d7912_0 and quay.io/biocontainers/mosdepth:0.3.1--h01d7912_2), with both 1 and 5 threads, always with the same result.

Thanks!