iVar variants inconsistency

[gianfilippo]

Describe the bug
iVar variants seem to show some inconsistency between -m 0 (default) and -m 10.
When called with -m 10 it calls a variant that is not called when using -m 0

To Reproduce
samtools mpileup -A -d 0 -Q 0 $BAM | ivar variants -p test0_variants -q 20 -t 0.1 -r $reference_genome
samtools mpileup -A -d 0 -Q 0 $BAM | ivar variants -p test10_variants -q 20 -t 0.1 -m 10 -r $reference_genome

Expected behavior
I may be wrong, but I would expect more PASS calls in the -m 0
Actually, probably this is not correct. I should rather say that I would NOT expect more PASS calls in the -m 10

[gkarthik]

Depending on the number of low quality variants, this would be hard to judge. Any chance you could please provide me with a sample file that I can test? Thanks!

[gianfilippo]

sorry about the delay. I will upload a sample as soon as possible