Brad Langhorst

reformat.sh producing output with 4 reads having the same id

I also tried checking out the trunk... I see a commit from a while ago that's looks...

I think you have it clear... i've since switched to a PE aware adapter remover instead...

I should have mentioned versions... i see this in bowtie 2.2.3 and in 2.1.0

invalid reads in unmapped fastq (missing @ symbol)