ambig threading to pair2file
unit tests pass with sorted
sorted passed to main
threaded sorted to bam pair func
basic still works. testing sorted path
basic still orks with new config
renamed copy to clone
made new union type
made new union type
made new union type
replaced union with simple bam for now
replaced union with simple bam for now
prev bam returns successfully
added unsorted error
returned bams are valid pairs
sorter works for single mode
removed hash2bam for single case
added error to consume
ambig matcher compiles
pushing prev bams down