Merge commit 'upstream/master'
merged in lowtag to most recent ctb khmer
Merge branch 'lowtag'
fixed stupid but in sodd filtering
sodd, redux
fixed 3rd argument in filter-sodd; eliminate N-containing seqs
Merge branch 'master' into lowtag
fixed tests for lower-memory tagging
Merge branch 'master' into adina
added fastq iter to ThreadedSequenceProcessor
added support for weird dray fastq format
fixed sodd stuff once and for all
made filter-sodd equivalent to split-fasta-on-circum3
made running split-fasta-on-circum3 more like filter-sodd
tests for sodd filtering
adding contig-coverage script
added printout at end of ThreadedSequenceProcessor
added density explosion filtering script
revise density explosion script to look at more local neighborhoods
added scaffolding option