- [ccseq] default dir is cwd
- [ccseq] non-fatal if no ccs reads in chunk
- [ccseq] remove bwa index files
+ [ccseq] only produce and return one consensus for all subreads of on read
+ [util/bwa,proovread,ccseq,proovread.cfg] upgrade to bwa-proovread, which implements the proovread bin-score-filter, adjusted config and calls to bwa to propagate binning related parameters accoringly
- [proovread] fixed wrong ref file in blasr utg-noccs mode