Add --dry-run option which runs classify and haplotype only up to the point where constellation files have been parsed.
Fix bug in haplotype where 2 open file handles were trying to write the same data to the same file
Exit rather than ignore if mutations specified with --mutations are not in an acceptable format
Add
--dry-runoption which runsclassifyandhaplotypeonly up to the point where constellation files have been parsed. Fix bug inhaplotypewhere 2 open file handles were trying to write the same data to the same file Exit rather than ignore if mutations specified with--mutationsare not in an acceptable format