Mapping Algorythm for short reads (bwa aln & bwa samse) added, to the second mapping algorythm that was being used only in the pipeline up to now (bwa bwasw, initially for shorter reads mainly). See http://bio-bwa.sourceforge.net/bwa.shtml
Mapping Algorythm for short reads (bwa aln & bwa samse) added, to the second mapping algorythm that was being used only in the pipeline up to now (bwa bwasw, initially for shorter reads mainly). See http://bio-bwa.sourceforge.net/bwa.shtml

Former-commit-id: 1db4a281ca59cbac9d772f47203c4e9ead516e3c
xavidp/bpeva