Before samtools 2
fixed @bam_a to bam1 in smp_between_bams.rb
Version bump to 0.2.1
Updated the calls for samtools-2
Merge branch 'samtools-2' of http://github.com/tgac/bioruby-polyploid-tools into samtools-2
Fixed gemfile
Some bugfixes for polymarker, using samtools2