Adding new bam stats package and tests could do with final integration test
Adding example bas file for testing
Adding basic integration test to testing package
Added metrics for base divergence calculations to Bam::Stats. Added a perl CL executable for Bam::Stats. Modified a number of executables to use correct pod2usage verbosity properly. Updated testData and tests
Merge branch 'master', remote-tracking branch 'upstream/master'
new biobambam with extra features useful for splitting and mn/nm calc
Merge pull request #15 from jwhsanger/master

Divergence Metrics and Executable
Added dependencies for stats code
Modifications for stats that can't be calculated when no mapped data for read group
Updated biobambam version
excluded PCAP::Bam:Stats from new test as requires args
Removed debug
next release will need new biobambam version
Merge pull request #1 from ICGC-TCGA-PanCancer/dev

Bringing changes made by Keiran into this fork
Removed prop_paired header descriptions from the help docs in bam_stats.pl
Merge pull request #17 from jwhsanger/master

Bam_stats.pl help docs correction
Additional dependency
Fixed bug when incorporating data fro *.info file
added some additional dependencies to ensure coverage reports are possible
New version number and upgrade path