Added perl module dependencies.
Ignored files generated by build process.
Added a dependency used for testing.
correct last helper command set to use env variable
Merge pull request #6 from tonydebat/master

Specified Perl Module Dependencies
Merge branch 'master' of https://github.com/keiranmraine/ICGC-TCGA-PCAP
expanded tests and test coverage
apparent whitespace difference
documentation updates
Addition of automatic build process for all C and perl dependencies
missed a file for cleanup
minor edit to remove un-needed flag correction when working on bwa mem output
make sure installation area is cleaned as persists between partial installs and messes up manifest
bwa_mem.pl missing from installation
fixed #8 and added code to generate a bash script to handle automation of GNOS upload with resume capabilities.
generated docs update for recent changes
Packaging release 0.1.0
Fixed #9, now create empty unwritable folder in test
Update version for re-release fixing test case
force execution with specified perl binary
fixed #10, just needed qq around variable