Add a method to attempt at resolving the build and LSF job responsible for the creation of the software result.
Merge branch 'master' of ssh://git/srv/git/genome
Merge branch 'master' of ssh://git/srv/git/genome
Merge branch 'master' of ssh://git/srv/git/genome
Merge branch 'master' of ssh://git/srv/git/genome
Merge branch 'master' of ssh://git/srv/git/genome
Merge branch 'master' of ssh://git/srv/git/genome
allow annoFileToSlashedBedFile subroutine to take a custom output file name
Added tests for bed file conversion subroutines
Add output file parameter to addTiering subroutine
Add test coverage for conversion and tiering subroutines
move tiering file to test data folder
Added test around annoFileToSlashedBedFile subroutine
wrote test around doAnnotation
added somatic variation model as param

added somatic_variation_model as attribute to make error checking easier
streamlined input parameter check
updated formatting

- fixed indentation
- fixed various other spacing issues
- fixed errors to use die instead of return undef
replace mkdir system calls with Genome::Sys->create_directory
replaced ln -s system call with Genome::Sys->create_symlink
changed Genome::Sys::tar to take an options parameter
change tar  calls to use Genome::Sys::tar and absolute paths