bumping bam-readcount version to 0.6
bumping bam-readcount version to 0.6
removing errant newline
GMT GATK: with number of threads runs gatk command and stores exit code
InstData Gatk: retry realigner target creator if it fails for seg fault [exit 134]
GMT GATK: update number of threads test
Revert "GMT GATK: with number of threads runs gatk command and stores exit code"

This reverts commit c6fdc4792dec03413dd843bf92aec37f794410f3.

Conflicts:
	lib/perl/Genome/Model/Tools/Gatk/WithNumberOfThreads.t
GMT GATK: remove unless block around shellcmd in with numbers of threads
InstData GATK: capture exit code from realigner target creator
Updated class browser cache.
Updated `genome` tab completion.
Updated `gmt` tab completion.
Remove commented-out code.
Update expected testcase due to new bam-readcount version.
Deduplicate PDF checking.
whitespace
Note that you don't want to overwrite existing test data.
Test::More already tells you the values if they differ.
Move give_me_readcounts.pl into a module.
Replace direct IO::File use with calls to Genome::Sys.