initial commit
add duplication and reading of insertion sequences
progress towards matching insertions
initial attempt at svlen=0
split with ,
urgh, proper equals, this is not C++
add some error handelling
exit on error
avoid having to get the length
actually set the parameter...
Make some files non-necessary
Merge branch 'add-somatic-top-level' of https://github.com/bioinform/varsim into match-ins-and-venter-bed
Fix vcfstats cmd line for truth vcf
Merge pull request #9 from bioinform/add-somatic-top-level

Fix vcfstats cmd line for truth vcf
Merge pull request #10 from bioinform/match-ins-and-venter-bed

Match ins and venter bed
include the deleted reference sequence
Merge branch 'master' of github.com:bioinform/varsim

Conflicts:
	src/main/java/com/binatechnologies/varsim/RandBED2VCF.java
Merge branch 'master' into match-ins-and-venter-bed
use end rather than start/end
coverage wrong