use consistent column_name
Merge pull request #4 from gatoravi/master

use consistent column_name for SNP and INDEL outputs
make do with archaic memory allocation
indentation
Merge pull request #5 from gatoravi/master

increase memory allocation for number of trios in PED file.
Merge branch 'master' of github.com:denovogear/denovogear
Merged patch from Stephen Clayton <sc13@sanger.ac.uk>
Source: https://github.com/wtsi-hgi/DNG_dev/pull/1.patch
newcaller can now run pileup on bam files
fix problems with bcf-parsing
fix comment
Merge pull request #7 from gatoravi/master

fix issues with bcf parsing.
Merge pull request #6 from reedacartwright/feature/fix_vcf_header_line_issues

Merged patch from Stephen Clayton <sc13@sanger.ac.uk>
Merge pull request #8 from denovogear/master

Merge changes commited to master to develop
work on custom pileup
updated memory pool code
more work on new pileup
more work on pileup
pileup runs without crashing
pileup on read groups is working
added reference processing