start work on genotype comparator
start work on genotype comparator
Merge branch 'devel' of github.com:/genome/joinx into devel
add combineRefAlleles function to RawVariant
remove execute method from processors/MergeSorted

this guy probably needs to get moved out of processors soon.

also, there's more fancy stuff to reduce the number of template params
(if we invent and specialize a value_type_for<StreamOrStreamPtr> doodad)
use streampump in vcf-merge
set source index on vcf headers in openVcfs
add default constructor to RawVariant
add vcf-compare-gt command
add integerToBinary (string) function
update build common (includes cairomm now)
add venn diagram drawing to vcf-compare-gt
add support for venn diagrams with 2 sets
cmdline validation for vcf-compare-gt
reverse order of column names in vcf-compare-gt

the output rows are binary like 0 0 1, 0 1 0, 0 1 1, ...
the value 1 actually corresponds to the first file, so the last column
refers to the first file.
remove graphics lib
add isFiltered method to vcf entry.
add allButSamplesToStream to vcf entry

prints everything but sample data
SampleData class updates:

1) use hash instead of tree for caching genotypes
2) add "appendFormatField / appendFormatFieldIfNotExists"
3) add sampleToStream to print a single sample
test allButSamplesToStream (Vcf entry)