Added CustomReaderFactory for plugging in external implementations of SamReader capable of getting data from APIs.
running 'execstack -c' on the libIntelDeflater.so to resolve a JVM warning
Merge pull request #112 from samtools/nh_execstack_fix

running 'execstack -c' on the libIntelDeflater.so to resolve a JVM warni...
Merge pull request #98 from iliat/ga4gh-work

First step in adding support for getting Reads data from APIs such as Google Genomics
Fixed bug in setSequenceDictionary where assembly value not being set properly in VCF header