How can I check the I/O of GATK?
I wanna optimize GATK with Hadoop.
GATK internally support MapReduce framework. So I wanna change framework in I/O process.
For changing framework, I'll try to analyze the source. But I exactly know the I/O process.
/BiO/tool/GenomeAnalysisTK-1.6-5-g557da77/o/org/broadinstitute/sting/gatk/io Path is right?
How compose the IO process??