Karthik Gururaj 7180c392af 1. Integrated Mohammad's SSE4.2 code, Mustafa's bug fix and code to fix the ... SSE compilation warning. 2. Added code to dynamically select between AVX, SSE4.2 and normal C++ (in that order) 3. Created multiple files to compile with different compilation flags: avx_function_prototypes.cc is compiled with -xAVX while sse_function_instantiations.cc is compiled with -xSSE4.2 flag. 4. Added jniClose() and support in Java (HaplotypeCaller, PairHMMLikelihoodCalculationEngine) to call this function at the end of the program. 5. Removed debug code, kept assertions and profiling in C++ 6. Disabled OpenMP for now.		2014-01-20 08:03:42 -08:00
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config	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
src	1. Integrated Mohammad's SSE4.2 code, Mustafa's bug fix and code to fix the	2014-01-20 08:03:42 -08:00
test	Write a new tool for spliting reads that have N cigar string.	2014-01-01 22:21:36 -05:00