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gatk-3.8/public/VectorPairHMM/src/main/c++
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Karthik Gururaj 6e98e9e589 Removed g_haplotype* global variables in native code so that it works 
with multi-threading in Java.
Modified VectorLoglessPairHMM.java so that jniInitializeRegion and
jniFinalizeRegion are empty
 		2014-03-06 22:08:35 -08:00
..
.gitignore Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
LoadTimeInitializer.cc Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
LoadTimeInitializer.h Changed to delete[] where applicable 2014-03-06 12:23:08 -08:00
Makefile Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
Sandbox.cc Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
Sandbox.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
Sandbox.java Removed g_haplotype* global variables in native code so that it works 2014-03-06 22:08:35 -08:00
Sandbox_JNIHaplotypeDataHolderClass.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
Sandbox_JNIReadDataHolderClass.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
avx_function_instantiations.cc Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
baseline.cc Modified delete to delete[] 2014-03-06 11:13:34 -08:00
define-double.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
define-float.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
define-sse-double.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
define-sse-float.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
headers.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
jni_common.h Removed g_haplotype* global variables in native code so that it works 2014-03-06 22:08:35 -08:00
jnidebug.h Changed to delete[] where applicable 2014-03-06 12:23:08 -08:00
org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM.cc Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
org_broadinstitute_sting_utils_pairhmm_VectorLoglessPairHMM.cc Removed g_haplotype* global variables in native code so that it works 2014-03-06 22:08:35 -08:00
org_broadinstitute_sting_utils_pairhmm_VectorLoglessPairHMM.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
pairhmm-1-base.cc Removed g_haplotype* global variables in native code so that it works 2014-03-06 22:08:35 -08:00
pairhmm-template-kernel.cc Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
pairhmm-template-main.cc Changed to delete[] where applicable 2014-03-06 12:23:08 -08:00
run.sh Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
shift_template.c Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
sse_function_instantiations.cc Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
template.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
utils.cc Changed to delete[] where applicable 2014-03-06 12:23:08 -08:00
utils.h Removed g_haplotype* global variables in native code so that it works 2014-03-06 22:08:35 -08:00
vector_defs.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00
vector_function_prototypes.h Added vectorized PairHMM implementation by Mohammad and Mustafa into the Maven build of GATK. 2014-03-05 09:30:29 -08:00