72 lines
3.9 KiB
C
72 lines
3.9 KiB
C
/* DO NOT EDIT THIS FILE - it is machine generated */
|
|
#include <jni.h>
|
|
/* Header for class org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM */
|
|
|
|
#ifndef _Included_org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM
|
|
#define _Included_org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM
|
|
#ifdef __cplusplus
|
|
extern "C" {
|
|
#endif
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_TRISTATE_CORRECTION
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_TRISTATE_CORRECTION 3.0
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_matchToMatch
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_matchToMatch 0L
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_indelToMatch
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_indelToMatch 1L
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_matchToInsertion
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_matchToInsertion 2L
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_insertionToInsertion
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_insertionToInsertion 3L
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_matchToDeletion
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_matchToDeletion 4L
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_deletionToDeletion
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_deletionToDeletion 5L
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_debug
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_debug 0L
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_verify
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_verify 0L
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_debug0_1
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_debug0_1 0L
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_debug1
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_debug1 0L
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_debug2
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_debug2 0L
|
|
#undef org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_debug3
|
|
#define org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_debug3 0L
|
|
/*
|
|
* Class: org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM
|
|
* Method: jniInitialize
|
|
* Signature: (II)V
|
|
*/
|
|
JNIEXPORT void JNICALL Java_org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_jniInitialize
|
|
(JNIEnv *, jobject, jint, jint);
|
|
|
|
/*
|
|
* Class: org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM
|
|
* Method: jniInitializeProbabilities
|
|
* Signature: ([[D[B[B[B)V
|
|
*/
|
|
JNIEXPORT void JNICALL Java_org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_jniInitializeProbabilities
|
|
(JNIEnv *, jclass, jobjectArray, jbyteArray, jbyteArray, jbyteArray);
|
|
|
|
/*
|
|
* Class: org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM
|
|
* Method: jniInitializePriorsAndUpdateCells
|
|
* Signature: (ZII[B[B[BI)D
|
|
*/
|
|
JNIEXPORT jdouble JNICALL Java_org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_jniInitializePriorsAndUpdateCells
|
|
(JNIEnv *, jobject, jboolean, jint, jint, jbyteArray, jbyteArray, jbyteArray, jint);
|
|
|
|
/*
|
|
* Class: org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM
|
|
* Method: jniSubComputeReadLikelihoodGivenHaplotypeLog10
|
|
* Signature: (II[B[B[B[B[B[BI)D
|
|
*/
|
|
JNIEXPORT jdouble JNICALL Java_org_broadinstitute_sting_utils_pairhmm_DebugJNILoglessPairHMM_jniSubComputeReadLikelihoodGivenHaplotypeLog10
|
|
(JNIEnv *, jobject, jint, jint, jbyteArray, jbyteArray, jbyteArray, jbyteArray, jbyteArray, jbyteArray, jint);
|
|
|
|
#ifdef __cplusplus
|
|
}
|
|
#endif
|
|
#endif
|