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Commit 03e0ba14 authored by Leonardo Solis's avatar Leonardo Solis
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#28, replaced krnl refs: from k3,k4 to krnl_intere, krnl_intrae

parent 2d758e37
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common_xilinx/utility/boards.mk
View file @ 03e0ba14
......@@ -22,8 +22,8 @@ CXXFLAGS:=-Wall -O0 -g -std=c++14 $(OTHER_FLAGS)
# =============================
ENABLE_KRNL_GA = YES
ENABLE_KRNL_CONFORM = YES
ENABLE_K3 = YES
ENABLE_K4 = YES
ENABLE_KRNL_INTERE = YES
ENABLE_KRNL_INTRAE = YES
# Prng kernels
ENABLE_K6 = YES
......@@ -88,16 +88,16 @@ else
KRNL_CONFORM =
endif
ifeq ($(ENABLE_K3),YES)
K3 =-DENABLE_KERNEL3
ifeq ($(ENABLE_KRNL_INTERE),YES)
KRNL_INTERE =-DENABLE_KRNL_INTERE
else
K3 =
KRNL_INTERE =
endif
ifeq ($(ENABLE_K4),YES)
K4 =-DENABLE_KERNEL4
ifeq ($(ENABLE_KRNL_INTRAE),YES)
KRNL_INTRAE =-DENABLE_KRNL_INTRAE
else
K4 =
KRNL_INTRAE =
endif
ifeq ($(ENABLE_K6),YES)
......@@ -249,7 +249,9 @@ else
endif
ENABLE_KERNELS = $(KRNL_GA) \
$(KRNL_CONFORM) \
$(K3) $(K4) $(K6) $(K7) $(K10) \
$(KRNL_INTERE) \
$(KRNL_INTRAE) \
$(K6) $(K7) $(K10) \
$(K12) $(K14) $(K15) $(K20) \
$(K21) $(K27) \
$(K35) $(K36) $(K37) $(K38) $(K39) $(K40) \
......
ofdock_taskpar_xl/host/src/performdocking.cpp
View file @ 03e0ba14
......@@ -53,16 +53,16 @@ static cl_kernel kernel_conform = NULL;
static const char *name_krnl_conform = "Krnl_Conform";
#endif
#ifdef ENABLE_KERNEL3
static cl_command_queue command_queue3 = NULL;
static cl_kernel kernel3 = NULL;
static const char *name_k3 = "Krnl_InterE";
#ifdef ENABLE_KRNL_INTERE
static cl_command_queue command_queue_intere = NULL;
static cl_kernel kernel_intere = NULL;
static const char *name_krnl_intere = "Krnl_InterE";
#endif
#ifdef ENABLE_KERNEL4
static cl_command_queue command_queue4 = NULL;
static cl_kernel kernel4 = NULL;
static const char *name_k4 = "Krnl_IntraE";
#ifdef ENABLE_KRNL_INTRAE
static cl_command_queue command_queue_intrae = NULL;
static cl_kernel kernel_intrae = NULL;
static const char *name_krnl_intrae = "Krnl_IntraE";
#endif
#ifdef ENABLE_KERNEL10
......@@ -926,66 +926,66 @@ printf("%i %i\n", dockpars.num_of_intraE_contributors, myligand_reference.num_of
#endif
#ifdef ENABLE_KERNEL3 // Krnl_InterE
setKernelArg(kernel3,0, sizeof(mem_dockpars_fgrids), &mem_dockpars_fgrids);
#ifdef ENABLE_KRNL_INTERE // Krnl_InterE
setKernelArg(kernel_intere,0, sizeof(mem_dockpars_fgrids), &mem_dockpars_fgrids);
#if defined (FIXED_POINT_INTERE)
setKernelArg(kernel3,1, sizeof(mem_KerConstStatic_fixpt64_atom_charges_const), &mem_KerConstStatic_fixpt64_atom_charges_const);
setKernelArg(kernel_intere,1, sizeof(mem_KerConstStatic_fixpt64_atom_charges_const), &mem_KerConstStatic_fixpt64_atom_charges_const);
#else
setKernelArg(kernel3,1, sizeof(mem_KerConstStatic_InterE_atom_charges_const), &mem_KerConstStatic_InterE_atom_charges_const);
setKernelArg(kernel_intere,1, sizeof(mem_KerConstStatic_InterE_atom_charges_const), &mem_KerConstStatic_InterE_atom_charges_const);
#endif
setKernelArg(kernel3,2, sizeof(mem_KerConstStatic_InterE_atom_types_const), &mem_KerConstStatic_InterE_atom_types_const);
setKernelArg(kernel3,3, sizeof(unsigned char), &dockpars.g1);
setKernelArg(kernel3,4, sizeof(unsigned int), &dockpars.g2);
setKernelArg(kernel3,5, sizeof(unsigned int), &dockpars.g3);
setKernelArg(kernel3,6, sizeof(unsigned char), &dockpars.num_of_atoms);
setKernelArg(kernel_intere,2, sizeof(mem_KerConstStatic_InterE_atom_types_const), &mem_KerConstStatic_InterE_atom_types_const);
setKernelArg(kernel_intere,3, sizeof(unsigned char), &dockpars.g1);
setKernelArg(kernel_intere,4, sizeof(unsigned int), &dockpars.g2);
setKernelArg(kernel_intere,5, sizeof(unsigned int), &dockpars.g3);
setKernelArg(kernel_intere,6, sizeof(unsigned char), &dockpars.num_of_atoms);
#if defined (FIXED_POINT_INTERE)
setKernelArg(kernel3,7, sizeof(unsigned char), &gridsizex_minus1);
setKernelArg(kernel3,8, sizeof(unsigned char), &gridsizey_minus1);
setKernelArg(kernel3,9, sizeof(unsigned char), &gridsizez_minus1);
setKernelArg(kernel_intere,7, sizeof(unsigned char), &gridsizex_minus1);
setKernelArg(kernel_intere,8, sizeof(unsigned char), &gridsizey_minus1);
setKernelArg(kernel_intere,9, sizeof(unsigned char), &gridsizez_minus1);
#else
setKernelArg(kernel3,7, sizeof(float), &fgridsizex_minus1);
setKernelArg(kernel3,8, sizeof(float), &fgridsizey_minus1);
setKernelArg(kernel3,9, sizeof(float), &fgridsizez_minus1);
setKernelArg(kernel_intere,7, sizeof(float), &fgridsizex_minus1);
setKernelArg(kernel_intere,8, sizeof(float), &fgridsizey_minus1);
setKernelArg(kernel_intere,9, sizeof(float), &fgridsizez_minus1);
#endif
#if defined(SEPARATE_FGRID_INTERE)
setKernelArg(kernel3,10, sizeof(mem_dockpars_fgrids2), &mem_dockpars_fgrids2);
setKernelArg(kernel3,11, sizeof(mem_dockpars_fgrids3), &mem_dockpars_fgrids3);
setKernelArg(kernel_intere,10, sizeof(mem_dockpars_fgrids2), &mem_dockpars_fgrids2);
setKernelArg(kernel_intere,11, sizeof(mem_dockpars_fgrids3), &mem_dockpars_fgrids3);
#else
setKernelArg(kernel3,10, sizeof(unsigned int), &mul_tmp2);
setKernelArg(kernel3,11, sizeof(unsigned int), &mul_tmp3);
setKernelArg(kernel_intere,10, sizeof(unsigned int), &mul_tmp2);
setKernelArg(kernel_intere,11, sizeof(unsigned int), &mul_tmp3);
#endif
#endif // End of ENABLE_KERNEL3
#ifdef ENABLE_KERNEL4 // Krnl_IntraE
setKernelArg(kernel4,0, sizeof(mem_KerConstStatic_IntraE_atom_charges_const), &mem_KerConstStatic_IntraE_atom_charges_const);
setKernelArg(kernel4,1, sizeof(mem_KerConstStatic_IntraE_atom_types_const), &mem_KerConstStatic_IntraE_atom_types_const);
setKernelArg(kernel4,2, sizeof(mem_KerConstStatic_intraE_contributors_const), &mem_KerConstStatic_intraE_contributors_const);
setKernelArg(kernel4,3, sizeof(dockpars.smooth), &dockpars.smooth);
setKernelArg(kernel4,4, sizeof(mem_KerConstStatic_reqm_const), &mem_KerConstStatic_reqm_const);
setKernelArg(kernel4,5, sizeof(mem_KerConstStatic_reqm_hbond_const), &mem_KerConstStatic_reqm_hbond_const);
setKernelArg(kernel4,6, sizeof(mem_KerConstStatic_atom1_types_reqm_const), &mem_KerConstStatic_atom1_types_reqm_const);
setKernelArg(kernel4,7, sizeof(mem_KerConstStatic_atom2_types_reqm_const), &mem_KerConstStatic_atom2_types_reqm_const);
setKernelArg(kernel4,8, sizeof(mem_KerConstStatic_VWpars_AC_const), &mem_KerConstStatic_VWpars_AC_const);
setKernelArg(kernel4,9, sizeof(mem_KerConstStatic_VWpars_BD_const), &mem_KerConstStatic_VWpars_BD_const);
setKernelArg(kernel4,10, sizeof(mem_KerConstStatic_dspars_S_const), &mem_KerConstStatic_dspars_S_const);
setKernelArg(kernel4,11, sizeof(mem_KerConstStatic_dspars_V_const), &mem_KerConstStatic_dspars_V_const);
setKernelArg(kernel4,12, sizeof(unsigned char), &dockpars.num_of_atoms);
setKernelArg(kernel4,13, sizeof(unsigned int), &dockpars.num_of_intraE_contributors);
setKernelArg(kernel4,14, sizeof(float), &dockpars.grid_spacing);
setKernelArg(kernel4,15, sizeof(unsigned char), &dockpars.num_of_atypes);
setKernelArg(kernel4,16, sizeof(float), &dockpars.coeff_elec);
setKernelArg(kernel4,17, sizeof(float), &dockpars.qasp);
setKernelArg(kernel4,18, sizeof(float), &dockpars.coeff_desolv);
#endif // End of ENABLE_KRNL_INTERE
#ifdef ENABLE_KRNL_INTRAE // Krnl_IntraE
setKernelArg(kernel_intrae,0, sizeof(mem_KerConstStatic_IntraE_atom_charges_const), &mem_KerConstStatic_IntraE_atom_charges_const);
setKernelArg(kernel_intrae,1, sizeof(mem_KerConstStatic_IntraE_atom_types_const), &mem_KerConstStatic_IntraE_atom_types_const);
setKernelArg(kernel_intrae,2, sizeof(mem_KerConstStatic_intraE_contributors_const), &mem_KerConstStatic_intraE_contributors_const);
setKernelArg(kernel_intrae,3, sizeof(dockpars.smooth), &dockpars.smooth);
setKernelArg(kernel_intrae,4, sizeof(mem_KerConstStatic_reqm_const), &mem_KerConstStatic_reqm_const);
setKernelArg(kernel_intrae,5, sizeof(mem_KerConstStatic_reqm_hbond_const), &mem_KerConstStatic_reqm_hbond_const);
setKernelArg(kernel_intrae,6, sizeof(mem_KerConstStatic_atom1_types_reqm_const), &mem_KerConstStatic_atom1_types_reqm_const);
setKernelArg(kernel_intrae,7, sizeof(mem_KerConstStatic_atom2_types_reqm_const), &mem_KerConstStatic_atom2_types_reqm_const);
setKernelArg(kernel_intrae,8, sizeof(mem_KerConstStatic_VWpars_AC_const), &mem_KerConstStatic_VWpars_AC_const);
setKernelArg(kernel_intrae,9, sizeof(mem_KerConstStatic_VWpars_BD_const), &mem_KerConstStatic_VWpars_BD_const);
setKernelArg(kernel_intrae,10, sizeof(mem_KerConstStatic_dspars_S_const), &mem_KerConstStatic_dspars_S_const);
setKernelArg(kernel_intrae,11, sizeof(mem_KerConstStatic_dspars_V_const), &mem_KerConstStatic_dspars_V_const);
setKernelArg(kernel_intrae,12, sizeof(unsigned char), &dockpars.num_of_atoms);
setKernelArg(kernel_intrae,13, sizeof(unsigned int), &dockpars.num_of_intraE_contributors);
setKernelArg(kernel_intrae,14, sizeof(float), &dockpars.grid_spacing);
setKernelArg(kernel_intrae,15, sizeof(unsigned char), &dockpars.num_of_atypes);
setKernelArg(kernel_intrae,16, sizeof(float), &dockpars.coeff_elec);
setKernelArg(kernel_intrae,17, sizeof(float), &dockpars.qasp);
setKernelArg(kernel_intrae,18, sizeof(float), &dockpars.coeff_desolv);
/*
setKernelArg(kernel4,14, sizeof(unsigned int), &square_num_of_atypes);
setKernelArg(kernel_intrae,14, sizeof(unsigned int), &square_num_of_atypes);
*/
#endif // End of ENABLE_KERNEL4
#endif // End of ENABLE_KRNL_INTRAE
#ifdef ENABLE_KERNEL6 // Krnl_PRNG_GG_float
setKernelArg(kernel6,1, sizeof(unsigned char), &dockpars.num_of_genes);
......@@ -1474,13 +1474,13 @@ unsigned char Host_cons_limit = (unsigned char) dockpars.cons_limit;
runKernelTask(command_queue_conform,kernel_conform,NULL,NULL);
#endif // ENABLE_KRNL_CONFORM
#ifdef ENABLE_KERNEL3
runKernelTask(command_queue3,kernel3,NULL,NULL);
#endif // ENABLE_KERNEL3
#ifdef ENABLE_KRNL_INTERE
runKernelTask(command_queue_intere,kernel_intere,NULL,NULL);
#endif // ENABLE_KRNL_INTERE
#ifdef ENABLE_KERNEL4
runKernelTask(command_queue4,kernel4,NULL,NULL);
#endif // ENABLE_KERNEL4
#ifdef ENABLE_KRNL_INTRAE
runKernelTask(command_queue_intrae,kernel_intrae,NULL,NULL);
#endif // ENABLE_KRNL_INTRAE
#ifdef ENABLE_KERNEL6
runKernelTask(command_queue6,kernel6,NULL,NULL);
......@@ -1587,12 +1587,12 @@ unsigned char Host_cons_limit = (unsigned char) dockpars.cons_limit;
clFinish(command_queue_conform);
#endif
#ifdef ENABLE_KERNEL3
clFinish(command_queue3);
#ifdef ENABLE_KRNL_INTERE
clFinish(command_queue_intere);
#endif
#ifdef ENABLE_KERNEL4
clFinish(command_queue4);
#ifdef ENABLE_KRNL_INTRAE
clFinish(command_queue_intrae);
#endif
#ifdef ENABLE_KERNEL6
......@@ -1982,18 +1982,18 @@ bool init() {
checkError(status, "Failed to create kernel conform");
#endif
#ifdef ENABLE_KERNEL3
command_queue3 = clCreateCommandQueue(context, device, 0, &status);
checkError(status, "Failed to create command queue3");
kernel3 = clCreateKernel(program, name_k3, &status);
checkError(status, "Failed to create kernel");
#ifdef ENABLE_KRNL_INTERE
command_queue_intere = clCreateCommandQueue(context, device, 0, &status);
checkError(status, "Failed to create command queue intere");
kernel_intere = clCreateKernel(program, name_krnl_intere, &status);
checkError(status, "Failed to create kernel intere");
#endif
#ifdef ENABLE_KERNEL4
command_queue4 = clCreateCommandQueue(context, device, 0, &status);
checkError(status, "Failed to create command queue4");
kernel4 = clCreateKernel(program, name_k4, &status);
checkError(status, "Failed to create kernel");
#ifdef ENABLE_KRNL_INTRAE
command_queue_intrae = clCreateCommandQueue(context, device, 0, &status);
checkError(status, "Failed to create command queue intrae");
kernel_intrae = clCreateKernel(program, name_krnl_intrae, &status);
checkError(status, "Failed to create kernel intrae");
#endif
#ifdef ENABLE_KERNEL6
......@@ -2172,14 +2172,14 @@ void cleanup() {
if(command_queue_conform) {clReleaseCommandQueue(command_queue_conform);}
#endif
#ifdef ENABLE_KERNEL3
if(kernel3) {clReleaseKernel(kernel3);}
if(command_queue3) {clReleaseCommandQueue(command_queue3);}
#ifdef ENABLE_KRNL_INTERE
if(kernel_intere) {clReleaseKernel(kernel_intere);}
if(command_queue_intere) {clReleaseCommandQueue(command_queue_intere);}
#endif
#ifdef ENABLE_KERNEL4
if(kernel4) {clReleaseKernel(kernel4);}
if(command_queue4) {clReleaseCommandQueue(command_queue4);}
#ifdef ENABLE_KRNL_INTRAE
if(kernel_intrae) {clReleaseKernel(kernel_intrae);}
if(command_queue_intrae) {clReleaseCommandQueue(command_queue_intrae);}
#endif
#ifdef ENABLE_KERNEL6
......
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