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References for 'BlueBrain/nmodl#1387'.
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,270 @@ | ||
| /********************************************************* | ||
| Model Name : default_values | ||
| Filename : default_values.mod | ||
| NMODL Version : 7.7.0 | ||
| Vectorized : true | ||
| Threadsafe : true | ||
| Created : DATE | ||
| Simulator : CoreNEURON | ||
| Backend : C++ (api-compatibility) | ||
| NMODL Compiler : VERSION | ||
| *********************************************************/ | ||
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| #include <math.h> | ||
| #include <stdio.h> | ||
| #include <stdlib.h> | ||
| #include <string.h> | ||
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| #include <coreneuron/gpu/nrn_acc_manager.hpp> | ||
| #include <coreneuron/mechanism/mech/mod2c_core_thread.hpp> | ||
| #include <coreneuron/mechanism/register_mech.hpp> | ||
| #include <coreneuron/nrnconf.h> | ||
| #include <coreneuron/nrniv/nrniv_decl.h> | ||
| #include <coreneuron/sim/multicore.hpp> | ||
| #include <coreneuron/sim/scopmath/newton_thread.hpp> | ||
| #include <coreneuron/utils/ivocvect.hpp> | ||
| #include <coreneuron/utils/nrnoc_aux.hpp> | ||
| #include <coreneuron/utils/randoms/nrnran123.h> | ||
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| namespace coreneuron { | ||
| #ifndef NRN_PRCELLSTATE | ||
| #define NRN_PRCELLSTATE 0 | ||
| #endif | ||
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| /** channel information */ | ||
| static const char *mechanism_info[] = { | ||
| "7.7.0", | ||
| "default_values", | ||
| 0, | ||
| 0, | ||
| "X_default_values", | ||
| "Y_default_values", | ||
| "Z_default_values", | ||
| 0, | ||
| 0 | ||
| }; | ||
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| /** all global variables */ | ||
| struct default_values_Store { | ||
| double Y0{}; | ||
| int reset{}; | ||
| int mech_type{}; | ||
| double X0{2}; | ||
| double Z0{3}; | ||
| }; | ||
| static_assert(std::is_trivially_copy_constructible_v<default_values_Store>); | ||
| static_assert(std::is_trivially_move_constructible_v<default_values_Store>); | ||
| static_assert(std::is_trivially_copy_assignable_v<default_values_Store>); | ||
| static_assert(std::is_trivially_move_assignable_v<default_values_Store>); | ||
| static_assert(std::is_trivially_destructible_v<default_values_Store>); | ||
| default_values_Store default_values_global; | ||
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| /** all mechanism instance variables and global variables */ | ||
| struct default_values_Instance { | ||
| double* X{}; | ||
| double* Y{}; | ||
| double* Z{}; | ||
| double* DX{}; | ||
| double* DY{}; | ||
| double* DZ{}; | ||
| double* v_unused{}; | ||
| default_values_Store* global{&default_values_global}; | ||
| }; | ||
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| /** connect global (scalar) variables to hoc -- */ | ||
| static DoubScal hoc_scalar_double[] = { | ||
| {"X0_default_values", &default_values_global.X0}, | ||
| {"Z0_default_values", &default_values_global.Z0}, | ||
| {nullptr, nullptr} | ||
| }; | ||
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|
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| /** connect global (array) variables to hoc -- */ | ||
| static DoubVec hoc_vector_double[] = { | ||
| {nullptr, nullptr, 0} | ||
| }; | ||
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| static inline int first_pointer_var_index() { | ||
| return -1; | ||
| } | ||
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| static inline int first_random_var_index() { | ||
| return -1; | ||
| } | ||
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| static inline int float_variables_size() { | ||
| return 7; | ||
| } | ||
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| static inline int int_variables_size() { | ||
| return 0; | ||
| } | ||
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| static inline int get_mech_type() { | ||
| return default_values_global.mech_type; | ||
| } | ||
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| static inline Memb_list* get_memb_list(NrnThread* nt) { | ||
| if (!nt->_ml_list) { | ||
| return nullptr; | ||
| } | ||
| return nt->_ml_list[get_mech_type()]; | ||
| } | ||
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| static inline void* mem_alloc(size_t num, size_t size, size_t alignment = 16) { | ||
| void* ptr; | ||
| posix_memalign(&ptr, alignment, num*size); | ||
| memset(ptr, 0, size); | ||
| return ptr; | ||
| } | ||
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| static inline void mem_free(void* ptr) { | ||
| free(ptr); | ||
| } | ||
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| static inline void coreneuron_abort() { | ||
| abort(); | ||
| } | ||
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| // Allocate instance structure | ||
| static void nrn_private_constructor_default_values(NrnThread* nt, Memb_list* ml, int type) { | ||
| assert(!ml->instance); | ||
| assert(!ml->global_variables); | ||
| assert(ml->global_variables_size == 0); | ||
| auto* const inst = new default_values_Instance{}; | ||
| assert(inst->global == &default_values_global); | ||
| ml->instance = inst; | ||
| ml->global_variables = inst->global; | ||
| ml->global_variables_size = sizeof(default_values_Store); | ||
| } | ||
|
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| // Deallocate the instance structure | ||
| static void nrn_private_destructor_default_values(NrnThread* nt, Memb_list* ml, int type) { | ||
| auto* const inst = static_cast<default_values_Instance*>(ml->instance); | ||
| assert(inst); | ||
| assert(inst->global); | ||
| assert(inst->global == &default_values_global); | ||
| assert(inst->global == ml->global_variables); | ||
| assert(ml->global_variables_size == sizeof(default_values_Store)); | ||
| delete inst; | ||
| ml->instance = nullptr; | ||
| ml->global_variables = nullptr; | ||
| ml->global_variables_size = 0; | ||
| } | ||
|
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| /** initialize mechanism instance variables */ | ||
| static inline void setup_instance(NrnThread* nt, Memb_list* ml) { | ||
| auto* const inst = static_cast<default_values_Instance*>(ml->instance); | ||
| assert(inst); | ||
| assert(inst->global); | ||
| assert(inst->global == &default_values_global); | ||
| assert(inst->global == ml->global_variables); | ||
| assert(ml->global_variables_size == sizeof(default_values_Store)); | ||
| int pnodecount = ml->_nodecount_padded; | ||
| Datum* indexes = ml->pdata; | ||
| inst->X = ml->data+0*pnodecount; | ||
| inst->Y = ml->data+1*pnodecount; | ||
| inst->Z = ml->data+2*pnodecount; | ||
| inst->DX = ml->data+3*pnodecount; | ||
| inst->DY = ml->data+4*pnodecount; | ||
| inst->DZ = ml->data+5*pnodecount; | ||
| inst->v_unused = ml->data+6*pnodecount; | ||
| } | ||
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| static void nrn_alloc_default_values(double* data, Datum* indexes, int type) { | ||
| // do nothing | ||
| } | ||
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| void nrn_constructor_default_values(NrnThread* nt, Memb_list* ml, int type) { | ||
| #ifndef CORENEURON_BUILD | ||
| int nodecount = ml->nodecount; | ||
| int pnodecount = ml->_nodecount_padded; | ||
| const int* node_index = ml->nodeindices; | ||
| double* data = ml->data; | ||
| const double* voltage = nt->_actual_v; | ||
| Datum* indexes = ml->pdata; | ||
| ThreadDatum* thread = ml->_thread; | ||
| auto* const inst = static_cast<default_values_Instance*>(ml->instance); | ||
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| #endif | ||
| } | ||
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| void nrn_destructor_default_values(NrnThread* nt, Memb_list* ml, int type) { | ||
| #ifndef CORENEURON_BUILD | ||
| int nodecount = ml->nodecount; | ||
| int pnodecount = ml->_nodecount_padded; | ||
| const int* node_index = ml->nodeindices; | ||
| double* data = ml->data; | ||
| const double* voltage = nt->_actual_v; | ||
| Datum* indexes = ml->pdata; | ||
| ThreadDatum* thread = ml->_thread; | ||
| auto* const inst = static_cast<default_values_Instance*>(ml->instance); | ||
|
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| #endif | ||
| } | ||
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| /** initialize channel */ | ||
| void nrn_init_default_values(NrnThread* nt, Memb_list* ml, int type) { | ||
| int nodecount = ml->nodecount; | ||
| int pnodecount = ml->_nodecount_padded; | ||
| const int* node_index = ml->nodeindices; | ||
| double* data = ml->data; | ||
| const double* voltage = nt->_actual_v; | ||
| Datum* indexes = ml->pdata; | ||
| ThreadDatum* thread = ml->_thread; | ||
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| setup_instance(nt, ml); | ||
| auto* const inst = static_cast<default_values_Instance*>(ml->instance); | ||
|
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| if (_nrn_skip_initmodel == 0) { | ||
| #pragma omp simd | ||
| #pragma ivdep | ||
| for (int id = 0; id < nodecount; id++) { | ||
| int node_id = node_index[id]; | ||
| double v = voltage[node_id]; | ||
| #if NRN_PRCELLSTATE | ||
| inst->v_unused[id] = v; | ||
| #endif | ||
| inst->X[id] = inst->global->X0; | ||
| inst->Y[id] = inst->global->Y0; | ||
| inst->Z[id] = inst->global->Z0; | ||
| } | ||
| } | ||
| } | ||
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| /** register channel with the simulator */ | ||
| void _default_values_reg() { | ||
|
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| int mech_type = nrn_get_mechtype("default_values"); | ||
| default_values_global.mech_type = mech_type; | ||
| if (mech_type == -1) { | ||
| return; | ||
| } | ||
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| _nrn_layout_reg(mech_type, 0); | ||
| register_mech(mechanism_info, nrn_alloc_default_values, nullptr, nullptr, nullptr, nrn_init_default_values, nrn_private_constructor_default_values, nrn_private_destructor_default_values, first_pointer_var_index(), 1); | ||
|
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| hoc_register_prop_size(mech_type, float_variables_size(), int_variables_size()); | ||
| hoc_register_var(hoc_scalar_double, hoc_vector_double, NULL); | ||
| } | ||
| } |
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