1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 301 302 303 304 305 306 307 308 309 310 311 312 313 314 315 316 317 318 319 320 321 322 323 324 325 326 327 328 329 330 331 332 333 334 335 336 337 338 339 340 341 342 343 344 345 346 347 348 349 350 351 352 353 354 355 356 357 358 359 360 361 362 363 364 365 366 367 368 369 370 371 372 373
|
/*************************************************************************
* Copyright (C) 2018-2022 Blue Brain Project
*
* This file is part of NMODL distributed under the terms of the GNU
* Lesser General Public License. See top-level LICENSE file for details.
*************************************************************************/
#include <catch2/catch_test_macros.hpp>
#include "ast/program.hpp"
#include "parser/nmodl_driver.hpp"
#include "test/unit/utils/test_utils.hpp"
#include "visitors/checkparent_visitor.hpp"
#include "visitors/local_var_rename_visitor.hpp"
#include "visitors/nmodl_visitor.hpp"
#include "visitors/rename_visitor.hpp"
#include "visitors/symtab_visitor.hpp"
#include "visitors/verbatim_var_rename_visitor.hpp"
using namespace nmodl;
using namespace visitor;
using namespace test;
using namespace test_utils;
using nmodl::parser::NmodlDriver;
//=============================================================================
// Variable rename tests
//=============================================================================
static std::string run_var_rename_visitor(
const std::string& text,
const std::vector<std::pair<std::string, std::string>>& variables) {
NmodlDriver driver;
const auto& ast = driver.parse_string(text);
for (const auto& variable: variables) {
RenameVisitor(variable.first, variable.second).visit_program(*ast);
}
std::stringstream stream;
NmodlPrintVisitor(stream).visit_program(*ast);
// check that, after visitor rearrangement, parents are still up-to-date
CheckParentVisitor().check_ast(*ast);
return stream.str();
}
SCENARIO("Renaming any variable in mod file with RenameVisitor", "[visitor][rename]") {
GIVEN("A mod file") {
// sample nmodl text
std::string input_nmodl_text = R"(
NEURON {
SUFFIX NaTs2_t
USEION na READ ena WRITE ina
RANGE gNaTs2_tbar
}
PARAMETER {
gNaTs2_tbar = 0.1 (S/cm2)
}
STATE {
m
h
}
COMMENT
m and gNaTs2_tbar remain same here
ENDCOMMENT
BREAKPOINT {
LOCAL gNaTs2_t
gNaTs2_t = gNaTs2_tbar*m*m*m*h
ina = gNaTs2_t*(v-ena)
}
FUNCTION mAlpha() {
}
)";
/// expected result after renaming m, gNaTs2_tbar and mAlpha
std::string output_nmodl_text = R"(
NEURON {
SUFFIX NaTs2_t
USEION na READ ena WRITE ina
RANGE new_gNaTs2_tbar
}
PARAMETER {
new_gNaTs2_tbar = 0.1 (S/cm2)
}
STATE {
mm
h
}
COMMENT
m and gNaTs2_tbar remain same here
ENDCOMMENT
BREAKPOINT {
LOCAL gNaTs2_t
gNaTs2_t = new_gNaTs2_tbar*mm*mm*mm*h
ina = gNaTs2_t*(v-ena)
}
FUNCTION mBeta() {
}
)";
std::string input = reindent_text(input_nmodl_text);
std::string expected_output = reindent_text(output_nmodl_text);
THEN("existing variables could be renamed") {
std::vector<std::pair<std::string, std::string>> variables = {
{"m", "mm"},
{"gNaTs2_tbar", "new_gNaTs2_tbar"},
{"mAlpha", "mBeta"},
};
auto result = run_var_rename_visitor(input, variables);
REQUIRE(result == expected_output);
}
THEN("non-existing variables will be ignored") {
std::vector<std::pair<std::string, std::string>> variables = {
{"unknown_variable", "doesnot_matter"}};
auto result = run_var_rename_visitor(input, variables);
REQUIRE(result == input);
}
}
}
//=============================================================================
// Local variable rename tests
//=============================================================================
std::string run_local_var_rename_visitor(const std::string& text) {
NmodlDriver driver;
const auto& ast = driver.parse_string(text);
SymtabVisitor().visit_program(*ast);
VerbatimVarRenameVisitor().visit_program(*ast);
LocalVarRenameVisitor().visit_program(*ast);
std::stringstream stream;
NmodlPrintVisitor(stream).visit_program(*ast);
return stream.str();
}
SCENARIO("Renaming with presence of local and global variables in same block",
"[visitor][rename]") {
GIVEN("A neuron block and procedure with same variable name") {
std::string nmodl_text = R"(
NEURON {
SUFFIX NaTs2_t
USEION na READ ena WRITE ina
RANGE gNaTs2_tbar
}
PROCEDURE rates() {
LOCAL gNaTs2_tbar
gNaTs2_tbar = 2.1 + ena
}
)";
std::string expected_nmodl_text = R"(
NEURON {
SUFFIX NaTs2_t
USEION na READ ena WRITE ina
RANGE gNaTs2_tbar
}
PROCEDURE rates() {
LOCAL gNaTs2_tbar_r_0
gNaTs2_tbar_r_0 = 2.1+ena
}
)";
THEN("var renaming pass changes only local variables in procedure") {
std::string input = reindent_text(nmodl_text);
auto expected_result = reindent_text(expected_nmodl_text);
auto result = run_local_var_rename_visitor(input);
REQUIRE(result == expected_result);
}
}
}
SCENARIO("Renaming in the absence of global blocks", "[visitor][rename]") {
GIVEN("Procedures containing same variables") {
std::string nmodl_text = R"(
PROCEDURE rates_1() {
LOCAL gNaTs2_tbar
gNaTs2_tbar = 2.1+ena
}
PROCEDURE rates_2() {
LOCAL gNaTs2_tbar
gNaTs2_tbar = 2.1+ena
}
)";
THEN("nothing gets renamed") {
std::string input = reindent_text(nmodl_text);
auto result = run_local_var_rename_visitor(input);
REQUIRE(result == input);
}
}
}
SCENARIO("Variable renaming in nested blocks", "[visitor][rename]") {
GIVEN("Mod file containing procedures with nested blocks") {
std::string input_nmodl_text = R"(
NEURON {
SUFFIX NaTs2_t
USEION na READ ena WRITE ina
RANGE gNaTs2_tbar
}
PARAMETER {
gNaTs2_tbar = 0.1 (S/cm2)
tau = 11.1
}
STATE {
m
h
}
BREAKPOINT {
LOCAL gNaTs2_t
gNaTs2_t = gNaTs2_tbar*m*m*m*h
ina = gNaTs2_t*(v-ena)
{
LOCAL gNaTs2_t, h
gNaTs2_t = m + h
{
LOCAL m
m = gNaTs2_t + h
{
LOCAL m, h
VERBATIM
_lm = 12
ENDVERBATIM
}
}
}
}
PROCEDURE rates() {
LOCAL x, m
m = x + gNaTs2_tbar
{
{
LOCAL h, x, gNaTs2_tbar
m = h * x * gNaTs2_tbar + tau
}
}
}
)";
std::string expected_nmodl_text = R"(
NEURON {
SUFFIX NaTs2_t
USEION na READ ena WRITE ina
RANGE gNaTs2_tbar
}
PARAMETER {
gNaTs2_tbar = 0.1 (S/cm2)
tau = 11.1
}
STATE {
m
h
}
BREAKPOINT {
LOCAL gNaTs2_t
gNaTs2_t = gNaTs2_tbar*m*m*m*h
ina = gNaTs2_t*(v-ena)
{
LOCAL gNaTs2_t_r_0, h_r_1
gNaTs2_t_r_0 = m+h_r_1
{
LOCAL m_r_1
m_r_1 = gNaTs2_t_r_0+h_r_1
{
LOCAL m_r_0, h_r_0
VERBATIM
m_r_0 = 12
ENDVERBATIM
}
}
}
}
PROCEDURE rates() {
LOCAL x, m_r_2
m_r_2 = x+gNaTs2_tbar
{
{
LOCAL h_r_2, x_r_0, gNaTs2_tbar_r_0
m_r_2 = h_r_2*x_r_0*gNaTs2_tbar_r_0+tau
}
}
}
)";
THEN("variables conflicting with global variables get renamed starting from inner block") {
std::string input = reindent_text(input_nmodl_text);
auto expected_result = reindent_text(expected_nmodl_text);
auto result = run_local_var_rename_visitor(input);
REQUIRE(result == expected_result);
}
}
}
SCENARIO("Renaming in presence of local variable in verbatim block", "[visitor][rename]") {
GIVEN("A neuron block and procedure with same variable name") {
std::string nmodl_text = R"(
NEURON {
RANGE gNaTs2_tbar
}
PROCEDURE rates() {
LOCAL gNaTs2_tbar, x
VERBATIM
_lx = _lgNaTs2_tbar
#define my_macro_var _lgNaTs2_tbar*2
ENDVERBATIM
gNaTs2_tbar = my_macro_var + 1
}
PROCEDURE alpha() {
VERBATIM
_p_gNaTs2_tbar = 12
ENDVERBATIM
}
)";
std::string expected_nmodl_text = R"(
NEURON {
RANGE gNaTs2_tbar
}
PROCEDURE rates() {
LOCAL gNaTs2_tbar_r_0, x
VERBATIM
x = gNaTs2_tbar_r_0
#define my_macro_var gNaTs2_tbar_r_0*2
ENDVERBATIM
gNaTs2_tbar_r_0 = my_macro_var+1
}
PROCEDURE alpha() {
VERBATIM
gNaTs2_tbar = 12
ENDVERBATIM
}
)";
THEN("var renaming pass changes local & global variable in verbatim block") {
std::string input = reindent_text(nmodl_text);
auto expected_result = reindent_text(expected_nmodl_text);
auto result = run_local_var_rename_visitor(input);
REQUIRE(result == expected_result);
}
}
}
|