change format for equilibrium values and update writer and reader code, so it will become compatible with class2 angles/dihedrals/impropers

unittest/force-styles/angle_style.cpp

@@ -287,8 +287,8 @@ void generate_yaml_file(const char *outfile, const TestConfig &config)
 
     // equilibrium angle
     std::stringstream eqstr;
-    eqstr << lmp->force->angle->equilibrium_angle(1);
-    for (std::size_t i=1; i < config.angle_coeff.size(); ++i) {
+    eqstr << lmp->atom->nangletypes;
+    for (std::size_t i=0; i < lmp->atom->nangletypes; ++i) {
         eqstr << " " << lmp->force->angle->equilibrium_angle(i+1);
     }
     writer.emit("equilibrium", eqstr.str());

unittest/force-styles/bond_style.cpp

@@ -287,8 +287,8 @@ void generate_yaml_file(const char *outfile, const TestConfig &config)
 
     // equilibrium distance
     std::stringstream eqstr;
-    eqstr << lmp->force->bond->equilibrium_distance(1);
-    for (std::size_t i=1; i < config.bond_coeff.size(); ++i) {
+    eqstr << lmp->atom->nbondtypes;
+    for (std::size_t i=0; i < lmp->atom->nbondtypes; ++i) {
         eqstr << " " << lmp->force->bond->equilibrium_distance(i+1);
     }
     writer.emit("equilibrium", eqstr.str());

unittest/force-styles/test_config_reader.cpp

@@ -213,7 +213,9 @@ void TestConfigReader::equilibrium(const yaml_event_t & event) {
     std::stringstream data((char *)event.data.scalar.value);
     config.equilibrium.clear();
     double value;
-    while (1) {
+    std::size_t num;
+    data >> num;
+    for (std::size_t i=0; i < num; ++i) {
         data >> value;
         if (data.eof()) break;
         config.equilibrium.push_back(value);