alberto-antonietti / cerebnest Goto Github PK

8.0 6.0 1.0 2.7 MB

Module for NEST simulator developed in the Project CerebNEST, aiming to recreate and simulate in NEST realistic cerebellar-inspired models.

License: GNU General Public License v2.0

CMake 5.37% C++ 79.81% Python 11.89% Shell 2.92%

nest-module cerebellum snn spiking-neural-networks

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alessandratrapani

cerebnest's Issues

vt_num inconsistent type

The vt_num parameters is required to be a long in volume_transmitter.cpp and a double in the synapses definitions

https://github.com/alberto-antonietti/CerebNEST/search?l=C%2B%2B&q=vt_num

LTD problem

LTD (trigger_update_weight function in stdp_connection_sinexp and stdp_connection_cosexp) is not handled properly when loading CerebNEST module.

The problem regards the check of the gid of the volume_transmitter_alberto nodes.
Note that there are two get_vt_gid functions, one overrides the CommonSynapseProperties, while the other one is a new method of the STDPSinExpConnection class.

I will try to solve the issue in the coming days.

EGLIF warnings

Fixing EGLIF warnings during standard build of cereb module

Is the n parameter still required for volume_transmitter_alberto?

Additional parameter vt number ("n") required for multithreading simulations with plasticity. Can't this be done internally since we just give each volume transmitter an incrementing ID?

            for n,vti in enumerate(vt):
        		nest.SetStatus([vti],{"deliver_interval" : 2})            # TO CHECK
        		nest.SetStatus([vti],{"n" : n})

STDP synapses warnings

stdp_connection_alpha

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:33:0:
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h: In instantiation of ‘mynest::STDPAlphaConnection<targetidentifierT>::STDPAlphaConnection() [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connector_model.h:181:25:   required from ‘nest::GenericConnectorModel<ConnectionT>::GenericConnectorModel(std::__cxx11::string, bool, bool, bool, bool, bool) [with ConnectionT = mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/nest-simulator/b/include/nest/model_manager_impl.h:93:32:   required from ‘void nest::ModelManager::register_connection_model(const string&, bool, bool) [with ConnectionT = mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>; ConnectorModelT = nest::GenericConnectorModel; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/nest-simulator/b/include/nest/model_manager_impl.h:114:66:   required from ‘void nest::ModelManager::register_connection_model(const string&, bool, bool) [with ConnectionT = mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:139:60:   required from here
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h:215:10: warning: ‘mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>::t_last_update_’ will be initialized after [-Wreorder]
   double t_last_update_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h:207:10: warning:   ‘double mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>::vt_num_’ [-Wreorder]
   double vt_num_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h:224:41: warning:   when initialized here [-Wreorder]
 template < typename targetidentifierT > STDPAlphaConnection< targetidentifierT >::STDPAlphaConnection()
                                         ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:33:0:
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h: In instantiation of ‘mynest::STDPAlphaConnection<targetidentifierT>::STDPAlphaConnection(const mynest::STDPAlphaConnection<targetidentifierT>&) [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connection_label.h:54:7:   required from ‘void nest::GenericConnectorModel<ConnectionT>::add_connection(nest::Node&, nest::Node&, std::vector<nest::ConnectorBase*>&, nest::synindex, const DictionaryDatum&, double, double) [with ConnectionT = nest::ConnectionLabel<mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport> >; nest::synindex = unsigned int; DictionaryDatum = lockPTRDatum<Dictionary, (& SLIInterpreter::Dictionarytype)>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:157:1:   required from here
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h:215:10: warning: ‘mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>::t_last_update_’ will be initialized after [-Wreorder]
   double t_last_update_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h:207:10: warning:   ‘double mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>::vt_num_’ [-Wreorder]
   double vt_num_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h:235:41: warning:   when initialized here [-Wreorder]
 template < typename targetidentifierT > STDPAlphaConnection< targetidentifierT >::STDPAlphaConnection( const STDPAlphaConnection
                                         ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:33:0:
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h: In instantiation of ‘mynest::STDPAlphaConnection<targetidentifierT>::STDPAlphaConnection() [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connector_model.h:181:25:   required from ‘nest::GenericConnectorModel<ConnectionT>::GenericConnectorModel(std::__cxx11::string, bool, bool, bool, bool, bool) [with ConnectionT = mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/nest-simulator/b/include/nest/model_manager_impl.h:93:32:   required from ‘void nest::ModelManager::register_connection_model(const string&, bool, bool) [with ConnectionT = mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>; ConnectorModelT = nest::GenericConnectorModel; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/nest-simulator/b/include/nest/model_manager_impl.h:114:66:   required from ‘void nest::ModelManager::register_connection_model(const string&, bool, bool) [with ConnectionT = mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:139:60:   required from here
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h:215:10: warning: ‘mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>::t_last_update_’ will be initialized after [-Wreorder]
   double t_last_update_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h:207:10: warning:   ‘double mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>::vt_num_’ [-Wreorder]
   double vt_num_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h:224:41: warning:   when initialized here [-Wreorder]
 template < typename targetidentifierT > STDPAlphaConnection< targetidentifierT >::STDPAlphaConnection()
                                         ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:33:0:
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h: In instantiation of ‘mynest::STDPAlphaConnection<targetidentifierT>::STDPAlphaConnection(const mynest::STDPAlphaConnection<targetidentifierT>&) [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connection_label.h:54:7:   required from ‘void nest::GenericConnectorModel<ConnectionT>::add_connection(nest::Node&, nest::Node&, std::vector<nest::ConnectorBase*>&, nest::synindex, const DictionaryDatum&, double, double) [with ConnectionT = nest::ConnectionLabel<mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport> >; nest::synindex = unsigned int; DictionaryDatum = lockPTRDatum<Dictionary, (& SLIInterpreter::Dictionarytype)>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:157:1:   required from here
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h:215:10: warning: ‘mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>::t_last_update_’ will be initialized after [-Wreorder]
   double t_last_update_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h:207:10: warning:   ‘double mynest::STDPAlphaConnection<nest::TargetIdentifierPtrRport>::vt_num_’ [-Wreorder]
   double vt_num_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_alpha.h:235:41: warning:   when initialized here [-Wreorder]
 template < typename targetidentifierT > STDPAlphaConnection< targetidentifierT >::STDPAlphaConnection( const STDPAlphaConnection
                                         ^

stdp_connection_sinexp


In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:31:0:
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h: In instantiation of ‘mynest::STDPSinExpConnection<targetidentifierT>::STDPSinExpConnection() [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connector_model.h:181:25:   required from ‘nest::GenericConnectorModel<ConnectionT>::GenericConnectorModel(std::__cxx11::string, bool, bool, bool, bool, bool) [with ConnectionT = mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/nest-simulator/b/include/nest/model_manager_impl.h:93:32:   required from ‘void nest::ModelManager::register_connection_model(const string&, bool, bool) [with ConnectionT = mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>; ConnectorModelT = nest::GenericConnectorModel; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/nest-simulator/b/include/nest/model_manager_impl.h:114:66:   required from ‘void nest::ModelManager::register_connection_model(const string&, bool, bool) [with ConnectionT = mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:143:61:   required from here
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h:214:10: warning: ‘mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>::t_last_update_’ will be initialized after [-Wreorder]
   double t_last_update_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h:206:10: warning:   ‘double mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>::vt_num_’ [-Wreorder]
   double vt_num_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h:223:41: warning:   when initialized here [-Wreorder]
 template < typename targetidentifierT > STDPSinExpConnection< targetidentifierT >::STDPSinExpConnection()
                                         ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:31:0:
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h: In instantiation of ‘mynest::STDPSinExpConnection<targetidentifierT>::STDPSinExpConnection(const mynest::STDPSinExpConnection<targetidentifierT>&) [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connection_label.h:54:7:   required from ‘void nest::GenericConnectorModel<ConnectionT>::add_connection(nest::Node&, nest::Node&, std::vector<nest::ConnectorBase*>&, nest::synindex, const DictionaryDatum&, double, double) [with ConnectionT = nest::ConnectionLabel<mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport> >; nest::synindex = unsigned int; DictionaryDatum = lockPTRDatum<Dictionary, (& SLIInterpreter::Dictionarytype)>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:157:1:   required from here
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h:214:10: warning: ‘mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>::t_last_update_’ will be initialized after [-Wreorder]
   double t_last_update_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h:206:10: warning:   ‘double mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>::vt_num_’ [-Wreorder]
   double vt_num_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h:234:41: warning:   when initialized here [-Wreorder]
 template < typename targetidentifierT > STDPSinExpConnection< targetidentifierT >::STDPSinExpConnection( const STDPSinExpConnect
                                         ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:31:0:
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h: In instantiation of ‘mynest::STDPSinExpConnection<targetidentifierT>::STDPSinExpConnection() [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connector_model.h:181:25:   required from ‘nest::GenericConnectorModel<ConnectionT>::GenericConnectorModel(std::__cxx11::string, bool, bool, bool, bool, bool) [with ConnectionT = mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/nest-simulator/b/include/nest/model_manager_impl.h:93:32:   required from ‘void nest::ModelManager::register_connection_model(const string&, bool, bool) [with ConnectionT = mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>; ConnectorModelT = nest::GenericConnectorModel; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/nest-simulator/b/include/nest/model_manager_impl.h:114:66:   required from ‘void nest::ModelManager::register_connection_model(const string&, bool, bool) [with ConnectionT = mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:143:61:   required from here
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h:214:10: warning: ‘mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>::t_last_update_’ will be initialized after [-Wreorder]
   double t_last_update_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h:206:10: warning:   ‘double mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>::vt_num_’ [-Wreorder]
   double vt_num_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h:223:41: warning:   when initialized here [-Wreorder]
 template < typename targetidentifierT > STDPSinExpConnection< targetidentifierT >::STDPSinExpConnection()
                                         ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:31:0:
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h: In instantiation of ‘mynest::STDPSinExpConnection<targetidentifierT>::STDPSinExpConnection(const mynest::STDPSinExpConnection<targetidentifierT>&) [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connection_label.h:54:7:   required from ‘void nest::GenericConnectorModel<ConnectionT>::add_connection(nest::Node&, nest::Node&, std::vector<nest::ConnectorBase*>&, nest::synindex, const DictionaryDatum&, double, double) [with ConnectionT = nest::ConnectionLabel<mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport> >; nest::synindex = unsigned int; DictionaryDatum = lockPTRDatum<Dictionary, (& SLIInterpreter::Dictionarytype)>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:157:1:   required from here
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h:214:10: warning: ‘mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>::t_last_update_’ will be initialized after [-Wreorder]
   double t_last_update_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h:206:10: warning:   ‘double mynest::STDPSinExpConnection<nest::TargetIdentifierPtrRport>::vt_num_’ [-Wreorder]
   double vt_num_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_sinexp.h:234:41: warning:   when initialized here [-Wreorder]
 template < typename targetidentifierT > STDPSinExpConnection< targetidentifierT >::STDPSinExpConnection( const STDPSinExpConnect
                                         ^

stdp_connection_cosexp

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:32:0:
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h: In instantiation of ‘mynest::STDPCosExpConnection<targetidentifierT>::STDPCosExpConnection() [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connector_model.h:181:25:   required from ‘nest::GenericConnectorModel<ConnectionT>::GenericConnectorModel(std::__cxx11::string, bool, bool, bool, bool, bool) [with ConnectionT = mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/nest-simulator/b/include/nest/model_manager_impl.h:93:32:   required from ‘void nest::ModelManager::register_connection_model(const string&, bool, bool) [with ConnectionT = mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>; ConnectorModelT = nest::GenericConnectorModel; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/nest-simulator/b/include/nest/model_manager_impl.h:114:66:   required from ‘void nest::ModelManager::register_connection_model(const string&, bool, bool) [with ConnectionT = mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:147:61:   required from here
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h:216:10: warning: ‘mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>::t_last_update_’ will be initialized after [-Wreorder]
   double t_last_update_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h:208:10: warning:   ‘double mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>::vt_num_’ [-Wreorder]
   double vt_num_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h:225:41: warning:   when initialized here [-Wreorder]
 template < typename targetidentifierT > STDPCosExpConnection< targetidentifierT >::STDPCosExpConnection()
                                         ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:32:0:
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h: In instantiation of ‘mynest::STDPCosExpConnection<targetidentifierT>::STDPCosExpConnection(const mynest::STDPCosExpConnection<targetidentifierT>&) [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connection_label.h:54:7:   required from ‘void nest::GenericConnectorModel<ConnectionT>::add_connection(nest::Node&, nest::Node&, std::vector<nest::ConnectorBase*>&, nest::synindex, const DictionaryDatum&, double, double) [with ConnectionT = nest::ConnectionLabel<mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport> >; nest::synindex = unsigned int; DictionaryDatum = lockPTRDatum<Dictionary, (& SLIInterpreter::Dictionarytype)>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:157:1:   required from here
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h:216:10: warning: ‘mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>::t_last_update_’ will be initialized after [-Wreorder]
   double t_last_update_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h:208:10: warning:   ‘double mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>::vt_num_’ [-Wreorder]
   double vt_num_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h:236:41: warning:   when initialized here [-Wreorder]
 template < typename targetidentifierT > STDPCosExpConnection< targetidentifierT >::STDPCosExpConnection( const STDPCosExpConnect
                                         ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:32:0:
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h: In instantiation of ‘mynest::STDPCosExpConnection<targetidentifierT>::STDPCosExpConnection() [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connector_model.h:181:25:   required from ‘nest::GenericConnectorModel<ConnectionT>::GenericConnectorModel(std::__cxx11::string, bool, bool, bool, bool, bool) [with ConnectionT = mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/nest-simulator/b/include/nest/model_manager_impl.h:93:32:   required from ‘void nest::ModelManager::register_connection_model(const string&, bool, bool) [with ConnectionT = mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>; ConnectorModelT = nest::GenericConnectorModel; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/nest-simulator/b/include/nest/model_manager_impl.h:114:66:   required from ‘void nest::ModelManager::register_connection_model(const string&, bool, bool) [with ConnectionT = mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>; std::__cxx11::string = std::__cxx11::basic_string<char>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:147:61:   required from here
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h:216:10: warning: ‘mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>::t_last_update_’ will be initialized after [-Wreorder]
   double t_last_update_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h:208:10: warning:   ‘double mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>::vt_num_’ [-Wreorder]
   double vt_num_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h:225:41: warning:   when initialized here [-Wreorder]
 template < typename targetidentifierT > STDPCosExpConnection< targetidentifierT >::STDPCosExpConnection()
                                         ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:32:0:
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h: In instantiation of ‘mynest::STDPCosExpConnection<targetidentifierT>::STDPCosExpConnection(const mynest::STDPCosExpConnection<targetidentifierT>&) [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connection_label.h:54:7:   required from ‘void nest::GenericConnectorModel<ConnectionT>::add_connection(nest::Node&, nest::Node&, std::vector<nest::ConnectorBase*>&, nest::synindex, const DictionaryDatum&, double, double) [with ConnectionT = nest::ConnectionLabel<mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport> >; nest::synindex = unsigned int; DictionaryDatum = lockPTRDatum<Dictionary, (& SLIInterpreter::Dictionarytype)>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:157:1:   required from here
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h:216:10: warning: ‘mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>::t_last_update_’ will be initialized after [-Wreorder]
   double t_last_update_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h:208:10: warning:   ‘double mynest::STDPCosExpConnection<nest::TargetIdentifierPtrRport>::vt_num_’ [-Wreorder]
   double vt_num_;
          ^
/home/alberto/workspace/CerebNEST/stdp_connection_cosexp.h:236:41: warning:   when initialized here [-Wreorder]
 template < typename targetidentifierT > STDPCosExpConnection< targetidentifierT >::STDPCosExpConnection( const STDPCosExpConnect
                                         ^

Sgritta2017

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:35:0:
/home/alberto/workspace/CerebNEST/Sgritta2017.h: In instantiation of ‘mynest::Sgritta2017<targetidentifierT>::Sgritta2017(const mynest::Sgritta2017<targetidentifierT>&) [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connection_label.h:54:7:   required from ‘void nest::GenericConnectorModel<ConnectionT>::add_connection(nest::Node&, nest::Node&, std::vector<nest::ConnectorBase*>&, nest::synindex, const DictionaryDatum&, double, double) [with ConnectionT = nest::ConnectionLabel<mynest::Sgritta2017<nest::TargetIdentifierPtrRport> >; nest::synindex = unsigned int; DictionaryDatum = lockPTRDatum<Dictionary, (& SLIInterpreter::Dictionarytype)>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:157:1:   required from here
/home/alberto/workspace/CerebNEST/Sgritta2017.h:449:10: warning: ‘mynest::Sgritta2017<nest::TargetIdentifierPtrRport>::Wmin_’ will be initialized after [-Wreorder]
   double Wmin_;
          ^
/home/alberto/workspace/CerebNEST/Sgritta2017.h:448:10: warning:   ‘double mynest::Sgritta2017<nest::TargetIdentifierPtrRport>::Kplus_’ [-Wreorder]
   double Kplus_;
          ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:35:0:
/home/alberto/workspace/CerebNEST/Sgritta2017.h:638:1: warning:   when initialized here [-Wreorder]
 Sgritta2017< targetidentifierT >::Sgritta2017(
 ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:35:0:
/home/alberto/workspace/CerebNEST/Sgritta2017.h: In instantiation of ‘mynest::Sgritta2017<targetidentifierT>::Sgritta2017(const mynest::Sgritta2017<targetidentifierT>&) [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connection_label.h:54:7:   required from ‘void nest::GenericConnectorModel<ConnectionT>::add_connection(nest::Node&, nest::Node&, std::vector<nest::ConnectorBase*>&, nest::synindex, const DictionaryDatum&, double, double) [with ConnectionT = nest::ConnectionLabel<mynest::Sgritta2017<nest::TargetIdentifierPtrRport> >; nest::synindex = unsigned int; DictionaryDatum = lockPTRDatum<Dictionary, (& SLIInterpreter::Dictionarytype)>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:157:1:   required from here
/home/alberto/workspace/CerebNEST/Sgritta2017.h:449:10: warning: ‘mynest::Sgritta2017<nest::TargetIdentifierPtrRport>::Wmin_’ will be initialized after [-Wreorder]
   double Wmin_;
          ^
/home/alberto/workspace/CerebNEST/Sgritta2017.h:448:10: warning:   ‘double mynest::Sgritta2017<nest::TargetIdentifierPtrRport>::Kplus_’ [-Wreorder]
   double Kplus_;
          ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:35:0:
/home/alberto/workspace/CerebNEST/Sgritta2017.h:638:1: warning:   when initialized here [-Wreorder]
 Sgritta2017< targetidentifierT >::Sgritta2017(
 ^

iSTDP

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:34:0:
/home/alberto/workspace/CerebNEST/iSTDP.h: In instantiation of ‘mynest::iSTDP<targetidentifierT>::iSTDP(const mynest::iSTDP<targetidentifierT>&) [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connection_label.h:54:7:   required from ‘void nest::GenericConnectorModel<ConnectionT>::add_connection(nest::Node&, nest::Node&, std::vector<nest::ConnectorBase*>&, nest::synindex, const DictionaryDatum&, double, double) [with ConnectionT = nest::ConnectionLabel<mynest::iSTDP<nest::TargetIdentifierPtrRport> >; nest::synindex = unsigned int; DictionaryDatum = lockPTRDatum<Dictionary, (& SLIInterpreter::Dictionarytype)>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:157:1:   required from here
/home/alberto/workspace/CerebNEST/iSTDP.h:216:10: warning: ‘mynest::iSTDP<nest::TargetIdentifierPtrRport>::Wmin_’ will be initialized after [-Wreorder]
   double Wmin_;
          ^
/home/alberto/workspace/CerebNEST/iSTDP.h:215:10: warning:   ‘double mynest::iSTDP<nest::TargetIdentifierPtrRport>::Kplus_’ [-Wreorder]
   double Kplus_;
          ^
/home/alberto/workspace/CerebNEST/iSTDP.h:318:1: warning:   when initialized here [-Wreorder]
 iSTDP< targetidentifierT >::iSTDP(
 ^

In file included from /home/alberto/workspace/CerebNEST/cerebmodule.cpp:34:0:
/home/alberto/workspace/CerebNEST/iSTDP.h: In instantiation of ‘mynest::iSTDP<targetidentifierT>::iSTDP(const mynest::iSTDP<targetidentifierT>&) [with targetidentifierT = nest::TargetIdentifierPtrRport]’:
/home/alberto/workspace/nest-simulator/b/include/nest/connection_label.h:54:7:   required from ‘void nest::GenericConnectorModel<ConnectionT>::add_connection(nest::Node&, nest::Node&, std::vector<nest::ConnectorBase*>&, nest::synindex, const DictionaryDatum&, double, double) [with ConnectionT = nest::ConnectionLabel<mynest::iSTDP<nest::TargetIdentifierPtrRport> >; nest::synindex = unsigned int; DictionaryDatum = lockPTRDatum<Dictionary, (& SLIInterpreter::Dictionarytype)>]’
/home/alberto/workspace/CerebNEST/cerebmodule.cpp:157:1:   required from here
/home/alberto/workspace/CerebNEST/iSTDP.h:216:10: warning: ‘mynest::iSTDP<nest::TargetIdentifierPtrRport>::Wmin_’ will be initialized after [-Wreorder]
   double Wmin_;
          ^
/home/alberto/workspace/CerebNEST/iSTDP.h:215:10: warning:   ‘double mynest::iSTDP<nest::TargetIdentifierPtrRport>::Kplus_’ [-Wreorder]
   double Kplus_;
          ^
/home/alberto/workspace/CerebNEST/iSTDP.h:318:1: warning:   when initialized here [-Wreorder]
 iSTDP< targetidentifierT >::iSTDP(
 ^

CereNEST does not compile for Python 3.8+, missing function cgi.escape()

Looks like cgi.escape() was removed in Python 3.8+, so CerebNEST does not compile

Traceback (most recent call last):
  File "generate_help.py", line 135, in <module>
    line = cgi.escape(line)
AttributeError: module 'cgi' has no attribute 'escape'
CMakeFiles/generate_help.dir/build.make:57: recipe for target 'generate_help' failed
make[2]: *** [generate_help] Error 1
CMakeFiles/Makefile2:173: recipe for target 'CMakeFiles/generate_help.dir/all' failed
make[1]: *** [CMakeFiles/generate_help.dir/all] Error 2
Makefile:151: recipe for target 'all' failed
make: *** [all] Error 2

Supervisor/supervisor#1257

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