Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.') ********************************************************
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_modules.
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
1. add the files to models/CMakeLists.txt 2. #include the files in models/modelsmodule.cpp 3. add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, the string the name it will have in NEST 4. recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda <arabayda@masonlive.gmu.edumailto:arabayda@masonlive.gmu.edu> wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.') ******************************************************** <issue_UnknownModelName_4_May_2020>_______________________________________________ NEST Users mailing list -- users@nest-simulator.orgmailto:users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.orgmailto:users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser
Hi,
I just want to take the chance to advertise NESTML, a domain-specific language that you can use to write custom neuron models for NEST in an easy syntax (without writing any C++ at all).
For more information, I will pass you the "sneak preview" link to the new NESTML documentation: https://nestml-api-documentation.readthedocs.io/
If you decide to do your neuron modelling via NESTML, I would be happy to give you additional pointers, on- or off-list.
With kind regards, Charl
On Wed, May 6, 2020, at 08:33, Hans Ekkehard Plesser wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_modules.
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
- add the files to models/CMakeLists.txt
- #include the files in models/modelsmodule.cpp
- add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, the string the name it will have in NEST 4. recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.')
<issue_UnknownModelName_4_May_2020>_______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
Charl, Is it like a .mod file in NEURON?
Thanks, Itaru.
On Wed, May 6, 2020 at 5:32 PM Charl Linssen nest-users@turingbirds.com wrote:
Hi,
I just want to take the chance to advertise NESTML, a domain-specific language that you can use to write custom neuron models for NEST in an easy syntax (without writing any C++ at all).
For more information, I will pass you the "sneak preview" link to the new NESTML documentation: https://nestml-api-documentation.readthedocs.io/
If you decide to do your neuron modelling via NESTML, I would be happy to give you additional pointers, on- or off-list.
With kind regards, Charl
On Wed, May 6, 2020, at 08:33, Hans Ekkehard Plesser wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_modules.
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
- add the files to models/CMakeLists.txt
- #include the files in models/modelsmodule.cpp
- add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, the string the name it will have in NEST
- recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.')
<issue_UnknownModelName_4_May_2020>_______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
Hi Itaru,
You are quite right, there are a lot of similarities between NMODL and NESTML.
Kind regards, Charl
On Wed, May 6, 2020, at 10:36, Itaru Kitayama wrote:
Charl, Is it like a .mod file in NEURON?
Thanks, Itaru.
On Wed, May 6, 2020 at 5:32 PM Charl Linssen nest-users@turingbirds.com wrote:
Hi,
I just want to take the chance to advertise NESTML, a domain-specific language that you can use to write custom neuron models for NEST in an easy syntax (without writing any C++ at all).
For more information, I will pass you the "sneak preview" link to the new NESTML documentation: https://nestml-api-documentation.readthedocs.io/
If you decide to do your neuron modelling via NESTML, I would be happy to give you additional pointers, on- or off-list.
With kind regards, Charl
On Wed, May 6, 2020, at 08:33, Hans Ekkehard Plesser wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_modules.
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
- add the files to models/CMakeLists.txt
- #include the files in models/modelsmodule.cpp
- add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, the string the name it will have in NEST
- recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.')
<issue_UnknownModelName_4_May_2020>_______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
Charl, Thanks. I'll look forward to "The NEST Book." then.
On Wed, May 6, 2020 at 5:41 PM Charl Linssen nest-users@turingbirds.com wrote:
Hi Itaru,
You are quite right, there are a lot of similarities between NMODL and NESTML.
Kind regards, Charl
On Wed, May 6, 2020, at 10:36, Itaru Kitayama wrote:
Charl, Is it like a .mod file in NEURON?
Thanks, Itaru.
On Wed, May 6, 2020 at 5:32 PM Charl Linssen nest-users@turingbirds.com wrote:
Hi,
I just want to take the chance to advertise NESTML, a domain-specific language that you can use to write custom neuron models for NEST in an easy syntax (without writing any C++ at all).
For more information, I will pass you the "sneak preview" link to the new NESTML documentation: https://nestml-api-documentation.readthedocs.io/
If you decide to do your neuron modelling via NESTML, I would be happy to give you additional pointers, on- or off-list.
With kind regards, Charl
On Wed, May 6, 2020, at 08:33, Hans Ekkehard Plesser wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_modules.
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
- add the files to models/CMakeLists.txt
- #include the files in models/modelsmodule.cpp
- add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, the string the name it will have in NEST
- recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.')
<issue_UnknownModelName_4_May_2020>_______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
I think if a user is quite familiar with C++ as often the case with neuroscientists, then writing a module directly in C++ would give him/her a greater deal of freedom and debugging opportunities.
On Wed, May 6, 2020 at 5:44 PM Itaru Kitayama itaru.kitayama@gmail.com wrote:
Charl, Thanks. I'll look forward to "The NEST Book." then.
On Wed, May 6, 2020 at 5:41 PM Charl Linssen nest-users@turingbirds.com wrote:
Hi Itaru,
You are quite right, there are a lot of similarities between NMODL and NESTML.
Kind regards, Charl
On Wed, May 6, 2020, at 10:36, Itaru Kitayama wrote:
Charl, Is it like a .mod file in NEURON?
Thanks, Itaru.
On Wed, May 6, 2020 at 5:32 PM Charl Linssen nest-users@turingbirds.com wrote:
Hi,
I just want to take the chance to advertise NESTML, a domain-specific language that you can use to write custom neuron models for NEST in an easy syntax (without writing any C++ at all).
For more information, I will pass you the "sneak preview" link to the new NESTML documentation: https://nestml-api-documentation.readthedocs.io/
If you decide to do your neuron modelling via NESTML, I would be happy to give you additional pointers, on- or off-list.
With kind regards, Charl
On Wed, May 6, 2020, at 08:33, Hans Ekkehard Plesser wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_modules.
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
- add the files to models/CMakeLists.txt
- #include the files in models/modelsmodule.cpp
- add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, the string the name it will have in NEST
- recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.')
<issue_UnknownModelName_4_May_2020>_______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
**** Error at bottom of email: #include [linkages appear missing w/ NEST source directories:. ./libnestutil, ./nestkernal,, and ./sli ]****
Hans, Thank you for your suggestions on May 6th. I've since built my own module, 'My2Module' per your guidance and that on https://nest.github.io/nest-simulator/extension_modules https://secure-web.cisco.com/1OkG_4Lw1yXYSv9Bo1mMO2W05lnXnEL03XeGcAPY__8APmBFD6LJj5zzZE42doCxkKRobTud5P4AT-oAs4WO_e4LtGvMBLDNRl2akKXbAPU8F8r9Rm4A-tpRybnnEUh062b56HNleUWk7QJ6N1WbDPtfI2tSIZfBrNSy7ZS4MsvzYfYHFlpG8GQQde5gApJecM5CFQEEP9CGymqYZ18LQ3zj1pcYeYG_L4XhXZhfL9be5WtSMrDZVy_ZeB0g3Qorb-lhDrLguvPgqUhCze8vfsqesaXfTpE3HtpsEMUcfd3Xc5vUP1KU6rRWzSAw8az7wM5CxmAlax7wYyP8eT_0bQAweIakbsUW3bXaCT9znQv15l-qoBLExOyTKQvbcyNiwLEBNflla-_MsLueEemTJ1NRiHSI7kGavYtpaKaeXtlSy7q0YU9lIMHnnS0AWr5keolzddt0U0uCpJmO2uL9FUA/https%3A%2F%2Fnest.github.io%2Fnest-simulator%2Fextension_modules. Unfortunately it appears the NEST source directories ./libnestutil, ./nestkernal,, and ./sli are not visible/linked to my2module.cpp
Is this non-linkage to be expected as it forces every "#include' in my2module.cpp and my STDP model to have its absolute path included?
Below I show how I adapted/complied the example MyModule included on github and the error message I get (bottom of email).
Thank you for any further suggestions.
Best Regards, --Allen
---------CREATE MODULE: 1 directory copied, 4 files updated, 2 files added------------ 1. Make Module directory /home/nest/work/nest-install/examples/MyModule copied/renamed to: /home/nest/examples/My2Module
Two files with new STDP model added: stdp_izh_bitwise_correct_connection.cpp stdp_izh_bitwise_correct_connection.h
2. Updated "myModule.cpp" name changed to "my2Module.cpp", references within updated
New STDP Model Listed by adding line: #include "stdp_izh_bitwise_correct_connection.h"
New STDP Model Registered with model manager by adding line: nest.kernel().model_manager.register_connection_model<STDPIzhBitwiseCorrectConnection<nest::TargetIdentifierPtrRport
( "stdp_izh_bitwise_correct_connection" );]
3. Updated "myModule.h" name changed to "my2Module.h"
two absolute paths inserted (correct missing file error): #include "/home/nest/work/nest-simulator-2.18.0/sli/slifunction.h" #include "/home/nest/work/nest-simulator-2.18.0/sli/slimodule.h"
4. Updated "CMakeLists.txt" SHORT_NAME renamed to "my2", references within updated
MODEL_SOURCE added: stdp_izh_bitwise_correct_connection.cpp stdp_izh_bitwise_correct_connection.h
5. Updated "mymodule-init.sli" name changed to "my2module-init.sli", references within/across files above updated
--------------------------------------------------------------
------------CMAKE Nest Build/Install (explicitly followed instructions)--------- $ export NEST_INSTALL_DIR=/home/nest/work/nest-install $ cd /home/nest/examples/My2Module $ cd .. $ mkdir mmb $ cd mmb $ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module $ make
********************** ***ERROR MSG*** make: *** No targets specified and no makefile found. Stop. ********************* *********************
*** changed directory from ./mmb to ./My2Module then re-ran make*****
$ cd ~ examples/My2Module $ make
***************'******* ***ERROR MSG**** Scanning dependencies of target my2module_module [ 10%] Building CXX object CMakeFiles/my2module_module.dir/my2module.cpp.o In file included from /home/nest/examples/My2Module/my2module.cpp:29:0: /home/nest/examples/My2Module/drop_odd_spike_connection.h:27:10: fatal error: connection.h: No such file or directory #include "connection.h" ********************** *********************
On Wed, May 6, 2020 at 2:33 AM Hans Ekkehard Plesser < hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_modules https://secure-web.cisco.com/1OkG_4Lw1yXYSv9Bo1mMO2W05lnXnEL03XeGcAPY__8APmBFD6LJj5zzZE42doCxkKRobTud5P4AT-oAs4WO_e4LtGvMBLDNRl2akKXbAPU8F8r9Rm4A-tpRybnnEUh062b56HNleUWk7QJ6N1WbDPtfI2tSIZfBrNSy7ZS4MsvzYfYHFlpG8GQQde5gApJecM5CFQEEP9CGymqYZ18LQ3zj1pcYeYG_L4XhXZhfL9be5WtSMrDZVy_ZeB0g3Qorb-lhDrLguvPgqUhCze8vfsqesaXfTpE3HtpsEMUcfd3Xc5vUP1KU6rRWzSAw8az7wM5CxmAlax7wYyP8eT_0bQAweIakbsUW3bXaCT9znQv15l-qoBLExOyTKQvbcyNiwLEBNflla-_MsLueEemTJ1NRiHSI7kGavYtpaKaeXtlSy7q0YU9lIMHnnS0AWr5keolzddt0U0uCpJmO2uL9FUA/https%3A%2F%2Fnest.github.io%2Fnest-simulator%2Fextension_modules .
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
- add the files to models/CMakeLists.txt
- #include the files in models/modelsmodule.cpp
- add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, the stringthe name it will have in NEST 4. recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.')
<issue_UnknownModelName_4_May_2020> _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser http://secure-web.cisco.com/1NGU903Sz1mZbu-kUPO3tQjT8UGyiDXuL1fL2jQ0S4SkecW_uuWYlUr2l7vZeLiTlDo3I1xA_9Uf9v2N2p6tjNn25_ocHbrkd2JTx3GnGb-vebjXVovfSgdnKywi7KN485GJR_TQFVuJx5_MF6BXctVjmSoVYFiOG8Mu-TNlxK_xmGEWTPq3fhJXq122hpV7ruHShklc4kmqI33bXV1ZEU5eouIGhJ9nWmVo-NDeVaimFTzO6qmmGUU8EmR5e85dLtIrPmdtDprPb6mYTmwlmgj1lXqSapHgZL1zIn5I8o20lNXdX7P9nJVozEyOsAC9-TANbvcvJ4GMYG2gqDGBhlRa8QFDC9bpJFc6GW_bJhvI45kyeJj_P-qg6vmCiw6UCdxjNZSxzNTt4B7wtYDbj8F7EPJbVjtAeY5zLpAYyKQsL_mXRdL5yHAz35VHWlUwy/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
Hi Allen,
Below I show how I adapted/complied the example MyModule included on github and the error message I get (bottom of email).
The steps look generally good.
two absolute paths inserted (correct missing file error): #include "/home/nest/work/nest-simulator-2.18.0/sli/slifunction.h" #include "/home/nest/work/nest-simulator-2.18.0/sli/slimodule.h"
You should not need the absolute paths, just the filenames should suffice.
$ cd mmb $ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module $ make
Could you post the output of the cmake command?
And also the output of the following command
${NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags
Best, Hans Ekkehard
********************** ***ERROR MSG*** make: *** No targets specified and no makefile found. Stop. ********************* *********************
*** changed directory from ./mmb to ./My2Module then re-ran make*****
$ cd ~ examples/My2Module $ make
***************'******* ***ERROR MSG**** Scanning dependencies of target my2module_module [ 10%] Building CXX object CMakeFiles/my2module_module.dir/my2module.cpp.o In file included from /home/nest/examples/My2Module/my2module.cpp:29:0: /home/nest/examples/My2Module/drop_odd_spike_connection.h:27:10: fatal error: connection.h: No such file or directory #include "connection.h" ********************** *********************
On Wed, May 6, 2020 at 2:33 AM Hans Ekkehard Plesser <hans.ekkehard.plesser@nmbu.nomailto:hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_moduleshttps://secure-web.cisco.com/1OkG_4Lw1yXYSv9Bo1mMO2W05lnXnEL03XeGcAPY__8APmBFD6LJj5zzZE42doCxkKRobTud5P4AT-oAs4WO_e4LtGvMBLDNRl2akKXbAPU8F8r9Rm4A-tpRybnnEUh062b56HNleUWk7QJ6N1WbDPtfI2tSIZfBrNSy7ZS4MsvzYfYHFlpG8GQQde5gApJecM5CFQEEP9CGymqYZ18LQ3zj1pcYeYG_L4XhXZhfL9be5WtSMrDZVy_ZeB0g3Qorb-lhDrLguvPgqUhCze8vfsqesaXfTpE3HtpsEMUcfd3Xc5vUP1KU6rRWzSAw8az7wM5CxmAlax7wYyP8eT_0bQAweIakbsUW3bXaCT9znQv15l-qoBLExOyTKQvbcyNiwLEBNflla-_MsLueEemTJ1NRiHSI7kGavYtpaKaeXtlSy7q0YU9lIMHnnS0AWr5keolzddt0U0uCpJmO2uL9FUA/https%3A%2F%2Fnest.github.io%2Fnest-simulator%2Fextension_modules.
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
1. add the files to models/CMakeLists.txt 2. #include the files in models/modelsmodule.cpp 3. add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, the string the name it will have in NEST 4. recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda <arabayda@masonlive.gmu.edumailto:arabayda@masonlive.gmu.edu> wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.') ******************************************************** <issue_UnknownModelName_4_May_2020>_______________________________________________ NEST Users mailing list -- users@nest-simulator.orgmailto:users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.orgmailto:users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.nohttp://nmbu.no/ Home http://arken.nmbu.no/~plesserhttp://secure-web.cisco.com/1NGU903Sz1mZbu-kUPO3tQjT8UGyiDXuL1fL2jQ0S4SkecW_uuWYlUr2l7vZeLiTlDo3I1xA_9Uf9v2N2p6tjNn25_ocHbrkd2JTx3GnGb-vebjXVovfSgdnKywi7KN485GJR_TQFVuJx5_MF6BXctVjmSoVYFiOG8Mu-TNlxK_xmGEWTPq3fhJXq122hpV7ruHShklc4kmqI33bXV1ZEU5eouIGhJ9nWmVo-NDeVaimFTzO6qmmGUU8EmR5e85dLtIrPmdtDprPb6mYTmwlmgj1lXqSapHgZL1zIn5I8o20lNXdX7P9nJVozEyOsAC9-TANbvcvJ4GMYG2gqDGBhlRa8QFDC9bpJFc6GW_bJhvI45kyeJj_P-qg6vmCiw6UCdxjNZSxzNTt4B7wtYDbj8F7EPJbVjtAeY5zLpAYyKQsL_mXRdL5yHAz35VHWlUwy/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
_______________________________________________ NEST Users mailing list -- users@nest-simulator.orgmailto:users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.orgmailto:users-leave@nest-simulator.org _______________________________________________ NEST Users mailing list -- users@nest-simulator.orgmailto:users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.orgmailto:users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser
Hi,
Just to link these discussions: see also https://github.com/nest/nest-simulator/issues/1331
Kind regards, Charl
On Wed, May 20, 2020, at 09:08, Hans Ekkehard Plesser wrote:
Hi Allen,
Below I show how I adapted/complied the example MyModule included on github and the error message I get (bottom of email).
The steps look generally good.
two absolute paths inserted (correct missing file error): #include "/home/nest/work/nest-simulator-2.18.0/sli/slifunction.h" #include "/home/nest/work/nest-simulator-2.18.0/sli/slimodule.h"
You should not need the absolute paths, just the filenames should suffice.
$ cd mmb $ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module $ make
Could you post the output of the cmake command?
And also the output of the following command
${NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags
Best, Hans Ekkehard
***ERROR MSG*** make: *** No targets specified and no makefile found. Stop.
*** changed directory from ./mmb to ./My2Module then re-ran make*****
$ cd ~ examples/My2Module $ make
***************'******* ***ERROR MSG**** Scanning dependencies of target my2module_module [ 10%] Building CXX object CMakeFiles/my2module_module.dir/my2module.cpp.o In file included from /home/nest/examples/My2Module/my2module.cpp:29:0: /home/nest/examples/My2Module/drop_odd_spike_connection.h:27:10: fatal error: connection.h: No such file or directory #include "connection.h"
On Wed, May 6, 2020 at 2:33 AM Hans Ekkehard Plesser hans.ekkehard.plesser@nmbu.no wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_modules https://secure-web.cisco.com/1OkG_4Lw1yXYSv9Bo1mMO2W05lnXnEL03XeGcAPY__8APmBFD6LJj5zzZE42doCxkKRobTud5P4AT-oAs4WO_e4LtGvMBLDNRl2akKXbAPU8F8r9Rm4A-tpRybnnEUh062b56HNleUWk7QJ6N1WbDPtfI2tSIZfBrNSy7ZS4MsvzYfYHFlpG8GQQde5gApJecM5CFQEEP9CGymqYZ18LQ3zj1pcYeYG_L4XhXZhfL9be5WtSMrDZVy_ZeB0g3Qorb-lhDrLguvPgqUhCze8vfsqesaXfTpE3HtpsEMUcfd3Xc5vUP1KU6rRWzSAw8az7wM5CxmAlax7wYyP8eT_0bQAweIakbsUW3bXaCT9znQv15l-qoBLExOyTKQvbcyNiwLEBNflla-_MsLueEemTJ1NRiHSI7kGavYtpaKaeXtlSy7q0YU9lIMHnnS0AWr5keolzddt0U0uCpJmO2uL9FUA/https%3A%2F%2Fnest.github.io%2Fnest-simulator%2Fextension_modules.
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
- add the files to models/CMakeLists.txt
- #include the files in models/modelsmodule.cpp
- add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, the string the name it will have in NEST 4. recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.')
<issue_UnknownModelName_4_May_2020>_______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser http://secure-web.cisco.com/1NGU903Sz1mZbu-kUPO3tQjT8UGyiDXuL1fL2jQ0S4SkecW_uuWYlUr2l7vZeLiTlDo3I1xA_9Uf9v2N2p6tjNn25_ocHbrkd2JTx3GnGb-vebjXVovfSgdnKywi7KN485GJR_TQFVuJx5_MF6BXctVjmSoVYFiOG8Mu-TNlxK_xmGEWTPq3fhJXq122hpV7ruHShklc4kmqI33bXV1ZEU5eouIGhJ9nWmVo-NDeVaimFTzO6qmmGUU8EmR5e85dLtIrPmdtDprPb6mYTmwlmgj1lXqSapHgZL1zIn5I8o20lNXdX7P9nJVozEyOsAC9-TANbvcvJ4GMYG2gqDGBhlRa8QFDC9bpJFc6GW_bJhvI45kyeJj_P-qg6vmCiw6UCdxjNZSxzNTt4B7wtYDbj8F7EPJbVjtAeY5zLpAYyKQsL_mXRdL5yHAz35VHWlUwy/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
Hans, Below is the output from my 1) "cmake" and 2) " {NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags" commands. Thank you, --Allen
Charl, I had not yet tried any of the processes on https://github.com/nest/nest-simulator/issues/1331. Thank you,--Allen
***************** 1) CMAKE OUTPUT: *****************
nest@nestvm:~/examples/My2Module$ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module
------------------------------------------------------- my2module Configuration Summary -------------------------------------------------------
C++ compiler : /usr/bin/c++ Build static libs : OFF C++ compiler flags : NEST compiler flags : -std=c++11 -O2 -Wall -fopenmp -pthread -fdiagnostics-color=auto NEST include dirs : -I/home/nest/work/nest-simulator-2.18.0/conngen -I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include NEST libraries flags : -L/home/nest/work/nest-install/lib -lconngen -lnestutil -lnest -lrandom -lsli -lnestkernel -ltopology -fopenmp /usr/lib/x86_64-linux-gnu/libltdl.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so /usr/lib/x86_64-linux-gnu/libmusic.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so
-------------------------------------------------------
You can now build and install 'my2module' using make make install
The library file libmy2module.so will be installed to /home/nest/work/nest-install/lib/nest Help files will be installed to /home/nest/work/nest-install/share/doc/nest
The module can be loaded into NEST using (my2module) Install (in SLI) nest.Install('my2module') (in PyNEST)
The module will be installed into a non-default location! Make sure to set the environment variables: export NEST_MODULE_PATH=/home/nest/work/nest-install/lib/nest:$NEST_MODULE_PATH export SLI_PATH=/home/nest/work/nest-install/share/nest/sli:$SLI_PATH
-- Configuring done -- Generating done -- Build files have been written to: /home/nest/examples/My2Module -----------------------------------------------------
***************** 2) "{NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags OUTPUT
*****************
nest@nestvm:~$ export NEST_INSTALL_DIR=/home/nest/work/nest-install nest@nestvm:~$ {NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags bash: {NEST_INSTALL_DIR}/bin/nest-config: No such file or directory ***************** then added absolute path to produce output below ***************** nest@nestvm:~$ /home/nest/work/nest-install/bin/nest-config --prefix --includes --libs --cflags /home/nest/work/nest-install -I/home/nest/work/nest-simulator-2.18.0/conngen -I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -L/home/nest/work/nest-install/lib -lconngen -lnestutil -lnest -lrandom -lsli -lnestkernel -ltopology -fopenmp /usr/lib/x86_64-linux-gnu/libltdl.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so /usr/lib/x86_64-linux-gnu/libmusic.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so -std=c++11 -O2 -Wall -fopenmp -pthread -fdiagnostics-color=auto ***************** END *****************
On Wed, May 20, 2020 at 3:47 AM Charl Linssen nest-users@turingbirds.com wrote:
Hi,
Just to link these discussions: see also https://github.com/nest/nest-simulator/issues/1331 https://secure-web.cisco.com/1ZSoZdO3QZUbfIeZPV6mH8fc-L_98EQC-isgNAmExSsl2H_Oi0LgBa4frA2RXkdjulu42MXUyOLYK8ArGIwNN5oU8H3uCIXd89DNyy9Md14DgaXhd_RWdV3YyvPFZfzFvXxJi9xoTlFhYp6TfLwR2FadlUfia_3Zq2WqdTuICTOubyuuSwkK3J23DUOqSel74ebZbeHmon3iJ9xXtAgRkNUIX-3fzaz6VFhMICLU6I2MH_dZtS73je0f4r9arPTT67jZNDMOZIP9MBRJz0LSqziL2R1aGL4UZkNfepzpVrhyZEZPm-YGztMjq0cIXKDb1y3ZL4fYtDgS_LXtwk5telmBaODPj_-Bzd7FC3I0cF2R7H-58WGxeFXxO5mlDGILKkY-fmwBrkRV0sbqoBLjUhblSX97Ih4A84ptDwpf13e1viia0WkPDS6pmBsRDm00klFx8oSSmSugzb-CIgmbi7g/https%3A%2F%2Fgithub.com%2Fnest%2Fnest-simulator%2Fissues%2F1331
Kind regards, Charl
On Wed, May 20, 2020, at 09:08, Hans Ekkehard Plesser wrote:
Hi Allen,
Below I show how I adapted/complied the example MyModule included on github and the error message I get (bottom of email).
The steps look generally good.
two absolute paths inserted (correct missing file error): #include "/home/nest/work/nest-simulator-2.18.0/sli/slifunction.h" #include "/home/nest/work/nest-simulator-2.18.0/sli/slimodule.h"
You should not need the absolute paths, just the filenames should suffice.
$ cd mmb $ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module $ make
Could you post the output of the cmake command?
And also the output of the following command
${NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags
Best, Hans Ekkehard
***ERROR MSG*** make: *** No targets specified and no makefile found. Stop.
*** changed directory from ./mmb to ./My2Module then re-ran make*****
$ cd ~ examples/My2Module $ make
***************'******* ***ERROR MSG**** Scanning dependencies of target my2module_module [ 10%] Building CXX object CMakeFiles/my2module_module.dir/my2module.cpp.o In file included from /home/nest/examples/My2Module/my2module.cpp:29:0: /home/nest/examples/My2Module/drop_odd_spike_connection.h:27:10: fatal error: connection.h: No such file or directory #include "connection.h"
On Wed, May 6, 2020 at 2:33 AM Hans Ekkehard Plesser < hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_modules https://secure-web.cisco.com/1OkG_4Lw1yXYSv9Bo1mMO2W05lnXnEL03XeGcAPY__8APmBFD6LJj5zzZE42doCxkKRobTud5P4AT-oAs4WO_e4LtGvMBLDNRl2akKXbAPU8F8r9Rm4A-tpRybnnEUh062b56HNleUWk7QJ6N1WbDPtfI2tSIZfBrNSy7ZS4MsvzYfYHFlpG8GQQde5gApJecM5CFQEEP9CGymqYZ18LQ3zj1pcYeYG_L4XhXZhfL9be5WtSMrDZVy_ZeB0g3Qorb-lhDrLguvPgqUhCze8vfsqesaXfTpE3HtpsEMUcfd3Xc5vUP1KU6rRWzSAw8az7wM5CxmAlax7wYyP8eT_0bQAweIakbsUW3bXaCT9znQv15l-qoBLExOyTKQvbcyNiwLEBNflla-_MsLueEemTJ1NRiHSI7kGavYtpaKaeXtlSy7q0YU9lIMHnnS0AWr5keolzddt0U0uCpJmO2uL9FUA/https%3A%2F%2Fnest.github.io%2Fnest-simulator%2Fextension_modules .
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
- add the files to models/CMakeLists.txt
- #include the files in models/modelsmodule.cpp
- add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, the stringthe name it will have in NEST 4. recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.')
<issue_UnknownModelName_4_May_2020> _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no http://secure-web.cisco.com/1MZeV7tfgcKPl9mXCQjzVk-ZMtF_D1dr2oegLAsr1g2yZXyJkwQ_rSsb41hEW4mO0ZvHwDBhj_2L9V6ZMcZTq098bn9WovzUkjNZNECtSpRPo0z0Ga9Hd2G7f-qQsvOfsx9Ej-n1vtYfMsCOryF5XixOvhsLOjY1FEl_-oHafe_SBeBc_A43IttVqF206MWU_08dMBcllR9Qh7vGwZ031Fas5zLTCSkJwKccFSlfXTySAX9tz7WslqCBmQAPpqqMeVw6UAahNnAMDbGQpuVFDCQbQeNJ2wKagzlaGd4jM2aNU5K0SkhKgKIyvDnZneQXkNvrZv8IXuN468sOxGd3J0xoCcWIV9kUXczRmYjvb02Uf4m4k7QnT6q7rAmJrXfGCef_BA1gV7KaKqVnFg2PJiUKR1b-y6eQEEUM6yEnyPO55VJb9zQL5lZ_fzDDkgnVzD8zzOnwWi7Ce613KVhVsfg/http%3A%2F%2Fnmbu.no%2F Home http://arken.nmbu.no/~plesser http://secure-web.cisco.com/1NGU903Sz1mZbu-kUPO3tQjT8UGyiDXuL1fL2jQ0S4SkecW_uuWYlUr2l7vZeLiTlDo3I1xA_9Uf9v2N2p6tjNn25_ocHbrkd2JTx3GnGb-vebjXVovfSgdnKywi7KN485GJR_TQFVuJx5_MF6BXctVjmSoVYFiOG8Mu-TNlxK_xmGEWTPq3fhJXq122hpV7ruHShklc4kmqI33bXV1ZEU5eouIGhJ9nWmVo-NDeVaimFTzO6qmmGUU8EmR5e85dLtIrPmdtDprPb6mYTmwlmgj1lXqSapHgZL1zIn5I8o20lNXdX7P9nJVozEyOsAC9-TANbvcvJ4GMYG2gqDGBhlRa8QFDC9bpJFc6GW_bJhvI45kyeJj_P-qg6vmCiw6UCdxjNZSxzNTt4B7wtYDbj8F7EPJbVjtAeY5zLpAYyKQsL_mXRdL5yHAz35VHWlUwy/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
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--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser http://secure-web.cisco.com/1G6J2sOXzgU3M6MYhCfcsAvmUBCRyztw33VeGZy-N4aj72uLz4RVh1d-M55er4bhLnienY6JyzqkvunMi1Lxw6dLUQF2HUD_knrsf4vGBWYQioD3UaCVnQ14k4zKKcb5kRg0PJ_S9m5wq1PFMkqpKeCVmpGtYZt3LstFLkK1x5gBm59H347Qs253gwWNMTI0zK6C5J1dA9dV8zSDg6wBNavm1zTkUidJj_JVRbVjNyQepzl_ZnlVJSPHy-5VgNFP0kt0_77u_kfb_yTkJ_5_1b1WucfONFQhv7N8sA1dJ9RuC9tkiUei-RNt68UgPr1_POzOd80XLLwvNwLTHgrsPl4GIFOIuWXgOdSxJtSi-V-8TyHwblSSD7k7_m3s8UfUe15BpkgH9rKHnZXWG8rYou9Y2avsV4_jPIQas2ll8Owla0EJCmXjnyj92VlaLFjsUs3PvUo7N81Y95ON3-P4vBg/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
Hans, Below is the output from my 1) "cmake" and 2) " {NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags" commands. Thank you, --Allen
Charl, I had not yet tried any of the processes on https://github.com/nest/nest-simulator/issues/1331. Thank you,--Allen
***************** 1) CMAKE OUTPUT: *****************
nest@nestvm:~/examples/My2Module$ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module
------------------------------------------------------- my2module Configuration Summary -------------------------------------------------------
C++ compiler : /usr/bin/c++ Build static libs : OFF C++ compiler flags : NEST compiler flags : -std=c++11 -O2 -Wall -fopenmp -pthread -fdiagnostics-color=auto NEST include dirs : -I/home/nest/work/nest-simulator-2.18.0/conngen -I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include NEST libraries flags : -L/home/nest/work/nest-install/lib -lconngen -lnestutil -lnest -lrandom -lsli -lnestkernel -ltopology -fopenmp /usr/lib/x86_64-linux-gnu/libltdl.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so /usr/lib/x86_64-linux-gnu/libmusic.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so
-------------------------------------------------------
You can now build and install 'my2module' using make make install
The library file libmy2module.so will be installed to /home/nest/work/nest-install/lib/nest Help files will be installed to /home/nest/work/nest-install/share/doc/nest
The module can be loaded into NEST using (my2module) Install (in SLI) nest.Install('my2module') (in PyNEST)
The module will be installed into a non-default location! Make sure to set the environment variables: export NEST_MODULE_PATH=/home/nest/work/nest-install/lib/nest:$NEST_MODULE_PATH export SLI_PATH=/home/nest/work/nest-install/share/nest/sli:$SLI_PATH
-- Configuring done -- Generating done -- Build files have been written to: /home/nest/examples/My2Module -----------------------------------------------------
***************** 2) "{NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags OUTPUT
*****************
nest@nestvm:~$ export NEST_INSTALL_DIR=/home/nest/work/nest-install nest@nestvm:~$ {NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags bash: {NEST_INSTALL_DIR}/bin/nest-config: No such file or directory ***************** then added absolute path to produce output below ***************** nest@nestvm:~$ /home/nest/work/nest-install/bin/nest-config --prefix --includes --libs --cflags /home/nest/work/nest-install -I/home/nest/work/nest-simulator-2.18.0/conngen -I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -L/home/nest/work/nest-install/lib -lconngen -lnestutil -lnest -lrandom -lsli -lnestkernel -ltopology -fopenmp /usr/lib/x86_64-linux-gnu/libltdl.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so /usr/lib/x86_64-linux-gnu/libmusic.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so -std=c++11 -O2 -Wall -fopenmp -pthread -fdiagnostics-color=auto ***************** END *****************
On Wed, May 20, 2020 at 3:08 AM Hans Ekkehard Plesser < hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Below I show how I adapted/complied the example MyModule included on github and the error message I get (bottom of email).
The steps look generally good.
two absolute paths inserted (correct missing file error): #include "/home/nest/work/nest-simulator-2.18.0/sli/slifunction.h" #include "/home/nest/work/nest-simulator-2.18.0/sli/slimodule.h"
You should not need the absolute paths, just the filenames should suffice.
$ cd mmb $ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module $ make
Could you post the output of the cmake command?
And also the output of the following command
${NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags
Best, Hans Ekkehard
***ERROR MSG*** make: *** No targets specified and no makefile found. Stop.
*** changed directory from ./mmb to ./My2Module then re-ran make*****
$ cd ~ examples/My2Module $ make
***************'******* ***ERROR MSG**** Scanning dependencies of target my2module_module [ 10%] Building CXX object CMakeFiles/my2module_module.dir/my2module.cpp.o In file included from /home/nest/examples/My2Module/my2module.cpp:29:0: /home/nest/examples/My2Module/drop_odd_spike_connection.h:27:10: fatal error: connection.h: No such file or directory #include "connection.h"
On Wed, May 6, 2020 at 2:33 AM Hans Ekkehard Plesser < hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_modules https://secure-web.cisco.com/1OkG_4Lw1yXYSv9Bo1mMO2W05lnXnEL03XeGcAPY__8APmBFD6LJj5zzZE42doCxkKRobTud5P4AT-oAs4WO_e4LtGvMBLDNRl2akKXbAPU8F8r9Rm4A-tpRybnnEUh062b56HNleUWk7QJ6N1WbDPtfI2tSIZfBrNSy7ZS4MsvzYfYHFlpG8GQQde5gApJecM5CFQEEP9CGymqYZ18LQ3zj1pcYeYG_L4XhXZhfL9be5WtSMrDZVy_ZeB0g3Qorb-lhDrLguvPgqUhCze8vfsqesaXfTpE3HtpsEMUcfd3Xc5vUP1KU6rRWzSAw8az7wM5CxmAlax7wYyP8eT_0bQAweIakbsUW3bXaCT9znQv15l-qoBLExOyTKQvbcyNiwLEBNflla-_MsLueEemTJ1NRiHSI7kGavYtpaKaeXtlSy7q0YU9lIMHnnS0AWr5keolzddt0U0uCpJmO2uL9FUA/https%3A%2F%2Fnest.github.io%2Fnest-simulator%2Fextension_modules .
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
- add the files to models/CMakeLists.txt
- #include the files in models/modelsmodule.cpp
- add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, the stringthe name it will have in NEST 4. recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.')
<issue_UnknownModelName_4_May_2020> _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no http://secure-web.cisco.com/1oGxjTBn6G3zlyNTvv_hoyiXx9VwKKhVYGsnt8WkKZtjey0jolrbMkgNX8nwZ1_mVOfMZGiux9uomyEPFv1tB5lZkHqSDndkoq7WT3154Yx4mGDr8Arv_7jWQmncdw7br50zI6WljWy5IK7VdXa7cWJJMsib-PBr0HtFYGs5gbgToIMYR4w5rKqurTb-v0rgSNtJsrdJncRz5eqmnGWYbcKnShFCDiXti1pbbYmie86yWljTQbF0AtIphD_zoqJhi-TJYrXXjeVGyc2k_WQiq9cNQvbZlxfWAY8GM2CJWq_YnFnAj_wgKoFCuxVcs6gPmu6B-M8f9ZylTFcZTKA4SjnK6SJPiDig8sJf7qhGQW0aB1CMf88nIeQJFd5NE_nXYNkveMYHT2So_RNGY06D7hdDTA1VoxJgrV-JxlTvip1uelk7bGF8CPbWbPaNV-TAvtps_fwU_5vhhGiNNNPML6Q/http%3A%2F%2Fnmbu.no%2F Home http://arken.nmbu.no/~plesser http://secure-web.cisco.com/1NGU903Sz1mZbu-kUPO3tQjT8UGyiDXuL1fL2jQ0S4SkecW_uuWYlUr2l7vZeLiTlDo3I1xA_9Uf9v2N2p6tjNn25_ocHbrkd2JTx3GnGb-vebjXVovfSgdnKywi7KN485GJR_TQFVuJx5_MF6BXctVjmSoVYFiOG8Mu-TNlxK_xmGEWTPq3fhJXq122hpV7ruHShklc4kmqI33bXV1ZEU5eouIGhJ9nWmVo-NDeVaimFTzO6qmmGUU8EmR5e85dLtIrPmdtDprPb6mYTmwlmgj1lXqSapHgZL1zIn5I8o20lNXdX7P9nJVozEyOsAC9-TANbvcvJ4GMYG2gqDGBhlRa8QFDC9bpJFc6GW_bJhvI45kyeJj_P-qg6vmCiw6UCdxjNZSxzNTt4B7wtYDbj8F7EPJbVjtAeY5zLpAYyKQsL_mXRdL5yHAz35VHWlUwy/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
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--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser http://secure-web.cisco.com/1Yaz1kjc6VGnCjQQ1iYz5UzgeB8gnIvsxcPfiFurdqrnLLEWwnAKf1OZf_fQ2tyFo0TCRgdCgP6hn0zGKQEBdzOBDzQKjHGM9AI7d7tpeDLOm-jgCdjaiHVa1soloQe1uDkeWcKDWx4uEqNa7RanMBiY5pcihXtfkEJsP_kJi-fNMVAJUzp4PU1Q3vI-u039bL3kxazbvIqYnR5TY-jdwqAJktCuCdh8VCMEX6hNO62dDiD8Nmhpa-btsTr-jjlPsCPaNjkA7aZ08WxrEyinmMYfdOB1b38lthuLD3HSlT9yy483Jt2iLUip3GwCXeIW0c21Mqdg9KLcj65O5lAIsslHkqdpNmNjRP0K9tAMp8xrCg4JdGkK6YLINQvz65xkso4plOFxA9laXV0PUAaHgbylgRD34SSBj2I3lSM43Kofs0nQX3UWMtgmCbwFQ45EHMLfxEHKMAWZVUbLgujnSYw/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
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Hi Allen,
Thanks. It looks like a relative path has ended up in your nest-config file where it should have been an absolute path. Could you open file
nest-install/bin/nest-config
and go to roughly line 55, where you should find something like
--includes) echo " -I/home/nest/work/nest-simulator-2.18.0/conngen -I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include" ;;
Please replace within
-I../nest-install/include/nest
the .. with the absolute path. Then run cmake and make again in the My2Module build directory. You may want to delete anything in that build directory first to avoid old Cmake cached data.
Best, Hans Ekkehard
On 21 May 2020, at 22:13, Allen Rabayda <arabayda@masonlive.gmu.edumailto:arabayda@masonlive.gmu.edu> wrote:
Hans, Below is the output from my 1) "cmake" and 2) "{NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags" commands. Thank you, --Allen
Charl, I had not yet tried any of the processes on https://github.com/nest/nest-simulator/issues/1331. Thank you,--Allen
***************** 1) CMAKE OUTPUT: *****************
nest@nestvm:~/examples/My2Module$ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module
------------------------------------------------------- my2module Configuration Summary -------------------------------------------------------
C++ compiler : /usr/bin/c++ Build static libs : OFF C++ compiler flags : NEST compiler flags : -std=c++11 -O2 -Wall -fopenmp -pthread -fdiagnostics-color=auto NEST include dirs : -I/home/nest/work/nest-simulator-2.18.0/conngen -I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include NEST libraries flags : -L/home/nest/work/nest-install/lib -lconngen -lnestutil -lnest -lrandom -lsli -lnestkernel -ltopology -fopenmp /usr/lib/x86_64-linux-gnu/libltdl.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so /usr/lib/x86_64-linux-gnu/libmusic.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so
-------------------------------------------------------
You can now build and install 'my2module' using make make install
The library file libmy2module.so will be installed to /home/nest/work/nest-install/lib/nest Help files will be installed to /home/nest/work/nest-install/share/doc/nest
The module can be loaded into NEST using (my2module) Install (in SLI) nest.Install('my2module') (in PyNEST)
The module will be installed into a non-default location! Make sure to set the environment variables: export NEST_MODULE_PATH=/home/nest/work/nest-install/lib/nest:$NEST_MODULE_PATH export SLI_PATH=/home/nest/work/nest-install/share/nest/sli:$SLI_PATH
-- Configuring done -- Generating done -- Build files have been written to: /home/nest/examples/My2Module -----------------------------------------------------
***************** 2) "{NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags OUTPUT *****************
nest@nestvm:~$ export NEST_INSTALL_DIR=/home/nest/work/nest-install nest@nestvm:~$ {NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags bash: {NEST_INSTALL_DIR}/bin/nest-config: No such file or directory ***************** then added absolute path to produce output below ***************** nest@nestvm:~$ /home/nest/work/nest-install/bin/nest-config --prefix --includes --libs --cflags /home/nest/work/nest-install -I/home/nest/work/nest-simulator-2.18.0/conngen -I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -L/home/nest/work/nest-install/lib -lconngen -lnestutil -lnest -lrandom -lsli -lnestkernel -ltopology -fopenmp /usr/lib/x86_64-linux-gnu/libltdl.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so /usr/lib/x86_64-linux-gnu/libmusic.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so -std=c++11 -O2 -Wall -fopenmp -pthread -fdiagnostics-color=auto ***************** END *****************
On Wed, May 20, 2020 at 3:08 AM Hans Ekkehard Plesser <hans.ekkehard.plesser@nmbu.nomailto:hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Below I show how I adapted/complied the example MyModule included on github and the error message I get (bottom of email).
The steps look generally good.
two absolute paths inserted (correct missing file error): #include "/home/nest/work/nest-simulator-2.18.0/sli/slifunction.h" #include "/home/nest/work/nest-simulator-2.18.0/sli/slimodule.h"
You should not need the absolute paths, just the filenames should suffice.
$ cd mmb $ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module $ make
Could you post the output of the cmake command?
And also the output of the following command
${NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags
Best, Hans Ekkehard
********************** ***ERROR MSG*** make: *** No targets specified and no makefile found. Stop. ********************* *********************
*** changed directory from ./mmb to ./My2Module then re-ran make*****
$ cd ~ examples/My2Module $ make
***************'******* ***ERROR MSG**** Scanning dependencies of target my2module_module [ 10%] Building CXX object CMakeFiles/my2module_module.dir/my2module.cpp.o In file included from /home/nest/examples/My2Module/my2module.cpp:29:0: /home/nest/examples/My2Module/drop_odd_spike_connection.h:27:10: fatal error: connection.h: No such file or directory #include "connection.h" ********************** *********************
On Wed, May 6, 2020 at 2:33 AM Hans Ekkehard Plesser <hans.ekkehard.plesser@nmbu.nomailto:hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_moduleshttps://secure-web.cisco.com/1OkG_4Lw1yXYSv9Bo1mMO2W05lnXnEL03XeGcAPY__8APmBFD6LJj5zzZE42doCxkKRobTud5P4AT-oAs4WO_e4LtGvMBLDNRl2akKXbAPU8F8r9Rm4A-tpRybnnEUh062b56HNleUWk7QJ6N1WbDPtfI2tSIZfBrNSy7ZS4MsvzYfYHFlpG8GQQde5gApJecM5CFQEEP9CGymqYZ18LQ3zj1pcYeYG_L4XhXZhfL9be5WtSMrDZVy_ZeB0g3Qorb-lhDrLguvPgqUhCze8vfsqesaXfTpE3HtpsEMUcfd3Xc5vUP1KU6rRWzSAw8az7wM5CxmAlax7wYyP8eT_0bQAweIakbsUW3bXaCT9znQv15l-qoBLExOyTKQvbcyNiwLEBNflla-_MsLueEemTJ1NRiHSI7kGavYtpaKaeXtlSy7q0YU9lIMHnnS0AWr5keolzddt0U0uCpJmO2uL9FUA/https%3A%2F%2Fnest.github.io%2Fnest-simulator%2Fextension_modules.
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
1. add the files to models/CMakeLists.txt 2. #include the files in models/modelsmodule.cpp 3. add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, the string the name it will have in NEST 4. recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda <arabayda@masonlive.gmu.edumailto:arabayda@masonlive.gmu.edu> wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.') ******************************************************** <issue_UnknownModelName_4_May_2020>_______________________________________________ NEST Users mailing list -- users@nest-simulator.orgmailto:users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.orgmailto:users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.nohttp://secure-web.cisco.com/1oGxjTBn6G3zlyNTvv_hoyiXx9VwKKhVYGsnt8WkKZtjey0jolrbMkgNX8nwZ1_mVOfMZGiux9uomyEPFv1tB5lZkHqSDndkoq7WT3154Yx4mGDr8Arv_7jWQmncdw7br50zI6WljWy5IK7VdXa7cWJJMsib-PBr0HtFYGs5gbgToIMYR4w5rKqurTb-v0rgSNtJsrdJncRz5eqmnGWYbcKnShFCDiXti1pbbYmie86yWljTQbF0AtIphD_zoqJhi-TJYrXXjeVGyc2k_WQiq9cNQvbZlxfWAY8GM2CJWq_YnFnAj_wgKoFCuxVcs6gPmu6B-M8f9ZylTFcZTKA4SjnK6SJPiDig8sJf7qhGQW0aB1CMf88nIeQJFd5NE_nXYNkveMYHT2So_RNGY06D7hdDTA1VoxJgrV-JxlTvip1uelk7bGF8CPbWbPaNV-TAvtps_fwU_5vhhGiNNNPML6Q/http%3A%2F%2Fnmbu.no%2F Home http://arken.nmbu.no/~plesserhttp://secure-web.cisco.com/1NGU903Sz1mZbu-kUPO3tQjT8UGyiDXuL1fL2jQ0S4SkecW_uuWYlUr2l7vZeLiTlDo3I1xA_9Uf9v2N2p6tjNn25_ocHbrkd2JTx3GnGb-vebjXVovfSgdnKywi7KN485GJR_TQFVuJx5_MF6BXctVjmSoVYFiOG8Mu-TNlxK_xmGEWTPq3fhJXq122hpV7ruHShklc4kmqI33bXV1ZEU5eouIGhJ9nWmVo-NDeVaimFTzO6qmmGUU8EmR5e85dLtIrPmdtDprPb6mYTmwlmgj1lXqSapHgZL1zIn5I8o20lNXdX7P9nJVozEyOsAC9-TANbvcvJ4GMYG2gqDGBhlRa8QFDC9bpJFc6GW_bJhvI45kyeJj_P-qg6vmCiw6UCdxjNZSxzNTt4B7wtYDbj8F7EPJbVjtAeY5zLpAYyKQsL_mXRdL5yHAz35VHWlUwy/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
_______________________________________________ NEST Users mailing list -- users@nest-simulator.orgmailto:users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.orgmailto:users-leave@nest-simulator.org _______________________________________________ NEST Users mailing list -- users@nest-simulator.orgmailto:users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.orgmailto:users-leave@nest-simulator.org
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Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.nohttp://nmbu.no/ Home http://arken.nmbu.no/~plesserhttp://secure-web.cisco.com/1Yaz1kjc6VGnCjQQ1iYz5UzgeB8gnIvsxcPfiFurdqrnLLEWwnAKf1OZf_fQ2tyFo0TCRgdCgP6hn0zGKQEBdzOBDzQKjHGM9AI7d7tpeDLOm-jgCdjaiHVa1soloQe1uDkeWcKDWx4uEqNa7RanMBiY5pcihXtfkEJsP_kJi-fNMVAJUzp4PU1Q3vI-u039bL3kxazbvIqYnR5TY-jdwqAJktCuCdh8VCMEX6hNO62dDiD8Nmhpa-btsTr-jjlPsCPaNjkA7aZ08WxrEyinmMYfdOB1b38lthuLD3HSlT9yy483Jt2iLUip3GwCXeIW0c21Mqdg9KLcj65O5lAIsslHkqdpNmNjRP0K9tAMp8xrCg4JdGkK6YLINQvz65xkso4plOFxA9laXV0PUAaHgbylgRD34SSBj2I3lSM43Kofs0nQX3UWMtgmCbwFQ45EHMLfxEHKMAWZVUbLgujnSYw/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
_______________________________________________ NEST Users mailing list -- users@nest-simulator.orgmailto:users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.orgmailto:users-leave@nest-simulator.org _______________________________________________ NEST Users mailing list -- users@nest-simulator.orgmailto:users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.orgmailto:users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser
Hans, Hello again. I updated the nest-config file as you recommended and it appeared to correct the error at hand, however uncovered several more (ref: error message below).
I've created my own module, modified/updated custom synapse files (itemized my actions below and attached for ref), and attempted to re-compile but have error that states "connection" was not declared (ref: Error message below)
Thank you once again for any additional suggestions.
Best Regards, --Allen
**** ERROR AS OF 3-Jun-2020 ***** Scanning dependencies of target my2module_module [ 12%] Building CXX object CMakeFiles/my2module_module.dir/my2module.cpp.o In file included from /home/nest/examples/My2Module/my2module.cpp:33:0: /home/nest/examples/My2Module/stdp_izh_connection.h: In member function ‘void nest::STDPIzhConnection<targetidentifierT>::send(nest::Event&, nest::thread, const CommonPropertiesType&)’: /home/nest/examples/My2Module/stdp_izh_connection.h:264:5: error: ‘class nest::Event’ has no member named ‘set_multiplicity’ e.set_multiplicity( -1 ); ^~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/stdp_izh_connection.h:265:5: error: ‘class nest::Event’ has no member named ‘set_delay’; did you mean ‘set_sender’? e.set_delay( get_delay_steps() ); ^~~~~~~~~ set_sender /home/nest/examples/My2Module/my2module.cpp: In member function ‘virtual void mynest::My2Module::init(SLIInterpreter*)’: /home/nest/examples/My2Module/my2module.cpp:137:7: error: expected primary-expression before ‘.’ token nest.kernel().model_manager.register_connection_model< STDPIzhConnection< nest::TargetIdentifierPtrRport > >( ^ /home/nest/examples/My2Module/my2module.cpp:137:58: error: ‘STDPIzhConnection’ was not declared in this scope nest.kernel().model_manager.register_connection_model< STDPIzhConnection< nest::TargetIdentifierPtrRport > >( ^~~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/my2module.cpp:137:58: note: suggested alternative: In file included from /home/nest/examples/My2Module/my2module.cpp:33:0: /home/nest/examples/My2Module/stdp_izh_connection.h:99:7: note: ‘nest::STDPIzhConnection’ class STDPIzhConnection: public nest::Connection< targetidentifierT > ^~~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/my2module.cpp:137:108: error: expected primary-expression before ‘>’ token nest.kernel().model_manager.register_connection_model< STDPIzhConnection< nest::TargetIdentifierPtrRport > >(
^ /home/nest/examples/My2Module/my2module.cpp:137:110: error: expected primary-expression before ‘>’ token nest.kernel().model_manager.register_connection_model< STDPIzhConnection< nest::TargetIdentifierPtrRport > >(
^ CMakeFiles/my2module_module.dir/build.make:62: recipe for target 'CMakeFiles/my2module_module.dir/my2module.cpp.o' failed make[2]: *** [CMakeFiles/my2module_module.dir/my2module.cpp.o] Error 1 CMakeFiles/Makefile2:67: recipe for target 'CMakeFiles/my2module_module.dir/all' failed make[1]: *** [CMakeFiles/my2module_module.dir/all] Error 2 Makefile:151: recipe for target 'all' failed make: *** [all] Error 2
***************************************************************
***** STEPS I TAKE TO RE-COMPILE ****************
export NEST_INSTALL_DIR=/home/nest/work/nest-install cd /home/nest/examples/My2Module cd .. rmr -r /home/nest/examples/mmb mkdir mmb cd mmb cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module make make install ***************************************************************
****** Modifications I Made to Custom Synapse Model **************
- added "stdp_izh_connection.h" "stdp_izh_connection.cpp" files to /home/nest/examples/My2Module
- added filenames above to "set( models_sources..." section in "/home/nest/examples/My2Module/Cmakelist.txt
- added "#include filenames above" to /home/nest/examples/My2Module/my2module.cpp
- added "kernel().model_manager.register_connection_model< STDPIzhConnection >( "stdp_izh_connection" )" to /home/nest/examples/My2Module/my2module.cpp
- updated "stdp_izh_connection.h" & "stdp_izh_connection.cpp" files per the following references/samples: --https://nest.github.io/nest-simulator/synapse_models -- https://nest.github.io/nest-simulator/model_conversion_5g --https://nest.github.io/nest-simulator/extension_modules -- https://github.com/nest/nest-simulator/blob/master/examples/MyModule/drop_od... -- https://github.com/nest/nest-simulator/blob/master/models/stdp_connection_ho...
******************************************************************
On Fri, May 22, 2020 at 8:24 AM Hans Ekkehard Plesser < hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Thanks. It looks like a relative path has ended up in your nest-config file where it should have been an absolute path. Could you open file
nest-install/bin/nest-config
and go to roughly line 55, where you should find something like
--includes) echo " -I/home/nest/work/nest-simulator-2.18.0/conngen-I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include" ;;
Please replace within
-I../nest-install/include/nest
the .. with the absolute path. Then run cmake and make again in the My2Module build directory. You may want to delete anything in that build directory first to avoid old Cmake cached data.
Best, Hans Ekkehard
On 21 May 2020, at 22:13, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Hans, Below is the output from my 1) "cmake" and 2) " {NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags" commands. Thank you, --Allen
Charl, I had not yet tried any of the processes on https://github.com/nest/nest-simulator/issues/1331 https://secure-web.cisco.com/1pvWX8gcr0ktPCO_pJ-XSV7OsLHFiWmE4gqVEtVzPY62QxY1eQ-8GQWP65ZAm2UnzB305znKhGBeGwk3pBCBzl8VOR2DbwaEVtwB6IqqgcUZ00aQ3KCz0pZCavFLjDbhwHT4dDzuJDzmZfXfPOh43poIG8N04bRnb8yWGChAfBw_d6FveE9QCARl1P7RLbZx2JO3Jutn_6NeHuvQ0US81N-LR2KHLRq2OP2zVHL989CZBuJHc2L7rHt8e95I7GsWuJ3nWlu8gts8AL8Q0aGjxo0Kzn1ZZbaQDJeBZkM7a8aQGjOjHfq24TEYMImyCtMnNUrAJciz44-6tObOUK8QDbtLQq6fszadM72YPHar9u1kjbVNXqRfAN6N6YNs3faASL0TwqOGptnApRBX2ImM9ySgQBFW48w8-871pKl3Dw83zEcxHGZ9dvmzsLptIVDNL/https%3A%2F%2Fgithub.com%2Fnest%2Fnest-simulator%2Fissues%2F1331. Thank you,--Allen
- CMAKE OUTPUT:
nest@nestvm:~/examples/My2Module$ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module
my2module Configuration Summary
C++ compiler : /usr/bin/c++ Build static libs : OFF C++ compiler flags : NEST compiler flags : -std=c++11 -O2 -Wall -fopenmp -pthread -fdiagnostics-color=auto NEST include dirs : -I/home/nest/work/nest-simulator-2.18.0/conngen -I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include NEST libraries flags : -L/home/nest/work/nest-install/lib -lconngen -lnestutil -lnest -lrandom -lsli -lnestkernel -ltopology -fopenmp /usr/lib/x86_64-linux-gnu/libltdl.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so /usr/lib/x86_64-linux-gnu/libmusic.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so
You can now build and install 'my2module' using make make install
The library file libmy2module.so will be installed to /home/nest/work/nest-install/lib/nest Help files will be installed to /home/nest/work/nest-install/share/doc/nest
The module can be loaded into NEST using (my2module) Install (in SLI) nest.Install('my2module') (in PyNEST)
The module will be installed into a non-default location! Make sure to set the environment variables: export NEST_MODULE_PATH=/home/nest/work/nest-install/lib/nest:$NEST_MODULE_PATH export SLI_PATH=/home/nest/work/nest-install/share/nest/sli:$SLI_PATH
-- Configuring done -- Generating done
-- Build files have been written to: /home/nest/examples/My2Module
- "{NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags OUTPUT
nest@nestvm:~$ export NEST_INSTALL_DIR=/home/nest/work/nest-install nest@nestvm:~$ {NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags bash: {NEST_INSTALL_DIR}/bin/nest-config: No such file or directory
then added absolute path to produce output below
nest@nestvm:~$ /home/nest/work/nest-install/bin/nest-config --prefix --includes --libs --cflags /home/nest/work/nest-install -I/home/nest/work/nest-simulator-2.18.0/conngen -I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -L/home/nest/work/nest-install/lib -lconngen -lnestutil -lnest -lrandom -lsli -lnestkernel -ltopology -fopenmp /usr/lib/x86_64-linux-gnu/libltdl.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so /usr/lib/x86_64-linux-gnu/libmusic.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so -std=c++11 -O2 -Wall -fopenmp -pthread -fdiagnostics-color=auto
END
On Wed, May 20, 2020 at 3:08 AM Hans Ekkehard Plesser < hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Below I show how I adapted/complied the example MyModule included on github and the error message I get (bottom of email).
The steps look generally good.
two absolute paths inserted (correct missing file error): #include "/home/nest/work/nest-simulator-2.18.0/sli/slifunction.h" #include "/home/nest/work/nest-simulator-2.18.0/sli/slimodule.h"
You should not need the absolute paths, just the filenames should suffice.
$ cd mmb $ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module $ make
Could you post the output of the cmake command?
And also the output of the following command
${NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags
Best, Hans Ekkehard
***ERROR MSG*** make: *** No targets specified and no makefile found. Stop.
*** changed directory from ./mmb to ./My2Module then re-ran make*****
$ cd ~ examples/My2Module $ make
***************'******* ***ERROR MSG**** Scanning dependencies of target my2module_module [ 10%] Building CXX object CMakeFiles/my2module_module.dir/my2module.cpp.o In file included from /home/nest/examples/My2Module/my2module.cpp:29:0: /home/nest/examples/My2Module/drop_odd_spike_connection.h:27:10: fatal error: connection.h: No such file or directory #include "connection.h"
On Wed, May 6, 2020 at 2:33 AM Hans Ekkehard Plesser < hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_modules https://secure-web.cisco.com/1OkG_4Lw1yXYSv9Bo1mMO2W05lnXnEL03XeGcAPY__8APmBFD6LJj5zzZE42doCxkKRobTud5P4AT-oAs4WO_e4LtGvMBLDNRl2akKXbAPU8F8r9Rm4A-tpRybnnEUh062b56HNleUWk7QJ6N1WbDPtfI2tSIZfBrNSy7ZS4MsvzYfYHFlpG8GQQde5gApJecM5CFQEEP9CGymqYZ18LQ3zj1pcYeYG_L4XhXZhfL9be5WtSMrDZVy_ZeB0g3Qorb-lhDrLguvPgqUhCze8vfsqesaXfTpE3HtpsEMUcfd3Xc5vUP1KU6rRWzSAw8az7wM5CxmAlax7wYyP8eT_0bQAweIakbsUW3bXaCT9znQv15l-qoBLExOyTKQvbcyNiwLEBNflla-_MsLueEemTJ1NRiHSI7kGavYtpaKaeXtlSy7q0YU9lIMHnnS0AWr5keolzddt0U0uCpJmO2uL9FUA/https%3A%2F%2Fnest.github.io%2Fnest-simulator%2Fextension_modules .
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
- add the files to models/CMakeLists.txt
- #include the files in models/modelsmodule.cpp
- add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, thestring the name it will have in NEST 4. recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.')
<issue_UnknownModelName_4_May_2020> _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no http://secure-web.cisco.com/1oGxjTBn6G3zlyNTvv_hoyiXx9VwKKhVYGsnt8WkKZtjey0jolrbMkgNX8nwZ1_mVOfMZGiux9uomyEPFv1tB5lZkHqSDndkoq7WT3154Yx4mGDr8Arv_7jWQmncdw7br50zI6WljWy5IK7VdXa7cWJJMsib-PBr0HtFYGs5gbgToIMYR4w5rKqurTb-v0rgSNtJsrdJncRz5eqmnGWYbcKnShFCDiXti1pbbYmie86yWljTQbF0AtIphD_zoqJhi-TJYrXXjeVGyc2k_WQiq9cNQvbZlxfWAY8GM2CJWq_YnFnAj_wgKoFCuxVcs6gPmu6B-M8f9ZylTFcZTKA4SjnK6SJPiDig8sJf7qhGQW0aB1CMf88nIeQJFd5NE_nXYNkveMYHT2So_RNGY06D7hdDTA1VoxJgrV-JxlTvip1uelk7bGF8CPbWbPaNV-TAvtps_fwU_5vhhGiNNNPML6Q/http%3A%2F%2Fnmbu.no%2F Home http://arken.nmbu.no/~plesser http://secure-web.cisco.com/1NGU903Sz1mZbu-kUPO3tQjT8UGyiDXuL1fL2jQ0S4SkecW_uuWYlUr2l7vZeLiTlDo3I1xA_9Uf9v2N2p6tjNn25_ocHbrkd2JTx3GnGb-vebjXVovfSgdnKywi7KN485GJR_TQFVuJx5_MF6BXctVjmSoVYFiOG8Mu-TNlxK_xmGEWTPq3fhJXq122hpV7ruHShklc4kmqI33bXV1ZEU5eouIGhJ9nWmVo-NDeVaimFTzO6qmmGUU8EmR5e85dLtIrPmdtDprPb6mYTmwlmgj1lXqSapHgZL1zIn5I8o20lNXdX7P9nJVozEyOsAC9-TANbvcvJ4GMYG2gqDGBhlRa8QFDC9bpJFc6GW_bJhvI45kyeJj_P-qg6vmCiw6UCdxjNZSxzNTt4B7wtYDbj8F7EPJbVjtAeY5zLpAYyKQsL_mXRdL5yHAz35VHWlUwy/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
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Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no http://secure-web.cisco.com/1iP5XxSIgK1wF5QUFextVYBJcuhTvD7uZziUM9b_0s3CJyt4coQ-JaojYPcWkHY6GfIgOzSAlr4NFfZhr8Z172zC5SaCAWrN7Zz9ApSd4f6eA5bPremYXBOqAH_0MM6CCSJR7eDvRFU9Qd1y6vawZ91iPX2y5qaoU-0SyZyHI2UD7rp6FmPOi7PWHBHk9gXb6fp6qP1wbpMV8lwrvMGDglP_bw3HnLWIpw2DZKS0sDuzdrn7ECQmCzGHhIivmcUOsZgWNtnuP6A2WrPlnyAaeLuxwfQ4BYv7288-Qq4k9w4w5jGWOpMHFPs837kFW4zLht7l_9Dz4nsqCl8dSn1RmhHmeHEd412A_NctYEoizC86CDJutdeZ0jhh6K2HEDCT5snwo68iJAPnc20uucORO3mJinauyJ5801Fqj5-1zqMAIXt2rvrHJBTIrMSgG_dzU0jtP9ZS2AYhy13V_mxMYvA/http%3A%2F%2Fnmbu.no%2F Home http://arken.nmbu.no/~plesser http://secure-web.cisco.com/1Yaz1kjc6VGnCjQQ1iYz5UzgeB8gnIvsxcPfiFurdqrnLLEWwnAKf1OZf_fQ2tyFo0TCRgdCgP6hn0zGKQEBdzOBDzQKjHGM9AI7d7tpeDLOm-jgCdjaiHVa1soloQe1uDkeWcKDWx4uEqNa7RanMBiY5pcihXtfkEJsP_kJi-fNMVAJUzp4PU1Q3vI-u039bL3kxazbvIqYnR5TY-jdwqAJktCuCdh8VCMEX6hNO62dDiD8Nmhpa-btsTr-jjlPsCPaNjkA7aZ08WxrEyinmMYfdOB1b38lthuLD3HSlT9yy483Jt2iLUip3GwCXeIW0c21Mqdg9KLcj65O5lAIsslHkqdpNmNjRP0K9tAMp8xrCg4JdGkK6YLINQvz65xkso4plOFxA9laXV0PUAaHgbylgRD34SSBj2I3lSM43Kofs0nQX3UWMtgmCbwFQ45EHMLfxEHKMAWZVUbLgujnSYw/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
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Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser http://secure-web.cisco.com/1nd3Dn41NSvMCZuqSxusD7gKebEdh81Q4sSm7WqGfmTpD98eMdRbko3iFKsYYyH0v-Rq3hKbZ-NmkF8WEGl_CwIq5sX4c19CZ9477L19Gtrel3_Ptmn-cvOuuMV3ig2KkmysLVdb4e6MjQMXdwY4eaflxKe_ymORYjasNRPHBMh5utr9uwUtP_sySj9K7QoF0j55RbN8yXne0tbD6U1y8uRymd7rY28hB1YkkNDcHm2tiCcmMWl_WXxNx-v5Otfqv5iAWhKYHvmkHkB9dP1d1qtkl6DMrLsy8wrmt_pBC-zjZWkFFMlzrp-lroQIlPIiZj7kGu_NAP09PynPIhz25hVzaNDtfZ4e6L9KS7ACVjaH32KFrogiLravhZV6QQDTB_hf-P1qjaWPZmR-KaWPjKBdVsa5g8WnFUdtAc8CAnFgz5ysCDDiIrCVP0WipCdt2e-B1QZi4YHNpcucciAE9HQ/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
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Hans and Nest User Community,
I was wondering if you had any advice for my errors when I compile/register the custom Synapse Model, stdp_izh_connection.h/.cpp as I can compile/install without issue using the example custom models like pif_psc_alpha and drop_odd_synapse alone.
Two quick questions.
#1 Which synapse model registration statement should I use in "my2module.cpp": - nest::kernel().model_manager.register_connection_model<STDPIzhConnection<targetidentifierT
( "stdp_izh_connection" );
- nest::kernel().model_manager.register_connection_model< STDPIzhConnection< nest::TargetIdentifierPtrRport > >("stdp_izh_connection" ); - nest::kernel().model_manager.register_prototype_connection< STDPIzhConnection< nest::TargetIdentifierPtrRport > >("stdp_izh_connection" ); - nest::kernel().model_manager.register_prototype_connection< STDPIzhConnection>(net_, "stdp_izh_connection" );
#2 Which argument, "targetidentifierT" or "TargetIdentifierPtrRport", should I use: - in "my2module.cpp" model registration? - and in my synapse model, "stdp_izh_connection.h", templates?
I've included one of my error messages below for reference. I received similar error messages for each of the registration statements used above.
Thank you for any advice you may offer.
Best Regards, --Allen
********* Background on the Custom Synapse Model******** - stdp_izh_connection.h/.cpp has been updated for nest 5g kernel per https://nest.github.io/nest-simulator/model_conversion_5g - stdp_izh_connection.h/.cpp has reformatted using https://github.com/nest/nest-simulator/blob/master/models/stdp_connection_ho... as an example. *********************************************************************
*********** Nest Compile Errors when including: stdp_izh_connection.h/.cpp*********** [ 10%] Building CXX object CMakeFiles/my2module_module.dir/my2module.cpp.o In file included from /home/nest/examples/My2Module/my2module.cpp:33:0: /home/nest/examples/My2Module/stdp_izh_connection.h: In member function ‘void nest::STDPIzhConnection<targetidentifierT>::send(nest::Event&, nest::thread, const nest::STDPIzhCommonProperties&)’: /home/nest/examples/My2Module/stdp_izh_connection.h:305:5: error: ‘class nest::Event’ has no member named ‘set_multiplicity’ e.set_multiplicity( -1 ); ^~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/stdp_izh_connection.h:306:5: error: ‘class nest::Event’ has no member named ‘set_delay’; did you mean ‘set_sender’? e.set_delay( ConnectionBase::get_delay_steps() ); // ConnectionBase not used in sample ^~~~~~~~~ set_sender /home/nest/examples/My2Module/stdp_izh_connection.h:309:18: error: ‘t_spike’ was not declared in this scope t_lastspike_ = t_spike; // added per ref: https://nest.github.io/nest-simulator/model_conversion_5g ^~~~~~~ /home/nest/examples/My2Module/stdp_izh_connection.h:309:18: note: suggested alternative: In file included from /home/nest/work/nest-install/include/nest/node.h:37:0, from /home/nest/work/nest-install/include/nest/common_synapse_properties.h:29, from /home/nest/work/nest-install/include/nest/connection.h:27, from /home/nest/examples/My2Module/drop_odd_spike_connection.h:27, from /home/nest/examples/My2Module/my2module.cpp:29: /home/nest/work/nest-install/include/nest/nest_names.h:424:19: note: ‘nest::names::t_spike’ extern const Name t_spike; ^~~~~~~ /home/nest/examples/My2Module/my2module.cpp: In member function ‘virtual void mynest::My2Module::init(SLIInterpreter*)’: /home/nest/examples/My2Module/my2module.cpp:142:59: error: ‘STDPIzhConnection’ was not declared in this scope nest::kernel().model_manager.register_connection_model< STDPIzhConnection< targetidentifierT > >( ^~~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/my2module.cpp:142:59: note: suggested alternative: In file included from /home/nest/examples/My2Module/my2module.cpp:33:0: /home/nest/examples/My2Module/stdp_izh_connection.h:114:7: note: ‘nest::STDPIzhConnection’ class STDPIzhConnection: public nest::Connection< targetidentifierT > ^~~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/my2module.cpp:142:78: error: ‘targetidentifierT’ was not declared in this scope nest::kernel().model_manager.register_connection_model< STDPIzhConnection< targetidentifierT > >(
^~~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/my2module.cpp:143:27: warning: comparison with string literal results in unspecified behavior [-Waddress] "stdp_izh_connection" ); ^ /home/nest/examples/My2Module/my2module.cpp:142:98: error: invalid operands of types ‘<unresolved overloaded function type>’ and ‘const char [20]’ to binary ‘operator>’ nest::kernel().model_manager.register_connection_model< STDPIzhConnection< targetidentifierT > >(
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ "stdp_izh_connection" ); ~~~~~~~~~~~~~~~~~~~~~~~
CMakeFiles/my2module_module.dir/build.make:62: recipe for target 'CMakeFiles/my2module_module.dir/my2module.cpp.o' failed make[2]: *** [CMakeFiles/my2module_module.dir/my2module.cpp.o] Error 1 CMakeFiles/Makefile2:67: recipe for target 'CMakeFiles/my2module_module.dir/all' failed make[1]: *** [CMakeFiles/my2module_module.dir/all] Error 2 Makefile:151: recipe for target 'all' failed make: *** [all] Error 2
On Fri, May 22, 2020 at 8:24 AM Hans Ekkehard Plesser < hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Thanks. It looks like a relative path has ended up in your nest-config file where it should have been an absolute path. Could you open file
nest-install/bin/nest-config
and go to roughly line 55, where you should find something like
--includes) echo " -I/home/nest/work/nest-simulator-2.18.0/conngen-I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include" ;;
Please replace within
-I../nest-install/include/nest
the .. with the absolute path. Then run cmake and make again in the My2Module build directory. You may want to delete anything in that build directory first to avoid old Cmake cached data.
Best, Hans Ekkehard
On 21 May 2020, at 22:13, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Hans, Below is the output from my 1) "cmake" and 2) " {NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags" commands. Thank you, --Allen
Charl, I had not yet tried any of the processes on https://github.com/nest/nest-simulator/issues/1331 https://secure-web.cisco.com/1pvWX8gcr0ktPCO_pJ-XSV7OsLHFiWmE4gqVEtVzPY62QxY1eQ-8GQWP65ZAm2UnzB305znKhGBeGwk3pBCBzl8VOR2DbwaEVtwB6IqqgcUZ00aQ3KCz0pZCavFLjDbhwHT4dDzuJDzmZfXfPOh43poIG8N04bRnb8yWGChAfBw_d6FveE9QCARl1P7RLbZx2JO3Jutn_6NeHuvQ0US81N-LR2KHLRq2OP2zVHL989CZBuJHc2L7rHt8e95I7GsWuJ3nWlu8gts8AL8Q0aGjxo0Kzn1ZZbaQDJeBZkM7a8aQGjOjHfq24TEYMImyCtMnNUrAJciz44-6tObOUK8QDbtLQq6fszadM72YPHar9u1kjbVNXqRfAN6N6YNs3faASL0TwqOGptnApRBX2ImM9ySgQBFW48w8-871pKl3Dw83zEcxHGZ9dvmzsLptIVDNL/https%3A%2F%2Fgithub.com%2Fnest%2Fnest-simulator%2Fissues%2F1331. Thank you,--Allen
- CMAKE OUTPUT:
nest@nestvm:~/examples/My2Module$ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module
my2module Configuration Summary
C++ compiler : /usr/bin/c++ Build static libs : OFF C++ compiler flags : NEST compiler flags : -std=c++11 -O2 -Wall -fopenmp -pthread -fdiagnostics-color=auto NEST include dirs : -I/home/nest/work/nest-simulator-2.18.0/conngen -I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include NEST libraries flags : -L/home/nest/work/nest-install/lib -lconngen -lnestutil -lnest -lrandom -lsli -lnestkernel -ltopology -fopenmp /usr/lib/x86_64-linux-gnu/libltdl.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so /usr/lib/x86_64-linux-gnu/libmusic.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so
You can now build and install 'my2module' using make make install
The library file libmy2module.so will be installed to /home/nest/work/nest-install/lib/nest Help files will be installed to /home/nest/work/nest-install/share/doc/nest
The module can be loaded into NEST using (my2module) Install (in SLI) nest.Install('my2module') (in PyNEST)
The module will be installed into a non-default location! Make sure to set the environment variables: export NEST_MODULE_PATH=/home/nest/work/nest-install/lib/nest:$NEST_MODULE_PATH export SLI_PATH=/home/nest/work/nest-install/share/nest/sli:$SLI_PATH
-- Configuring done -- Generating done
-- Build files have been written to: /home/nest/examples/My2Module
- "{NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags OUTPUT
nest@nestvm:~$ export NEST_INSTALL_DIR=/home/nest/work/nest-install nest@nestvm:~$ {NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags bash: {NEST_INSTALL_DIR}/bin/nest-config: No such file or directory
then added absolute path to produce output below
nest@nestvm:~$ /home/nest/work/nest-install/bin/nest-config --prefix --includes --libs --cflags /home/nest/work/nest-install -I/home/nest/work/nest-simulator-2.18.0/conngen -I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -L/home/nest/work/nest-install/lib -lconngen -lnestutil -lnest -lrandom -lsli -lnestkernel -ltopology -fopenmp /usr/lib/x86_64-linux-gnu/libltdl.so /usr/lib/x86_64-linux-gnu/libgsl.so /usr/lib/x86_64-linux-gnu/libgslcblas.so /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so /usr/lib/x86_64-linux-gnu/libmusic.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so -std=c++11 -O2 -Wall -fopenmp -pthread -fdiagnostics-color=auto
END
On Wed, May 20, 2020 at 3:08 AM Hans Ekkehard Plesser < hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Below I show how I adapted/complied the example MyModule included on github and the error message I get (bottom of email).
The steps look generally good.
two absolute paths inserted (correct missing file error): #include "/home/nest/work/nest-simulator-2.18.0/sli/slifunction.h" #include "/home/nest/work/nest-simulator-2.18.0/sli/slimodule.h"
You should not need the absolute paths, just the filenames should suffice.
$ cd mmb $ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module $ make
Could you post the output of the cmake command?
And also the output of the following command
${NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs --cflags
Best, Hans Ekkehard
***ERROR MSG*** make: *** No targets specified and no makefile found. Stop.
*** changed directory from ./mmb to ./My2Module then re-ran make*****
$ cd ~ examples/My2Module $ make
***************'******* ***ERROR MSG**** Scanning dependencies of target my2module_module [ 10%] Building CXX object CMakeFiles/my2module_module.dir/my2module.cpp.o In file included from /home/nest/examples/My2Module/my2module.cpp:29:0: /home/nest/examples/My2Module/drop_odd_spike_connection.h:27:10: fatal error: connection.h: No such file or directory #include "connection.h"
On Wed, May 6, 2020 at 2:33 AM Hans Ekkehard Plesser < hans.ekkehard.plesser@nmbu.no> wrote:
Hi Allen,
Several steps are required to add a model to NEST. The recommended way of adding a model is to create your own NEST module outside the NEST source code tree. You will find an example in examples/MyModule and more documentation at https://nest.github.io/nest-simulator/extension_modules https://secure-web.cisco.com/1OkG_4Lw1yXYSv9Bo1mMO2W05lnXnEL03XeGcAPY__8APmBFD6LJj5zzZE42doCxkKRobTud5P4AT-oAs4WO_e4LtGvMBLDNRl2akKXbAPU8F8r9Rm4A-tpRybnnEUh062b56HNleUWk7QJ6N1WbDPtfI2tSIZfBrNSy7ZS4MsvzYfYHFlpG8GQQde5gApJecM5CFQEEP9CGymqYZ18LQ3zj1pcYeYG_L4XhXZhfL9be5WtSMrDZVy_ZeB0g3Qorb-lhDrLguvPgqUhCze8vfsqesaXfTpE3HtpsEMUcfd3Xc5vUP1KU6rRWzSAw8az7wM5CxmAlax7wYyP8eT_0bQAweIakbsUW3bXaCT9znQv15l-qoBLExOyTKQvbcyNiwLEBNflla-_MsLueEemTJ1NRiHSI7kGavYtpaKaeXtlSy7q0YU9lIMHnnS0AWr5keolzddt0U0uCpJmO2uL9FUA/https%3A%2F%2Fnest.github.io%2Fnest-simulator%2Fextension_modules .
Placing code for custom models in the models directory in the NEST source code tree also works, but makes it more difficult to move to newer versions of NEST or to share your custom models with colleagues.
Briefly, in addition to adding the source code files to the models directory, you need to
- add the files to models/CMakeLists.txt
- #include the files in models/modelsmodule.cpp
- add a line like
register_connection_model< StaticConnection >( "static_synapse" );
for each model. The template parameter is the model class, thestring the name it will have in NEST 4. recompile and reinstall NEST
Best, Hans Ekkehard
On 6 May 2020, at 02:11, Allen Rabayda arabayda@masonlive.gmu.edu wrote:
Dear Nest Community,
Would anyone have insight into why I'm getting an UnknownModelName error?
I'm new to Nest and am using Nest 18.0 on Lubuntu Virtual Box (Windows 10 OS).
Thanks for any help.
Best Regards, --Allen
**** Error Message--additional details attached ****** raise exceptionCls(commandname, message) nest.ll_api.UnknownModelName: ('UnknownModelName in CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.', 'UnknownModelName', <SLILiteral: CopyModel_l_l_D>, ': /stdp_izh_bitwise_correct_connection is not a known model name. Please check the modeldict for a list of available models.')
<issue_UnknownModelName_4_May_2020> _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no http://secure-web.cisco.com/1oGxjTBn6G3zlyNTvv_hoyiXx9VwKKhVYGsnt8WkKZtjey0jolrbMkgNX8nwZ1_mVOfMZGiux9uomyEPFv1tB5lZkHqSDndkoq7WT3154Yx4mGDr8Arv_7jWQmncdw7br50zI6WljWy5IK7VdXa7cWJJMsib-PBr0HtFYGs5gbgToIMYR4w5rKqurTb-v0rgSNtJsrdJncRz5eqmnGWYbcKnShFCDiXti1pbbYmie86yWljTQbF0AtIphD_zoqJhi-TJYrXXjeVGyc2k_WQiq9cNQvbZlxfWAY8GM2CJWq_YnFnAj_wgKoFCuxVcs6gPmu6B-M8f9ZylTFcZTKA4SjnK6SJPiDig8sJf7qhGQW0aB1CMf88nIeQJFd5NE_nXYNkveMYHT2So_RNGY06D7hdDTA1VoxJgrV-JxlTvip1uelk7bGF8CPbWbPaNV-TAvtps_fwU_5vhhGiNNNPML6Q/http%3A%2F%2Fnmbu.no%2F Home http://arken.nmbu.no/~plesser http://secure-web.cisco.com/1NGU903Sz1mZbu-kUPO3tQjT8UGyiDXuL1fL2jQ0S4SkecW_uuWYlUr2l7vZeLiTlDo3I1xA_9Uf9v2N2p6tjNn25_ocHbrkd2JTx3GnGb-vebjXVovfSgdnKywi7KN485GJR_TQFVuJx5_MF6BXctVjmSoVYFiOG8Mu-TNlxK_xmGEWTPq3fhJXq122hpV7ruHShklc4kmqI33bXV1ZEU5eouIGhJ9nWmVo-NDeVaimFTzO6qmmGUU8EmR5e85dLtIrPmdtDprPb6mYTmwlmgj1lXqSapHgZL1zIn5I8o20lNXdX7P9nJVozEyOsAC9-TANbvcvJ4GMYG2gqDGBhlRa8QFDC9bpJFc6GW_bJhvI45kyeJj_P-qg6vmCiw6UCdxjNZSxzNTt4B7wtYDbj8F7EPJbVjtAeY5zLpAYyKQsL_mXRdL5yHAz35VHWlUwy/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
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Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no http://secure-web.cisco.com/1iP5XxSIgK1wF5QUFextVYBJcuhTvD7uZziUM9b_0s3CJyt4coQ-JaojYPcWkHY6GfIgOzSAlr4NFfZhr8Z172zC5SaCAWrN7Zz9ApSd4f6eA5bPremYXBOqAH_0MM6CCSJR7eDvRFU9Qd1y6vawZ91iPX2y5qaoU-0SyZyHI2UD7rp6FmPOi7PWHBHk9gXb6fp6qP1wbpMV8lwrvMGDglP_bw3HnLWIpw2DZKS0sDuzdrn7ECQmCzGHhIivmcUOsZgWNtnuP6A2WrPlnyAaeLuxwfQ4BYv7288-Qq4k9w4w5jGWOpMHFPs837kFW4zLht7l_9Dz4nsqCl8dSn1RmhHmeHEd412A_NctYEoizC86CDJutdeZ0jhh6K2HEDCT5snwo68iJAPnc20uucORO3mJinauyJ5801Fqj5-1zqMAIXt2rvrHJBTIrMSgG_dzU0jtP9ZS2AYhy13V_mxMYvA/http%3A%2F%2Fnmbu.no%2F Home http://arken.nmbu.no/~plesser http://secure-web.cisco.com/1Yaz1kjc6VGnCjQQ1iYz5UzgeB8gnIvsxcPfiFurdqrnLLEWwnAKf1OZf_fQ2tyFo0TCRgdCgP6hn0zGKQEBdzOBDzQKjHGM9AI7d7tpeDLOm-jgCdjaiHVa1soloQe1uDkeWcKDWx4uEqNa7RanMBiY5pcihXtfkEJsP_kJi-fNMVAJUzp4PU1Q3vI-u039bL3kxazbvIqYnR5TY-jdwqAJktCuCdh8VCMEX6hNO62dDiD8Nmhpa-btsTr-jjlPsCPaNjkA7aZ08WxrEyinmMYfdOB1b38lthuLD3HSlT9yy483Jt2iLUip3GwCXeIW0c21Mqdg9KLcj65O5lAIsslHkqdpNmNjRP0K9tAMp8xrCg4JdGkK6YLINQvz65xkso4plOFxA9laXV0PUAaHgbylgRD34SSBj2I3lSM43Kofs0nQX3UWMtgmCbwFQ45EHMLfxEHKMAWZVUbLgujnSYw/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
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Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section
Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560 Email hans.ekkehard.plesser@nmbu.no Home http://arken.nmbu.no/~plesser http://secure-web.cisco.com/1nd3Dn41NSvMCZuqSxusD7gKebEdh81Q4sSm7WqGfmTpD98eMdRbko3iFKsYYyH0v-Rq3hKbZ-NmkF8WEGl_CwIq5sX4c19CZ9477L19Gtrel3_Ptmn-cvOuuMV3ig2KkmysLVdb4e6MjQMXdwY4eaflxKe_ymORYjasNRPHBMh5utr9uwUtP_sySj9K7QoF0j55RbN8yXne0tbD6U1y8uRymd7rY28hB1YkkNDcHm2tiCcmMWl_WXxNx-v5Otfqv5iAWhKYHvmkHkB9dP1d1qtkl6DMrLsy8wrmt_pBC-zjZWkFFMlzrp-lroQIlPIiZj7kGu_NAP09PynPIhz25hVzaNDtfZ4e6L9KS7ACVjaH32KFrogiLravhZV6QQDTB_hf-P1qjaWPZmR-KaWPjKBdVsa5g8WnFUdtAc8CAnFgz5ysCDDiIrCVP0WipCdt2e-B1QZi4YHNpcucciAE9HQ/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser
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Hi!
Just a quick heads up: I am currently working on a refactoring of the example module, which might make things a bit easier in the future.
I'm expecting this to go live by the end of this week and will send another mail to this list once I'm done.
Cheers, Jochen!
On 16.06.20 03:12, Allen Rabayda wrote:
Hans and Nest User Community,
I was wondering if you had any advice for my errors when I compile/register the custom Synapse Model, stdp_izh_connection.h/.cpp as I can compile/install without issue using the example custom models like pif_psc_alpha and drop_odd_synapse alone.
Two quick questions.
#1 Which synapse model registration statement should I use in "my2module.cpp":
nest::kernel().model_manager.register_connection_model<STDPIzhConnection<targetidentifierT
( "stdp_izh_connection" );
- nest::kernel().model_manager.register_connection_model<
STDPIzhConnection< nest::TargetIdentifierPtrRport >
("stdp_izh_connection" );
- nest::kernel().model_manager.register_prototype_connection<
STDPIzhConnection< nest::TargetIdentifierPtrRport >
("stdp_izh_connection" );
- nest::kernel().model_manager.register_prototype_connection<
STDPIzhConnection>(net_, "stdp_izh_connection" );
#2 Which argument, "targetidentifierT" or "TargetIdentifierPtrRport", should I use:
in "my2module.cpp" model registration?
and in my synapse model, "stdp_izh_connection.h", templates?
I've included one of my error messages below for reference. I
received similar error messages for each of the registration statements used above.
Thank you for any advice you may offer.
Best Regards, --Allen
********* Background on the Custom Synapse Model********
- stdp_izh_connection.h/.cpp has been updated for nest 5g kernel per
https://nest.github.io/nest-simulator/model_conversion_5g
- stdp_izh_connection.h/.cpp has reformatted using
https://github.com/nest/nest-simulator/blob/master/models/stdp_connection_ho... as an example.
*********** Nest Compile Errors when including: stdp_izh_connection.h/.cpp*********** [ 10%] Building CXX object CMakeFiles/my2module_module.dir/my2module.cpp.o In file included from /home/nest/examples/My2Module/my2module.cpp:33:0: /home/nest/examples/My2Module/stdp_izh_connection.h: In member function ‘void nest::STDPIzhConnection<targetidentifierT>::send(nest::Event&, nest::thread, const nest::STDPIzhCommonProperties&)’: /home/nest/examples/My2Module/stdp_izh_connection.h:305:5: error: ‘class nest::Event’ has no member named ‘set_multiplicity’ e.set_multiplicity( -1 ); ^~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/stdp_izh_connection.h:306:5: error: ‘class nest::Event’ has no member named ‘set_delay’; did you mean ‘set_sender’? e.set_delay( ConnectionBase::get_delay_steps() ); // ConnectionBase not used in sample ^~~~~~~~~ set_sender /home/nest/examples/My2Module/stdp_izh_connection.h:309:18: error: ‘t_spike’ was not declared in this scope t_lastspike_ = t_spike; // added per ref: https://nest.github.io/nest-simulator/model_conversion_5g ^~~~~~~ /home/nest/examples/My2Module/stdp_izh_connection.h:309:18: note: suggested alternative: In file included from /home/nest/work/nest-install/include/nest/node.h:37:0, from /home/nest/work/nest-install/include/nest/common_synapse_properties.h:29, from /home/nest/work/nest-install/include/nest/connection.h:27, from /home/nest/examples/My2Module/drop_odd_spike_connection.h:27, from /home/nest/examples/My2Module/my2module.cpp:29: /home/nest/work/nest-install/include/nest/nest_names.h:424:19: note: ‘nest::names::t_spike’ extern const Name t_spike; ^~~~~~~ /home/nest/examples/My2Module/my2module.cpp: In member function ‘virtual void mynest::My2Module::init(SLIInterpreter*)’: /home/nest/examples/My2Module/my2module.cpp:142:59: error: ‘STDPIzhConnection’ was not declared in this scope nest::kernel().model_manager.register_connection_model< STDPIzhConnection< targetidentifierT > >(
^~~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/my2module.cpp:142:59: note: suggested alternative: In file included from /home/nest/examples/My2Module/my2module.cpp:33:0: /home/nest/examples/My2Module/stdp_izh_connection.h:114:7: note: ‘nest::STDPIzhConnection’ class STDPIzhConnection: public nest::Connection< targetidentifierT > ^~~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/my2module.cpp:142:78: error: ‘targetidentifierT’ was not declared in this scope nest::kernel().model_manager.register_connection_model< STDPIzhConnection< targetidentifierT > >(
^~~~~~~~~~~~~~~~~/home/nest/examples/My2Module/my2module.cpp:143:27: warning: comparison with string literal results in unspecified behavior [-Waddress] "stdp_izh_connection" ); ^ /home/nest/examples/My2Module/my2module.cpp:142:98: error: invalid operands of types ‘<unresolved overloaded function type>’ and ‘const char [20]’ to binary ‘operator>’ nest::kernel().model_manager.register_connection_model< STDPIzhConnection< targetidentifierT > >(
"stdp_izh_connection" ); ~~~~~~~~~~~~~~~~~~~~~~~ CMakeFiles/my2module_module.dir/build.make:62: recipe for target 'CMakeFiles/my2module_module.dir/my2module.cpp.o' failed make[2]: *** [CMakeFiles/my2module_module.dir/my2module.cpp.o] Error 1 CMakeFiles/Makefile2:67: recipe for target 'CMakeFiles/my2module_module.dir/all' failed make[1]: *** [CMakeFiles/my2module_module.dir/all] Error 2 Makefile:151: recipe for target 'all' failed make: *** [all] Error 2 On Fri, May 22, 2020 at 8:24 AM Hans Ekkehard Plesser <hans.ekkehard.plesser@nmbu.no <mailto:hans.ekkehard.plesser@nmbu.no>> wrote: Hi Allen, Thanks. It looks like a relative path has ended up in your nest-config file where it should have been an absolute path. Could you open file nest-install/bin/nest-config and go to roughly line 55, where you should find something like --includes) echo " -I/home/nest/work/nest-simulator-2.18.0/conngen -I../nest-install/include/nest -I/usr/include -I/usr/include -I/usr/local/include -I/usr/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include -I/usr/lib/x86_64-linux-gnu/openmpi/include" ;; Please replace within -I../nest-install/include/nest the .. with the absolute path. Then run cmake and make again in the My2Module build directory. You may want to delete anything in that build directory first to avoid old Cmake cached data. Best, Hans Ekkehard > On 21 May 2020, at 22:13, Allen Rabayda > <arabayda@masonlive.gmu.edu <mailto:arabayda@masonlive.gmu.edu>> > wrote: > > Hans, > Below is the output from my 1) "cmake" and 2) > "{NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs > --cflags" commands. > Thank you, > --Allen > > Charl, I had not yet tried any of the processes on > https://github.com/nest/nest-simulator/issues/1331 > <https://secure-web.cisco.com/1pvWX8gcr0ktPCO_pJ-XSV7OsLHFiWmE4gqVEtVzPY62QxY1eQ-8GQWP65ZAm2UnzB305znKhGBeGwk3pBCBzl8VOR2DbwaEVtwB6IqqgcUZ00aQ3KCz0pZCavFLjDbhwHT4dDzuJDzmZfXfPOh43poIG8N04bRnb8yWGChAfBw_d6FveE9QCARl1P7RLbZx2JO3Jutn_6NeHuvQ0US81N-LR2KHLRq2OP2zVHL989CZBuJHc2L7rHt8e95I7GsWuJ3nWlu8gts8AL8Q0aGjxo0Kzn1ZZbaQDJeBZkM7a8aQGjOjHfq24TEYMImyCtMnNUrAJciz44-6tObOUK8QDbtLQq6fszadM72YPHar9u1kjbVNXqRfAN6N6YNs3faASL0TwqOGptnApRBX2ImM9ySgQBFW48w8-871pKl3Dw83zEcxHGZ9dvmzsLptIVDNL/https%3A%2F%2Fgithub.com%2Fnest%2Fnest-simulator%2Fissues%2F1331>. > Thank you,--Allen > > > ***************** > 1) CMAKE OUTPUT: > ***************** > > nest@nestvm:~/examples/My2Module$ cmake > -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module > > ------------------------------------------------------- > my2module Configuration Summary > ------------------------------------------------------- > > C++ compiler : /usr/bin/c++ > Build static libs : OFF > C++ compiler flags : > NEST compiler flags : -std=c++11 -O2 -Wall -fopenmp -pthread > -fdiagnostics-color=auto > NEST include dirs : > -I/home/nest/work/nest-simulator-2.18.0/conngen > -I../nest-install/include/nest -I/usr/include -I/usr/include > -I/usr/local/include -I/usr/include > -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi > -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent > -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include > -I/usr/lib/x86_64-linux-gnu/openmpi/include > NEST libraries flags : -L/home/nest/work/nest-install/lib > -lconngen -lnestutil -lnest -lrandom -lsli -lnestkernel -ltopology > -fopenmp /usr/lib/x86_64-linux-gnu/libltdl.so > /usr/lib/x86_64-linux-gnu/libgsl.so > /usr/lib/x86_64-linux-gnu/libgslcblas.so > /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so > /usr/lib/x86_64-linux-gnu/libmusic.so > /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so > /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so > > ------------------------------------------------------- > > You can now build and install 'my2module' using > make > make install > > The library file libmy2module.so will be installed to > /home/nest/work/nest-install/lib/nest > Help files will be installed to > /home/nest/work/nest-install/share/doc/nest > > The module can be loaded into NEST using > (my2module) Install (in SLI) > nest.Install('my2module') (in PyNEST) > > The module will be installed into a non-default location! > Make sure to set the environment variables: > export > NEST_MODULE_PATH=/home/nest/work/nest-install/lib/nest:$NEST_MODULE_PATH > export > SLI_PATH=/home/nest/work/nest-install/share/nest/sli:$SLI_PATH > > -- Configuring done > -- Generating done > -- Build files have been written to: /home/nest/examples/My2Module > ----------------------------------------------------- > > ***************** > 2) "{NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs > --cflags OUTPUT > ***************** > > nest@nestvm:~$ export NEST_INSTALL_DIR=/home/nest/work/nest-install > nest@nestvm:~$ {NEST_INSTALL_DIR}/bin/nest-config --prefix > --includes --libs --cflags > bash: {NEST_INSTALL_DIR}/bin/nest-config: No such file or directory > ***************** > then added absolute path to produce output below > ***************** > nest@nestvm:~$ /home/nest/work/nest-install/bin/nest-config > --prefix --includes --libs --cflags > /home/nest/work/nest-install > -I/home/nest/work/nest-simulator-2.18.0/conngen > -I../nest-install/include/nest -I/usr/include -I/usr/include > -I/usr/local/include -I/usr/include > -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi > -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent > -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include > -I/usr/lib/x86_64-linux-gnu/openmpi/include > -L/home/nest/work/nest-install/lib -lconngen -lnestutil -lnest > -lrandom -lsli -lnestkernel -ltopology -fopenmp > /usr/lib/x86_64-linux-gnu/libltdl.so > /usr/lib/x86_64-linux-gnu/libgsl.so > /usr/lib/x86_64-linux-gnu/libgslcblas.so > /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so > /usr/lib/x86_64-linux-gnu/libmusic.so > /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so > /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so > -std=c++11 -O2 -Wall -fopenmp -pthread -fdiagnostics-color=auto > ***************** > END > ***************** > > On Wed, May 20, 2020 at 3:08 AM Hans Ekkehard Plesser > <hans.ekkehard.plesser@nmbu.no > <mailto:hans.ekkehard.plesser@nmbu.no>> wrote: > > > Hi Allen, > >> Below I show how I adapted/complied the example MyModule >> included on github and the error message I get (bottom of email). > > The steps look generally good. > >> two absolute paths inserted (correct missing file error): >> #include >> "/home/nest/work/nest-simulator-2.18.0/sli/slifunction.h" >> #include "/home/nest/work/nest-simulator-2.18.0/sli/slimodule.h" > > You should not need the absolute paths, just the filenames > should suffice. > >> $ cd mmb >> $ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config >> ../My2Module >> $ make > > Could you post the output of the cmake command? > > And also the output of the following command > > ${NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs > --cflags > > Best, > Hans Ekkehard > >> >> ********************** >> ***ERROR MSG*** >> make: *** No targets specified and no makefile found. Stop. >> ********************* >> ********************* >> >> *** changed directory from ./mmb to ./My2Module then re-ran >> make***** >> >> $ cd ~ examples/My2Module >> $ make >> >> ***************'******* >> ***ERROR MSG**** >> Scanning dependencies of target my2module_module >> [ 10%] Building CXX object >> CMakeFiles/my2module_module.dir/my2module.cpp.o >> In file included from >> /home/nest/examples/My2Module/my2module.cpp:29:0: >> /home/nest/examples/My2Module/drop_odd_spike_connection.h:27:10: >> fatal error: connection.h: No such file or directory #include >> "connection.h" >> ********************** >> ********************* >> >> >> On Wed, May 6, 2020 at 2:33 AM Hans Ekkehard Plesser >> <hans.ekkehard.plesser@nmbu.no >> <mailto:hans.ekkehard.plesser@nmbu.no>> wrote: >> >> >> Hi Allen, >> >> Several steps are required to add a model to NEST. The >> recommended way of adding a model is to create your own >> NEST module outside the NEST source code tree. You will >> find an example in examples/MyModule and more >> documentation at >> https://nest.github.io/nest-simulator/extension_modules >> <https://secure-web.cisco.com/1OkG_4Lw1yXYSv9Bo1mMO2W05lnXnEL03XeGcAPY__8APmBFD6LJj5zzZE42doCxkKRobTud5P4AT-oAs4WO_e4LtGvMBLDNRl2akKXbAPU8F8r9Rm4A-tpRybnnEUh062b56HNleUWk7QJ6N1WbDPtfI2tSIZfBrNSy7ZS4MsvzYfYHFlpG8GQQde5gApJecM5CFQEEP9CGymqYZ18LQ3zj1pcYeYG_L4XhXZhfL9be5WtSMrDZVy_ZeB0g3Qorb-lhDrLguvPgqUhCze8vfsqesaXfTpE3HtpsEMUcfd3Xc5vUP1KU6rRWzSAw8az7wM5CxmAlax7wYyP8eT_0bQAweIakbsUW3bXaCT9znQv15l-qoBLExOyTKQvbcyNiwLEBNflla-_MsLueEemTJ1NRiHSI7kGavYtpaKaeXtlSy7q0YU9lIMHnnS0AWr5keolzddt0U0uCpJmO2uL9FUA/https%3A%2F%2Fnest.github.io%2Fnest-simulator%2Fextension_modules>. >> >> Placing code for custom models in the models directory in >> the NEST source code tree also works, but makes it more >> difficult to move to newer versions of NEST or to share >> your custom models with colleagues. >> >> Briefly, in addition to adding the source code files to >> the models directory, you need to >> >> 1. add the files to models/CMakeLists.txt >> 2. #include the files in models/modelsmodule.cpp >> 3. add a line like >> >> register_connection_model< StaticConnection >( "static_synapse" ); >> >> for each model. The template parameter is the model >> class, the string the name it will have in NEST >> 4. recompile and reinstall NEST >> >> Best, >> Hans Ekkehard >> >> >> >>> On 6 May 2020, at 02:11, Allen Rabayda >>> <arabayda@masonlive.gmu.edu >>> <mailto:arabayda@masonlive.gmu.edu>> wrote: >>> >>> Dear Nest Community, >>> >>> Would anyone have insight into why I'm getting an >>> UnknownModelName error? >>> >>> I'm new to Nest and am using Nest 18.0 on Lubuntu >>> Virtual Box (Windows 10 OS). >>> >>> Thanks for any help. >>> >>> Best Regards, >>> --Allen >>> >>> **** Error Message--additional details attached ****** >>> raise exceptionCls(commandname, message) >>> nest.ll_api.UnknownModelName: ('UnknownModelName in >>> CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is >>> not a known model name. Please check the modeldict for a >>> list of available models.', 'UnknownModelName', >>> <SLILiteral: CopyModel_l_l_D>, ': >>> /stdp_izh_bitwise_correct_connection is not a known >>> model name. Please check the modeldict for a list of >>> available models.') >>> ******************************************************** >>> <issue_UnknownModelName_4_May_2020>_______________________________________________ >>> NEST Users mailing list -- users@nest-simulator.org >>> <mailto:users@nest-simulator.org> >>> To unsubscribe send an email to >>> users-leave@nest-simulator.org >>> <mailto:users-leave@nest-simulator.org> >> >> -- >> >> Prof. Dr. Hans Ekkehard Plesser >> Head, Data Science Section >> >> Faculty of Science and Technology >> Norwegian Universityof Life Sciences >> PO Box 5003, 1432Aas, Norway >> >> Phone +47 6723 1560 >> Emailhans.ekkehard.plesser@nmbu.no >> <http://secure-web.cisco.com/1oGxjTBn6G3zlyNTvv_hoyiXx9VwKKhVYGsnt8WkKZtjey0jolrbMkgNX8nwZ1_mVOfMZGiux9uomyEPFv1tB5lZkHqSDndkoq7WT3154Yx4mGDr8Arv_7jWQmncdw7br50zI6WljWy5IK7VdXa7cWJJMsib-PBr0HtFYGs5gbgToIMYR4w5rKqurTb-v0rgSNtJsrdJncRz5eqmnGWYbcKnShFCDiXti1pbbYmie86yWljTQbF0AtIphD_zoqJhi-TJYrXXjeVGyc2k_WQiq9cNQvbZlxfWAY8GM2CJWq_YnFnAj_wgKoFCuxVcs6gPmu6B-M8f9ZylTFcZTKA4SjnK6SJPiDig8sJf7qhGQW0aB1CMf88nIeQJFd5NE_nXYNkveMYHT2So_RNGY06D7hdDTA1VoxJgrV-JxlTvip1uelk7bGF8CPbWbPaNV-TAvtps_fwU_5vhhGiNNNPML6Q/http%3A%2F%2Fnmbu.no%2F> >> Homehttp://arken.nmbu.no/~plesser >> <http://secure-web.cisco.com/1NGU903Sz1mZbu-kUPO3tQjT8UGyiDXuL1fL2jQ0S4SkecW_uuWYlUr2l7vZeLiTlDo3I1xA_9Uf9v2N2p6tjNn25_ocHbrkd2JTx3GnGb-vebjXVovfSgdnKywi7KN485GJR_TQFVuJx5_MF6BXctVjmSoVYFiOG8Mu-TNlxK_xmGEWTPq3fhJXq122hpV7ruHShklc4kmqI33bXV1ZEU5eouIGhJ9nWmVo-NDeVaimFTzO6qmmGUU8EmR5e85dLtIrPmdtDprPb6mYTmwlmgj1lXqSapHgZL1zIn5I8o20lNXdX7P9nJVozEyOsAC9-TANbvcvJ4GMYG2gqDGBhlRa8QFDC9bpJFc6GW_bJhvI45kyeJj_P-qg6vmCiw6UCdxjNZSxzNTt4B7wtYDbj8F7EPJbVjtAeY5zLpAYyKQsL_mXRdL5yHAz35VHWlUwy/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser> >> >> _______________________________________________ >> NEST Users mailing list -- users@nest-simulator.org >> <mailto:users@nest-simulator.org> >> To unsubscribe send an email to >> users-leave@nest-simulator.org >> <mailto:users-leave@nest-simulator.org> >> >> _______________________________________________ >> NEST Users mailing list -- users@nest-simulator.org >> <mailto:users@nest-simulator.org> >> To unsubscribe send an email to >> users-leave@nest-simulator.org >> <mailto:users-leave@nest-simulator.org> > > -- > > Prof. Dr. Hans Ekkehard Plesser > Head, Data Science Section > > Faculty of Science and Technology > Norwegian Universityof Life Sciences > PO Box 5003, 1432Aas, Norway > > Phone +47 6723 1560 > Emailhans.ekkehard.plesser@nmbu.no > <http://secure-web.cisco.com/1iP5XxSIgK1wF5QUFextVYBJcuhTvD7uZziUM9b_0s3CJyt4coQ-JaojYPcWkHY6GfIgOzSAlr4NFfZhr8Z172zC5SaCAWrN7Zz9ApSd4f6eA5bPremYXBOqAH_0MM6CCSJR7eDvRFU9Qd1y6vawZ91iPX2y5qaoU-0SyZyHI2UD7rp6FmPOi7PWHBHk9gXb6fp6qP1wbpMV8lwrvMGDglP_bw3HnLWIpw2DZKS0sDuzdrn7ECQmCzGHhIivmcUOsZgWNtnuP6A2WrPlnyAaeLuxwfQ4BYv7288-Qq4k9w4w5jGWOpMHFPs837kFW4zLht7l_9Dz4nsqCl8dSn1RmhHmeHEd412A_NctYEoizC86CDJutdeZ0jhh6K2HEDCT5snwo68iJAPnc20uucORO3mJinauyJ5801Fqj5-1zqMAIXt2rvrHJBTIrMSgG_dzU0jtP9ZS2AYhy13V_mxMYvA/http%3A%2F%2Fnmbu.no%2F> > Homehttp://arken.nmbu.no/~plesser > <http://secure-web.cisco.com/1Yaz1kjc6VGnCjQQ1iYz5UzgeB8gnIvsxcPfiFurdqrnLLEWwnAKf1OZf_fQ2tyFo0TCRgdCgP6hn0zGKQEBdzOBDzQKjHGM9AI7d7tpeDLOm-jgCdjaiHVa1soloQe1uDkeWcKDWx4uEqNa7RanMBiY5pcihXtfkEJsP_kJi-fNMVAJUzp4PU1Q3vI-u039bL3kxazbvIqYnR5TY-jdwqAJktCuCdh8VCMEX6hNO62dDiD8Nmhpa-btsTr-jjlPsCPaNjkA7aZ08WxrEyinmMYfdOB1b38lthuLD3HSlT9yy483Jt2iLUip3GwCXeIW0c21Mqdg9KLcj65O5lAIsslHkqdpNmNjRP0K9tAMp8xrCg4JdGkK6YLINQvz65xkso4plOFxA9laXV0PUAaHgbylgRD34SSBj2I3lSM43Kofs0nQX3UWMtgmCbwFQ45EHMLfxEHKMAWZVUbLgujnSYw/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser> > > _______________________________________________ > NEST Users mailing list -- users@nest-simulator.org > <mailto:users@nest-simulator.org> > To unsubscribe send an email to users-leave@nest-simulator.org > <mailto:users-leave@nest-simulator.org> > > _______________________________________________ > NEST Users mailing list -- users@nest-simulator.org > <mailto:users@nest-simulator.org> > To unsubscribe send an email to users-leave@nest-simulator.org > <mailto:users-leave@nest-simulator.org> -- Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section Faculty of Science and Technology Norwegian Universityof Life Sciences PO Box 5003, 1432Aas, Norway Phone +47 6723 1560 Emailhans.ekkehard.plesser@nmbu.no <http://nmbu.no> Homehttp://arken.nmbu.no/~plesser <http://secure-web.cisco.com/1nd3Dn41NSvMCZuqSxusD7gKebEdh81Q4sSm7WqGfmTpD98eMdRbko3iFKsYYyH0v-Rq3hKbZ-NmkF8WEGl_CwIq5sX4c19CZ9477L19Gtrel3_Ptmn-cvOuuMV3ig2KkmysLVdb4e6MjQMXdwY4eaflxKe_ymORYjasNRPHBMh5utr9uwUtP_sySj9K7QoF0j55RbN8yXne0tbD6U1y8uRymd7rY28hB1YkkNDcHm2tiCcmMWl_WXxNx-v5Otfqv5iAWhKYHvmkHkB9dP1d1qtkl6DMrLsy8wrmt_pBC-zjZWkFFMlzrp-lroQIlPIiZj7kGu_NAP09PynPIhz25hVzaNDtfZ4e6L9KS7ACVjaH32KFrogiLravhZV6QQDTB_hf-P1qjaWPZmR-KaWPjKBdVsa5g8WnFUdtAc8CAnFgz5ysCDDiIrCVP0WipCdt2e-B1QZi4YHNpcucciAE9HQ/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser> _______________________________________________ NEST Users mailing list -- users@nest-simulator.org <mailto:users@nest-simulator.org> To unsubscribe send an email to users-leave@nest-simulator.org <mailto:users-leave@nest-simulator.org> _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
-- Dr. Jochen Martin Eppler Phone: +49(2461)61-96653 ---------------------------------- Simulation Laboratory Neuroscience Jülich Supercomputing Centre Institute for Advanced Simulation
------------------------------------------------------------------------------------------------ ------------------------------------------------------------------------------------------------ Forschungszentrum Juelich GmbH 52425 Juelich Sitz der Gesellschaft: Juelich Eingetragen im Handelsregister des Amtsgerichts Dueren Nr. HR B 3498 Vorsitzender des Aufsichtsrats: MinDir Volker Rieke Geschaeftsfuehrung: Prof. Dr.-Ing. Wolfgang Marquardt (Vorsitzender), Karsten Beneke (stellv. Vorsitzender), Prof. Dr.-Ing. Harald Bolt ------------------------------------------------------------------------------------------------ ------------------------------------------------------------------------------------------------
Jochen, Thank you. Looking forward to using it. Will watch for your next email. Best Regards, --Allen
On Wed, Jun 24, 2020 at 4:59 AM Jochen Martin Eppler j.eppler@fz-juelich.de wrote:
Hi!
Just a quick heads up: I am currently working on a refactoring of the example module, which might make things a bit easier in the future.
I'm expecting this to go live by the end of this week and will send another mail to this list once I'm done.
Cheers, Jochen!
On 16.06.20 03:12, Allen Rabayda wrote:
Hans and Nest User Community,
I was wondering if you had any advice for my errors when I compile/register the custom Synapse Model, stdp_izh_connection.h/.cpp as I can compile/install without issue using the example custom models like pif_psc_alpha and drop_odd_synapse alone.
Two quick questions.
#1 Which synapse model registration statement should I use in "my2module.cpp":
nest::kernel().model_manager.register_connection_model<STDPIzhConnection<targetidentifierT
( "stdp_izh_connection" );
- nest::kernel().model_manager.register_connection_model<
STDPIzhConnection< nest::TargetIdentifierPtrRport >
("stdp_izh_connection" );
- nest::kernel().model_manager.register_prototype_connection<
STDPIzhConnection< nest::TargetIdentifierPtrRport >
("stdp_izh_connection" );
- nest::kernel().model_manager.register_prototype_connection<
STDPIzhConnection>(net_, "stdp_izh_connection" );
#2 Which argument, "targetidentifierT" or "TargetIdentifierPtrRport", should I use:
in "my2module.cpp" model registration?
and in my synapse model, "stdp_izh_connection.h", templates?
I've included one of my error messages below for reference. I
received similar error messages for each of the registration statements used above.
Thank you for any advice you may offer.
Best Regards, --Allen
********* Background on the Custom Synapse Model********
- stdp_izh_connection.h/.cpp has been updated for nest 5g kernel per
https://secure-web.cisco.com/1VdennQVusYlBHKK3H6dHSFKR8Vx1UWLhPZEEF2FsPX0XIW...
- stdp_izh_connection.h/.cpp has reformatted using
https://secure-web.cisco.com/1lwxXr_h6qWHk3vUFEx9s3nM4-jO0JT_jD9S9iNMcA6K0MF...
as an example.
*********** Nest Compile Errors when including: stdp_izh_connection.h/.cpp*********** [ 10%] Building CXX object
CMakeFiles/my2module_module.dir/my2module.cpp.o
In file included from /home/nest/examples/My2Module/my2module.cpp:33:0: /home/nest/examples/My2Module/stdp_izh_connection.h: In member function ‘void nest::STDPIzhConnection<targetidentifierT>::send(nest::Event&, nest::thread, const nest::STDPIzhCommonProperties&)’: /home/nest/examples/My2Module/stdp_izh_connection.h:305:5: error: ‘class nest::Event’ has no member named ‘set_multiplicity’ e.set_multiplicity( -1 ); ^~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/stdp_izh_connection.h:306:5: error: ‘class nest::Event’ has no member named ‘set_delay’; did you mean ‘set_sender’? e.set_delay( ConnectionBase::get_delay_steps() ); // ConnectionBase not used in sample ^~~~~~~~~ set_sender /home/nest/examples/My2Module/stdp_izh_connection.h:309:18: error: ‘t_spike’ was not declared in this scope t_lastspike_ = t_spike; // added per ref:
https://secure-web.cisco.com/1VdennQVusYlBHKK3H6dHSFKR8Vx1UWLhPZEEF2FsPX0XIW...
^~~~~~~/home/nest/examples/My2Module/stdp_izh_connection.h:309:18: note: suggested alternative: In file included from
/home/nest/work/nest-install/include/nest/node.h:37:0,
from/home/nest/work/nest-install/include/nest/common_synapse_properties.h:29, from /home/nest/work/nest-install/include/nest/connection.h:27, from /home/nest/examples/My2Module/drop_odd_spike_connection.h:27, from /home/nest/examples/My2Module/my2module.cpp:29: /home/nest/work/nest-install/include/nest/nest_names.h:424:19: note: ‘nest::names::t_spike’ extern const Name t_spike; ^~~~~~~ /home/nest/examples/My2Module/my2module.cpp: In member function ‘virtual void mynest::My2Module::init(SLIInterpreter*)’: /home/nest/examples/My2Module/my2module.cpp:142:59: error: ‘STDPIzhConnection’ was not declared in this scope nest::kernel().model_manager.register_connection_model< STDPIzhConnection< targetidentifierT > >(
^~~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/my2module.cpp:142:59: note: suggested alternative: In file included from /home/nest/examples/My2Module/my2module.cpp:33:0: /home/nest/examples/My2Module/stdp_izh_connection.h:114:7: note: ‘nest::STDPIzhConnection’ class STDPIzhConnection: public nest::Connection< targetidentifierT > ^~~~~~~~~~~~~~~~~ /home/nest/examples/My2Module/my2module.cpp:142:78: error: ‘targetidentifierT’ was not declared in this scope nest::kernel().model_manager.register_connection_model< STDPIzhConnection< targetidentifierT > >(
^~~~~~~~~~~~~~~~~/home/nest/examples/My2Module/my2module.cpp:143:27: warning: comparison with string literal results in unspecified behavior [-Waddress] "stdp_izh_connection" ); ^ /home/nest/examples/My2Module/my2module.cpp:142:98: error: invalid operands of types ‘<unresolved overloaded function type>’ and ‘const char [20]’ to binary ‘operator>’ nest::kernel().model_manager.register_connection_model< STDPIzhConnection< targetidentifierT > >(
> "stdp_izh_connection" ); > ~~~~~~~~~~~~~~~~~~~~~~~ > CMakeFiles/my2module_module.dir/build.make:62: recipe for target > 'CMakeFiles/my2module_module.dir/my2module.cpp.o' failed > make[2]: *** [CMakeFiles/my2module_module.dir/my2module.cpp.o] Error 1 > CMakeFiles/Makefile2:67: recipe for target > 'CMakeFiles/my2module_module.dir/all' failed > make[1]: *** [CMakeFiles/my2module_module.dir/all] Error 2 > Makefile:151: recipe for target 'all' failed > make: *** [all] Error 2 > > On Fri, May 22, 2020 at 8:24 AM Hans Ekkehard Plesser > <hans.ekkehard.plesser@nmbu.no <mailto:hans.ekkehard.plesser@nmbu.no>> > wrote: > > > Hi Allen, > > Thanks. It looks like a relative path has ended up in your > nest-config file where it should have been an absolute path. Could > you open file > > nest-install/bin/nest-config > > and go to roughly line 55, where you should find something like > > --includes) > echo " -I/home/nest/work/nest-simulator-2.18.0/conngen > -I../nest-install/include/nest -I/usr/include -I/usr/include > -I/usr/local/include -I/usr/include > -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi > -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent > -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include > -I/usr/lib/x86_64-linux-gnu/openmpi/include" > ;; > > Please replace within > > -I../nest-install/include/nest > > the .. with the absolute path. Then run cmake and make again in the > My2Module build directory. You may want to delete anything in that > build directory first to avoid old Cmake cached data. > > Best, > Hans Ekkehard > >> On 21 May 2020, at 22:13, Allen Rabayda >> <arabayda@masonlive.gmu.edu <mailto:arabayda@masonlive.gmu.edu>> >> wrote: >> >> Hans, >> Below is the output from my 1) "cmake" and 2) >> "{NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs >> --cflags" commands. >> Thank you, >> --Allen >> >> Charl, I had not yet tried any of the processes on >> https://secure-web.cisco.com/1MLBFo3x6JJko67my3nTeNwTgT3_lFTJxBACoNQGKpE8Se7zPjWMIW0MpYhHrKbDXX3ZNbk4euAnJb3AIkhmmm67uDfqIQxzFlnW3vk5AqpY8SVFz_HrMQKeG6q-v_6vC60p9T_1O2X8CS0B90qu3GcsIDmdeMBqQFOZNTrG5uW0rJjnGaLPfEQguHEWisIpFeM5gj-1FATioYgQFeaXulpyC1ubvgm_O6zXhLK_DEUB92KF0be0E0fkXUsxIedYUXCOjuLOTzitd5JMMp_9F1dkpo6j2MgLi5r9AZwW9BHSHbhqBw0qgFmVQckuEOtrY1umfkNW5e9TNBEd_xe2i0CnUDY3cdNGe9BgqH4l6ZZjvPSdk_LQIsPmj8lGnuxS3Z9vKxCARCi2PUu7ifomMEJTGKzL1BTovXo3erbDQXHhV-2BqUFD-RMM4EFxlbTtZ/https%3A%2F%2Fgithub.com%2Fnest%2Fnest-simulator%2Fissues%2F1331 >> < https://secure-web.cisco.com/1pvWX8gcr0ktPCO_pJ-XSV7OsLHFiWmE4gqVEtVzPY62QxY1eQ-8GQWP65ZAm2UnzB305znKhGBeGwk3pBCBzl8VOR2DbwaEVtwB6IqqgcUZ00aQ3KCz0pZCavFLjDbhwHT4dDzuJDzmZfXfPOh43poIG8N04bRnb8yWGChAfBw_d6FveE9QCARl1P7RLbZx2JO3Jutn_6NeHuvQ0US81N-LR2KHLRq2OP2zVHL989CZBuJHc2L7rHt8e95I7GsWuJ3nWlu8gts8AL8Q0aGjxo0Kzn1ZZbaQDJeBZkM7a8aQGjOjHfq24TEYMImyCtMnNUrAJciz44-6tObOUK8QDbtLQq6fszadM72YPHar9u1kjbVNXqRfAN6N6YNs3faASL0TwqOGptnApRBX2ImM9ySgQBFW48w8-871pKl3Dw83zEcxHGZ9dvmzsLptIVDNL/https%3A%2F%2Fgithub.com%2Fnest%2Fnest-simulator%2Fissues%2F1331 >. >> Thank you,--Allen >> >> >> ***************** >> 1) CMAKE OUTPUT: >> ***************** >> >> nest@nestvm:~/examples/My2Module$ cmake >> -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config ../My2Module >> >> ------------------------------------------------------- >> my2module Configuration Summary >> ------------------------------------------------------- >> >> C++ compiler : /usr/bin/c++ >> Build static libs : OFF >> C++ compiler flags : >> NEST compiler flags : -std=c++11 -O2 -Wall -fopenmp -pthread >> -fdiagnostics-color=auto >> NEST include dirs : >> -I/home/nest/work/nest-simulator-2.18.0/conngen >> -I../nest-install/include/nest -I/usr/include -I/usr/include >> -I/usr/local/include -I/usr/include >> -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi >> -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent >> -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include >> -I/usr/lib/x86_64-linux-gnu/openmpi/include >> NEST libraries flags : -L/home/nest/work/nest-install/lib >> -lconngen -lnestutil -lnest -lrandom -lsli -lnestkernel -ltopology >> -fopenmp /usr/lib/x86_64-linux-gnu/libltdl.so >> /usr/lib/x86_64-linux-gnu/libgsl.so >> /usr/lib/x86_64-linux-gnu/libgslcblas.so >> /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so >> /usr/lib/x86_64-linux-gnu/libmusic.so >> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so >> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so >> >> ------------------------------------------------------- >> >> You can now build and install 'my2module' using >> make >> make install >> >> The library file libmy2module.so will be installed to >> /home/nest/work/nest-install/lib/nest >> Help files will be installed to >> /home/nest/work/nest-install/share/doc/nest >> >> The module can be loaded into NEST using >> (my2module) Install (in SLI) >> nest.Install('my2module') (in PyNEST) >> >> The module will be installed into a non-default location! >> Make sure to set the environment variables: >> export >> NEST_MODULE_PATH=/home/nest/work/nest-install/lib/nest:$NEST_MODULE_PATH >> export >> SLI_PATH=/home/nest/work/nest-install/share/nest/sli:$SLI_PATH >> >> -- Configuring done >> -- Generating done >> -- Build files have been written to: /home/nest/examples/My2Module >> ----------------------------------------------------- >> >> ***************** >> 2) "{NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs >> --cflags OUTPUT >> ***************** >> >> nest@nestvm:~$ export NEST_INSTALL_DIR=/home/nest/work/nest-install >> nest@nestvm:~$ {NEST_INSTALL_DIR}/bin/nest-config --prefix >> --includes --libs --cflags >> bash: {NEST_INSTALL_DIR}/bin/nest-config: No such file or directory >> ***************** >> then added absolute path to produce output below >> ***************** >> nest@nestvm:~$ /home/nest/work/nest-install/bin/nest-config >> --prefix --includes --libs --cflags >> /home/nest/work/nest-install >> -I/home/nest/work/nest-simulator-2.18.0/conngen >> -I../nest-install/include/nest -I/usr/include -I/usr/include >> -I/usr/local/include -I/usr/include >> -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi >> -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent >> -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include >> -I/usr/lib/x86_64-linux-gnu/openmpi/include >> -L/home/nest/work/nest-install/lib -lconngen -lnestutil -lnest >> -lrandom -lsli -lnestkernel -ltopology -fopenmp >> /usr/lib/x86_64-linux-gnu/libltdl.so >> /usr/lib/x86_64-linux-gnu/libgsl.so >> /usr/lib/x86_64-linux-gnu/libgslcblas.so >> /usr/local/lib/libneurosim.so /usr/local/lib/libpyneurosim.so >> /usr/lib/x86_64-linux-gnu/libmusic.so >> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so >> /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so >> -std=c++11 -O2 -Wall -fopenmp -pthread -fdiagnostics-color=auto >> ***************** >> END >> ***************** >> >> On Wed, May 20, 2020 at 3:08 AM Hans Ekkehard Plesser >> <hans.ekkehard.plesser@nmbu.no >> <mailto:hans.ekkehard.plesser@nmbu.no>> wrote: >> >> >> Hi Allen, >> >>> Below I show how I adapted/complied the example MyModule >>> included on github and the error message I get (bottom of email). >> >> The steps look generally good. >> >>> two absolute paths inserted (correct missing file error): >>> #include >>> "/home/nest/work/nest-simulator-2.18.0/sli/slifunction.h" >>> #include "/home/nest/work/nest-simulator-2.18.0/sli/slimodule.h" >> >> You should not need the absolute paths, just the filenames >> should suffice. >> >>> $ cd mmb >>> $ cmake -Dwith-nest=${NEST_INSTALL_DIR}/bin/nest-config >>> ../My2Module >>> $ make >> >> Could you post the output of the cmake command? >> >> And also the output of the following command >> >> ${NEST_INSTALL_DIR}/bin/nest-config --prefix --includes --libs >> --cflags >> >> Best, >> Hans Ekkehard >> >>> >>> ********************** >>> ***ERROR MSG*** >>> make: *** No targets specified and no makefile found. Stop. >>> ********************* >>> ********************* >>> >>> *** changed directory from ./mmb to ./My2Module then re-ran >>> make***** >>> >>> $ cd ~ examples/My2Module >>> $ make >>> >>> ***************'******* >>> ***ERROR MSG**** >>> Scanning dependencies of target my2module_module >>> [ 10%] Building CXX object >>> CMakeFiles/my2module_module.dir/my2module.cpp.o >>> In file included from >>> /home/nest/examples/My2Module/my2module.cpp:29:0: >>> /home/nest/examples/My2Module/drop_odd_spike_connection.h:27:10: >>> fatal error: connection.h: No such file or directory #include >>> "connection.h" >>> ********************** >>> ********************* >>> >>> >>> On Wed, May 6, 2020 at 2:33 AM Hans Ekkehard Plesser >>> <hans.ekkehard.plesser@nmbu.no >>> <mailto:hans.ekkehard.plesser@nmbu.no>> wrote: >>> >>> >>> Hi Allen, >>> >>> Several steps are required to add a model to NEST. The >>> recommended way of adding a model is to create your own >>> NEST module outside the NEST source code tree. You will >>> find an example in examples/MyModule and more >>> documentation at >>> https://secure-web.cisco.com/11nUY061zM84Rywlc6PRfWD_B9ZVp7ehPlNtXWQvY1m9V_LFkJ_ugJnwQx_Amm1-lIUqdN_qKLfovOKOPNJukVQXP1K-OfJhESynI6gHelcvzO1fQNQfA6P5sbyZ6BsIficpzEQQe3PrIQ_9wQ97xxJ0Y1zCpXoQ8JSs_AbGoTiY1-2A_vIS-B3NtokXjZVr8Jtyydc1tTf3t3Ea0AhukXclTZIO94WlTZIDDOVpbEDlf52WCFeeMyiiXo38uLHOtsmvCUVarOJqu8iAISvnivRVvvngWuzT6A0dLHL9KOXSei4TZVTIiQCtiZtzGOFjbzg8CeAQ8lxLx_Sy80-uDEpIqNGX3ZCOiqzN2hNNM_5QbtVkmTblXBVXqCPuKOWOd-PK29WKmNnPA3vHyEWSJaw1o8h-VCOP8F6tFP1yLbOc86vD01-vFP1zOIueelc3yVjRnWSwGADxKMCYcltFAgA/https%3A%2F%2Fnest.github.io%2Fnest-simulator%2Fextension_modules >>> < https://secure-web.cisco.com/1OkG_4Lw1yXYSv9Bo1mMO2W05lnXnEL03XeGcAPY__8APmBFD6LJj5zzZE42doCxkKRobTud5P4AT-oAs4WO_e4LtGvMBLDNRl2akKXbAPU8F8r9Rm4A-tpRybnnEUh062b56HNleUWk7QJ6N1WbDPtfI2tSIZfBrNSy7ZS4MsvzYfYHFlpG8GQQde5gApJecM5CFQEEP9CGymqYZ18LQ3zj1pcYeYG_L4XhXZhfL9be5WtSMrDZVy_ZeB0g3Qorb-lhDrLguvPgqUhCze8vfsqesaXfTpE3HtpsEMUcfd3Xc5vUP1KU6rRWzSAw8az7wM5CxmAlax7wYyP8eT_0bQAweIakbsUW3bXaCT9znQv15l-qoBLExOyTKQvbcyNiwLEBNflla-_MsLueEemTJ1NRiHSI7kGavYtpaKaeXtlSy7q0YU9lIMHnnS0AWr5keolzddt0U0uCpJmO2uL9FUA/https%3A%2F%2Fnest.github.io%2Fnest-simulator%2Fextension_modules >. >>> >>> Placing code for custom models in the models directory in >>> the NEST source code tree also works, but makes it more >>> difficult to move to newer versions of NEST or to share >>> your custom models with colleagues. >>> >>> Briefly, in addition to adding the source code files to >>> the models directory, you need to >>> >>> 1. add the files to models/CMakeLists.txt >>> 2. #include the files in models/modelsmodule.cpp >>> 3. add a line like >>> >>> register_connection_model< StaticConnection >( "static_synapse" ); >>> >>> for each model. The template parameter is the model >>> class, the string the name it will have in NEST >>> 4. recompile and reinstall NEST >>> >>> Best, >>> Hans Ekkehard >>> >>> >>> >>>> On 6 May 2020, at 02:11, Allen Rabayda >>>> <arabayda@masonlive.gmu.edu >>>> <mailto:arabayda@masonlive.gmu.edu>> wrote: >>>> >>>> Dear Nest Community, >>>> >>>> Would anyone have insight into why I'm getting an >>>> UnknownModelName error? >>>> >>>> I'm new to Nest and am using Nest 18.0 on Lubuntu >>>> Virtual Box (Windows 10 OS). >>>> >>>> Thanks for any help. >>>> >>>> Best Regards, >>>> --Allen >>>> >>>> **** Error Message--additional details attached ****** >>>> raise exceptionCls(commandname, message) >>>> nest.ll_api.UnknownModelName: ('UnknownModelName in >>>> CopyModel_l_l_D: /stdp_izh_bitwise_correct_connection is >>>> not a known model name. Please check the modeldict for a >>>> list of available models.', 'UnknownModelName', >>>> <SLILiteral: CopyModel_l_l_D>, ': >>>> /stdp_izh_bitwise_correct_connection is not a known >>>> model name. Please check the modeldict for a list of >>>> available models.') >>>> ******************************************************** >>>> <issue_UnknownModelName_4_May_2020>_______________________________________________ >>>> NEST Users mailing list -- users@nest-simulator.org >>>> <mailto:users@nest-simulator.org> >>>> To unsubscribe send an email to >>>> users-leave@nest-simulator.org >>>> <mailto:users-leave@nest-simulator.org> >>> >>> -- >>> >>> Prof. Dr. Hans Ekkehard Plesser >>> Head, Data Science Section >>> >>> Faculty of Science and Technology >>> Norwegian Universityof Life Sciences >>> PO Box 5003, 1432Aas, Norway >>> >>> Phone +47 6723 1560 >>> Emailhans.ekkehard.plesser@nmbu.no >>> < http://secure-web.cisco.com/1oGxjTBn6G3zlyNTvv_hoyiXx9VwKKhVYGsnt8WkKZtjey0jolrbMkgNX8nwZ1_mVOfMZGiux9uomyEPFv1tB5lZkHqSDndkoq7WT3154Yx4mGDr8Arv_7jWQmncdw7br50zI6WljWy5IK7VdXa7cWJJMsib-PBr0HtFYGs5gbgToIMYR4w5rKqurTb-v0rgSNtJsrdJncRz5eqmnGWYbcKnShFCDiXti1pbbYmie86yWljTQbF0AtIphD_zoqJhi-TJYrXXjeVGyc2k_WQiq9cNQvbZlxfWAY8GM2CJWq_YnFnAj_wgKoFCuxVcs6gPmu6B-M8f9ZylTFcZTKA4SjnK6SJPiDig8sJf7qhGQW0aB1CMf88nIeQJFd5NE_nXYNkveMYHT2So_RNGY06D7hdDTA1VoxJgrV-JxlTvip1uelk7bGF8CPbWbPaNV-TAvtps_fwU_5vhhGiNNNPML6Q/http%3A%2F%2Fnmbu.no%2F > >>> Homehttp:// secure-web.cisco.com/1GxBrTIvidKyg8bDi2P5i7i22ns5X8VwghGHrD4rONPwtdTt4RHOt6N_NvSjWy-Vs8GLnHEPH8RohYSy7u2tSIxtU9J9GvQOZS_9MXJKkBM5x1dbRi8PIhCyNOVX4UIznBcrj3xcVo_QjqSmlWH96_17iF34IPspjOs8Rj_Fqwm0VqoRTGVKKz0p4kptMLzC5-Qdh8GoIMghMosF_2vD1MkHx0LR7trcZssZSPu0JYRa3OCszXSduy7yN-ImI-AiewL_Y_RSXm2HEhom602wZ72dJ19uyTeezXcnw6CLrZEWLsFSFSG8B9UdxQnpG4UjgAEqn9aVap4fFQF5ROD_Y_p_G2wZ7rHexHMfWp2Bwad7CtrBubgo3hNzLzxPKgCZX8xZ_k5WSMNbmXIuHhnCVoIXGmEVBrpY4udU2jd50bLf4zK10S8Rdebm7yqt5U6Zq/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser >>> < http://secure-web.cisco.com/1NGU903Sz1mZbu-kUPO3tQjT8UGyiDXuL1fL2jQ0S4SkecW_uuWYlUr2l7vZeLiTlDo3I1xA_9Uf9v2N2p6tjNn25_ocHbrkd2JTx3GnGb-vebjXVovfSgdnKywi7KN485GJR_TQFVuJx5_MF6BXctVjmSoVYFiOG8Mu-TNlxK_xmGEWTPq3fhJXq122hpV7ruHShklc4kmqI33bXV1ZEU5eouIGhJ9nWmVo-NDeVaimFTzO6qmmGUU8EmR5e85dLtIrPmdtDprPb6mYTmwlmgj1lXqSapHgZL1zIn5I8o20lNXdX7P9nJVozEyOsAC9-TANbvcvJ4GMYG2gqDGBhlRa8QFDC9bpJFc6GW_bJhvI45kyeJj_P-qg6vmCiw6UCdxjNZSxzNTt4B7wtYDbj8F7EPJbVjtAeY5zLpAYyKQsL_mXRdL5yHAz35VHWlUwy/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser > >>> >>> _______________________________________________ >>> NEST Users mailing list -- users@nest-simulator.org >>> <mailto:users@nest-simulator.org> >>> To unsubscribe send an email to >>> users-leave@nest-simulator.org >>> <mailto:users-leave@nest-simulator.org> >>> >>> _______________________________________________ >>> NEST Users mailing list -- users@nest-simulator.org >>> <mailto:users@nest-simulator.org> >>> To unsubscribe send an email to >>> users-leave@nest-simulator.org >>> <mailto:users-leave@nest-simulator.org> >> >> -- >> >> Prof. Dr. Hans Ekkehard Plesser >> Head, Data Science Section >> >> Faculty of Science and Technology >> Norwegian Universityof Life Sciences >> PO Box 5003, 1432Aas, Norway >> >> Phone +47 6723 1560 >> Emailhans.ekkehard.plesser@nmbu.no >> < http://secure-web.cisco.com/1iP5XxSIgK1wF5QUFextVYBJcuhTvD7uZziUM9b_0s3CJyt4coQ-JaojYPcWkHY6GfIgOzSAlr4NFfZhr8Z172zC5SaCAWrN7Zz9ApSd4f6eA5bPremYXBOqAH_0MM6CCSJR7eDvRFU9Qd1y6vawZ91iPX2y5qaoU-0SyZyHI2UD7rp6FmPOi7PWHBHk9gXb6fp6qP1wbpMV8lwrvMGDglP_bw3HnLWIpw2DZKS0sDuzdrn7ECQmCzGHhIivmcUOsZgWNtnuP6A2WrPlnyAaeLuxwfQ4BYv7288-Qq4k9w4w5jGWOpMHFPs837kFW4zLht7l_9Dz4nsqCl8dSn1RmhHmeHEd412A_NctYEoizC86CDJutdeZ0jhh6K2HEDCT5snwo68iJAPnc20uucORO3mJinauyJ5801Fqj5-1zqMAIXt2rvrHJBTIrMSgG_dzU0jtP9ZS2AYhy13V_mxMYvA/http%3A%2F%2Fnmbu.no%2F > >> Homehttp:// secure-web.cisco.com/1GxBrTIvidKyg8bDi2P5i7i22ns5X8VwghGHrD4rONPwtdTt4RHOt6N_NvSjWy-Vs8GLnHEPH8RohYSy7u2tSIxtU9J9GvQOZS_9MXJKkBM5x1dbRi8PIhCyNOVX4UIznBcrj3xcVo_QjqSmlWH96_17iF34IPspjOs8Rj_Fqwm0VqoRTGVKKz0p4kptMLzC5-Qdh8GoIMghMosF_2vD1MkHx0LR7trcZssZSPu0JYRa3OCszXSduy7yN-ImI-AiewL_Y_RSXm2HEhom602wZ72dJ19uyTeezXcnw6CLrZEWLsFSFSG8B9UdxQnpG4UjgAEqn9aVap4fFQF5ROD_Y_p_G2wZ7rHexHMfWp2Bwad7CtrBubgo3hNzLzxPKgCZX8xZ_k5WSMNbmXIuHhnCVoIXGmEVBrpY4udU2jd50bLf4zK10S8Rdebm7yqt5U6Zq/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser >> < http://secure-web.cisco.com/1Yaz1kjc6VGnCjQQ1iYz5UzgeB8gnIvsxcPfiFurdqrnLLEWwnAKf1OZf_fQ2tyFo0TCRgdCgP6hn0zGKQEBdzOBDzQKjHGM9AI7d7tpeDLOm-jgCdjaiHVa1soloQe1uDkeWcKDWx4uEqNa7RanMBiY5pcihXtfkEJsP_kJi-fNMVAJUzp4PU1Q3vI-u039bL3kxazbvIqYnR5TY-jdwqAJktCuCdh8VCMEX6hNO62dDiD8Nmhpa-btsTr-jjlPsCPaNjkA7aZ08WxrEyinmMYfdOB1b38lthuLD3HSlT9yy483Jt2iLUip3GwCXeIW0c21Mqdg9KLcj65O5lAIsslHkqdpNmNjRP0K9tAMp8xrCg4JdGkK6YLINQvz65xkso4plOFxA9laXV0PUAaHgbylgRD34SSBj2I3lSM43Kofs0nQX3UWMtgmCbwFQ45EHMLfxEHKMAWZVUbLgujnSYw/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser > >> >> _______________________________________________ >> NEST Users mailing list -- users@nest-simulator.org >> <mailto:users@nest-simulator.org> >> To unsubscribe send an email to users-leave@nest-simulator.org >> <mailto:users-leave@nest-simulator.org> >> >> _______________________________________________ >> NEST Users mailing list -- users@nest-simulator.org >> <mailto:users@nest-simulator.org> >> To unsubscribe send an email to users-leave@nest-simulator.org >> <mailto:users-leave@nest-simulator.org> > > -- > > Prof. Dr. Hans Ekkehard Plesser > Head, Data Science Section > > Faculty of Science and Technology > Norwegian Universityof Life Sciences > PO Box 5003, 1432Aas, Norway > > Phone +47 6723 1560 > Emailhans.ekkehard.plesser@nmbu.no < http://secure-web.cisco.com/1EamN3fdQ-N495adJ-vlyTRgr6Kv7x5i-dOJ23TU7UShcTn6uG6cEE72S4_17l-UhQUUPdm7PgiIaTKieGwTbhY171lIxRXaYur6hbuIuek7ilKz6aZdu8mRz2qhZVaYvI4XRFya0s04VpiiPZMmVixtlBLroZUNdMURYoqMZ8egt0rzRqhk55WeLcnrvpuba7d5z17LU0RKtEehxXWIukhenU1EgbRL3d-vAvInK1MFKUYpSY02aoJpfRHkEnKvw211bGQ7ug8S4gs9oNON8chEi3Mm7UbooRgmZaC8okLMn1Csklzxbvl0n5BAnYhE0RjTASOirXizXOMuXrz50Y6sbaNs8hLJzZ4Z36tqqoNq8Fml9rsBZz3z-P2cL0DJG1fVvzhlHkLjJCOwnVuyCluZfbKhH2vyWP1HcTnRWHUrsEK6HFM0FWc1lomJPnAox/http%3A%2F%2Fnmbu.no > > Homehttp:// secure-web.cisco.com/1GxBrTIvidKyg8bDi2P5i7i22ns5X8VwghGHrD4rONPwtdTt4RHOt6N_NvSjWy-Vs8GLnHEPH8RohYSy7u2tSIxtU9J9GvQOZS_9MXJKkBM5x1dbRi8PIhCyNOVX4UIznBcrj3xcVo_QjqSmlWH96_17iF34IPspjOs8Rj_Fqwm0VqoRTGVKKz0p4kptMLzC5-Qdh8GoIMghMosF_2vD1MkHx0LR7trcZssZSPu0JYRa3OCszXSduy7yN-ImI-AiewL_Y_RSXm2HEhom602wZ72dJ19uyTeezXcnw6CLrZEWLsFSFSG8B9UdxQnpG4UjgAEqn9aVap4fFQF5ROD_Y_p_G2wZ7rHexHMfWp2Bwad7CtrBubgo3hNzLzxPKgCZX8xZ_k5WSMNbmXIuHhnCVoIXGmEVBrpY4udU2jd50bLf4zK10S8Rdebm7yqt5U6Zq/http%3A%2F%2Farken.nmbu.no%2F%7Eplesser > < 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+49(2461)61-96653 ---------------------------------- Simulation Laboratory Neuroscience Jülich Supercomputing Centre Institute for Advanced Simulation ------------------------------------------------------------------------------------------------ ------------------------------------------------------------------------------------------------ Forschungszentrum Juelich GmbH 52425 Juelich Sitz der Gesellschaft: Juelich Eingetragen im Handelsregister des Amtsgerichts Dueren Nr. HR B 3498 Vorsitzender des Aufsichtsrats: MinDir Volker Rieke Geschaeftsfuehrung: Prof. Dr.-Ing. Wolfgang Marquardt (Vorsitzender), Karsten Beneke (stellv. Vorsitzender), Prof. Dr.-Ing. Harald Bolt ------------------------------------------------------------------------------------------------ ------------------------------------------------------------------------------------------------ _______________________________________________ NEST Users mailing list -- users@nest-simulator.org To unsubscribe send an email to users-leave@nest-simulator.org
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Allen Rabayda -
Charl Linssen -
Hans Ekkehard Plesser -
Itaru Kitayama -
Jochen Martin Eppler