[NEST Users] Re: Error: UnknownModelName

24 Jun 2020

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_h…
 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
 &lt;hans.ekkehard.plesser(a)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
     &lt;arabayda(a)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
     &lt;hans.ekkehard.plesser(a)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
         &lt;hans.ekkehard.plesser(a)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
             &lt;arabayda(a)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>_______________________________________________
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             --

             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(a)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

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         --

         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(a)nmbu.no

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     Prof. Dr. Hans Ekkehard Plesser
     Head, Data Science Section

     Faculty of Science and Technology
     Norwegian Universityof Life Sciences
     PO Box 5003, 1432Aas, Norway

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Dr. Jochen Martin Eppler
Phone: +49(2461)61-96653
----------------------------------
Simulation Laboratory Neuroscience
Jülich Supercomputing Centre
Institute for Advanced Simulation

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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
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