18 Mar
2024
18 Mar
'24
3:24 p.m.
Dear NESTML community,
I have a problem with random number generator in the new version of nestml.
Specifically, I am using
nest 3.6.0
nestml 7.0
This is what I would like to do:
whenever creating a neuron with a set of parameters defined by the user,
each parameter should be affected by a "gaussian error" with defined
variability.
I tried to use the internal random_normal() function but with the current
version I am getting some issues there. Specifically, whenever trying to
call such function from the "internals", "parameters",
"state" blocks the
model is correctly generated (no errors returned) but exits with en error
whenever trying to "install".
The error is the following
Assertion failed: (tid < static_cast< size_t >( vp_specific_rngs_.size()
)), function get_vp_specific_rng, file
my/path/to/miniforge3/conda-bld/nest-simulator_1707218961774/work/nestkernel/random_manager.h,
line 173.
[1] 32875 abort python test.py
Such problem does not exist for random_normal() called within the update
and equations blocks.
Attached some minimal code to reproduce the error.
Best,
Chiara
19 Mar
19 Mar
10:30 a.m.
Hi Chiara,
Thank you for writing to us.
This error is something that needs to be fixed from our side. I have created an issue for
this: https://github.com/nest/nestml/issues/1016
For now, could I ask you to remove the call to random_normal() from the parameters block
and instead use the PyNEST set() function for the neuron to set the random number from the
simulation script? Please find some examples here:
https://nest-simulator.readthedocs.io/en/stable/nest_behavior/random_number…
I hope this helps!
Best regards,
Pooja
On 18. Mar 2024, at 15:24, chiara de luca
<deluca.1665541(a)studenti.uniroma1.it> wrote:
Dear NESTML community,
I have a problem with random number generator in the new version of nestml. Specifically,
I am using
nest 3.6.0
nestml 7.0
This is what I would like to do:
whenever creating a neuron with a set of parameters defined by the user, each parameter
should be affected by a "gaussian error" with defined variability.
I tried to use the internal random_normal() function but with the current version I am
getting some issues there. Specifically, whenever trying to call such function from the
"internals", "parameters", "state" blocks the model is
correctly generated (no errors returned) but exits with en error whenever trying to
"install".
The error is the following
Assertion failed: (tid < static_cast< size_t >( vp_specific_rngs_.size() )),
function get_vp_specific_rng, file
my/path/to/miniforge3/conda-bld/nest-simulator_1707218961774/work/nestkernel/random_manager.h,
line 173.
[1] 32875 abort python test.py
Such problem does not exist for random_normal() called within the update and equations
blocks.
Attached some minimal code to reproduce the error.
Best,
Chiara
<minimal.zip>_______________________________________________
NEST Users mailing list -- users(a)nest-simulator.org
To unsubscribe send an email to users-leave(a)nest-simulator.org
11 a.m.
Dear Pooja,
thank you very much for your kind response. Yes, I can definitely implement
such feature in alternative ways. Still, I would like to create a neuron
model simulating hardware platform mismatch and would be nice to be able to
initialize each parameter with a defined uncertainty :)
thanks!
Chiara
Il giorno mar 19 mar 2024 alle ore 10:31 Babu, Pooja <p.babu(a)fz-juelich.de>
ha scritto:
Hi Chiara,
Thank you for writing to us.
This error is something that needs to be fixed from our side. I have
created an issue for this: https://github.com/nest/nestml/issues/1016
For now, could I ask you to remove the call to random_normal() from the
parameters block and instead use the PyNEST set() function for the neuron
to set the random number from the simulation script? Please find some
examples here:
https://nest-simulator.readthedocs.io/en/stable/nest_behavior/random_number…
I hope this helps!
Best regards,
Pooja
On 18. Mar 2024, at 15:24, chiara de luca <
deluca.1665541(a)studenti.uniroma1.it> wrote:
Dear NESTML community,
I have a problem with random number generator in the new version of
nestml. Specifically, I am using
nest 3.6.0
nestml 7.0
This is what I would like to do:
whenever creating a neuron with a set of parameters defined by the user,
each parameter should be affected by a "gaussian error" with defined
variability.
I tried to use the internal random_normal() function but with the current
version I am getting some issues there. Specifically, whenever trying to
call such function from the "internals", "parameters",
"state" blocks the
model is correctly generated (no errors returned) but exits with en error
whenever trying to "install".
The error is the following
Assertion failed: (tid < static_cast< size_t >( vp_specific_rngs_.size()
)), function get_vp_specific_rng, file
my/path/to/miniforge3/conda-bld/nest-simulator_1707218961774/work/nestkernel/random_manager.h,
line 173.
[1] 32875 abort python test.py
Such problem does not exist for random_normal() called within the update
and equations blocks.
Attached some minimal code to reproduce the error.
Best,
Chiara
<minimal.zip>_______________________________________________
NEST Users mailing list -- users(a)nest-simulator.org
To unsubscribe send an email to users-leave(a)nest-simulator.org
_______________________________________________
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To unsubscribe send an email to users-leave(a)nest-simulator.org
1:24 p.m.
Hi Chiara,
We concluded that implementing this from NEST would be difficult. We will update the
NESTML documentation to forbid using random number generators in parameters and state
blocks. They can still be used in the update block.
So the way forward would be to initialize your parameters from PyNEST with
nest.random.normal() function. Does this solution work for your case? Is there a specific
case where you would want the generators in the neuron model?
Thanks,
Pooja
On 19. Mar 2024, at 11:00, chiara de luca
<deluca.1665541(a)studenti.uniroma1.it> wrote:
Dear Pooja,
thank you very much for your kind response. Yes, I can definitely implement such feature
in alternative ways. Still, I would like to create a neuron model simulating hardware
platform mismatch and would be nice to be able to initialize each parameter with a defined
uncertainty :)
thanks!
Chiara
Il giorno mar 19 mar 2024 alle ore 10:31 Babu, Pooja <p.babu(a)fz-juelich.de
<mailto:p.babu@fz-juelich.de>> ha scritto:
Hi Chiara,
Thank you for writing to us.
This error is something that needs to be fixed from our side. I have created an issue for
this: https://github.com/nest/nestml/issues/1016
For now, could I ask you to remove the call to random_normal() from the parameters block
and instead use the PyNEST set() function for the neuron to set the random number from the
simulation script? Please find some examples here:
https://nest-simulator.readthedocs.io/en/stable/nest_behavior/random_number…
I hope this helps!
Best regards,
Pooja
_______________________________________________
NEST Users mailing list -- users(a)nest-simulator.org
To unsubscribe send an email to users-leave(a)nest-simulator.org On 18. Mar 2024, at 15:24, chiara de luca
<deluca.1665541(a)studenti.uniroma1.it
<mailto:deluca.1665541@studenti.uniroma1.it>> wrote:
Dear NESTML community,
I have a problem with random number generator in the new version of nestml. Specifically,
I am using
nest 3.6.0
nestml 7.0
This is what I would like to do:
whenever creating a neuron with a set of parameters defined by the user, each parameter
should be affected by a "gaussian error" with defined variability.
I tried to use the internal random_normal() function but with the current version I am
getting some issues there. Specifically, whenever trying to call such function from the
"internals", "parameters", "state" blocks the model is
correctly generated (no errors returned) but exits with en error whenever trying to
"install".
The error is the following
Assertion failed: (tid < static_cast< size_t >( vp_specific_rngs_.size() )),
function get_vp_specific_rng, file
my/path/to/miniforge3/conda-bld/nest-simulator_1707218961774/work/nestkernel/random_manager.h,
line 173.
[1] 32875 abort python test.py
Such problem does not exist for random_normal() called within the update and equations
blocks.
Attached some minimal code to reproduce the error.
Best,
Chiara
<minimal.zip>_______________________________________________
NEST Users mailing list -- users(a)nest-simulator.org
<mailto:users@nest-simulator.org>
To unsubscribe send an email to users-leave(a)nest-simulator.org
<mailto:users-leave@nest-simulator.org>
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<mailto:users@nest-simulator.org>
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42
days inactive
43
days old
3 comments
2 participants
participants (2)
-
Babu, Pooja -
chiara de luca