Thank you Hans,

I'd like to share the nest code I've created with teammates, and run the code within our Google Colab code base.  So, I've gotten nest and nestml to import, but run an error whenever I try to call a submodule:

NEST:

#Instructions from:
##https://nest-simulator.readthedocs.io/en/stable/installation/developer.html
!git clone https://github.com/nest/nest-simulator
import nest
import matplotlib.pyplot as plt
neuron = nest.Create("iaf_psc_alpha")

---------------------------------------------------------------------------

AttributeError                            Traceback (most recent call last)

<ipython-input-13-525a46cfa676> in <cell line: 6>()
      4 import nest
      5 import matplotlib.pyplot as plt
----> 6 neuron = nest.Create("iaf_psc_alpha")


AttributeError: module 'nest' has no attribute 'Create'



NESTML:

#Instructions from:
##https://nestml.readthedocs.io/en/latest/installation.html#installing-the-latest-development-version-from-github

!git clone https://github.com/nest/nestml
%cd nestml
!pwd
!python setup.py install
!pip install git+https://github.com/nest/ode-toolbox
!python setup.py test
!pip install -Uqq pysilsub
!pip install -Uqq nest
import sklearn
import scipy
import nest
import pynestml as nestml
import numpy as np
import matplotlib.pyplot as plt
from pysilsub import observers
nestml.help('Create')

---------------------------------------------------------------------------

AttributeError                            Traceback (most recent call last)

<ipython-input-14-9be5eaa06f5d> in <cell line: 19>()
     17 import matplotlib.pyplot as plt
     18 from pysilsub import observers
---> 19 nestml.help('Create')
     20 


AttributeError: module 'pynestml' has no attribute 'help'


I appreciate any help to install and use the software,


On Thu, Jan 4, 2024 at 2:39 AM Hans Ekkehard Plesser <hans.ekkehard.plesser@nmbu.no> wrote:

 

As an alternative, the EBRAINS research infrastructure offers collaboratories with NEST and many other neuroscience tools pre-installed, see

 

https://www.ebrains.eu/data/collaboratory

https://www.ebrains.eu/tools/nest

 

Best,

Hans Ekkehard

 

-- 

 

Prof. Dr. Hans Ekkehard Plesser

 

Department of Data Science

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

 

 

 

From: Robin Gilbert De Schepper <robingilbert.deschepper@unipv.it>
Date: Thursday, 4 January 2024 at 10:44
To: NEST User Mailing List <users@nest-simulator.org>
Subject: [NEST Users] Re: NEST on Google Colab?

NEST is not pip installable, using !pip install -Uqq nest will install a "network stack tester" https://pypi.org/project/nest/

 

You will have to follow another installation route. I'm not sure which one is recommended for Google Collab. Perhaps the conda or CMake installation?

 

On Sat, 23 Dec 2023 at 00:58, Anthony Lee <anthonyylee@colorado.edu> wrote:

Hey Alvin,

 

You may have to restart the kernel because the installation was installed via a child shell process and have yet to be loaded into the current process that the kernel is running on. 

 

IIRC, it is called “Restart runtime” in Google Colab. 

 

Anthony



On Dec 22, 2023, at 12:46, Alvin Spivey <alvin.spivey@gmail.com> wrote:



I'm trying to install and use NEST on google Colab, but it's not importing:

 

!pip install -Uqq nest

!pip install -Uqq nestml

!pip install -Uqq pysilsub

import nest

import nestml

import numpy as np

import matplotlib.pyplot as plt

from pysilsub import observers

from nestml.network import Network

from nestml.models import ConeNakaRushton

 

Am I able to use NEST on Google Colab?

--

Alvin J. Spivey, Ph.D.

(c) 843.267.8055 

_______________________________________________
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To unsubscribe send an email to users-leave@nest-simulator.org

_______________________________________________
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To unsubscribe send an email to users-leave@nest-simulator.org


 

--

Robin De Schepper, PhD (they/them)

Department of Brain and Behavioral Sciences

Unit of Neurophysiology

University of Pavia, Italy

Via Forlanini 6, 27100 Pavia - Italy

Tel: (+39) 038298-7607

_______________________________________________
NEST Users mailing list -- users@nest-simulator.org
To unsubscribe send an email to users-leave@nest-simulator.org


--
Alvin J. Spivey, Ph.D.
(c) 843.267.8055