12 Apr
2023
12 Apr
'23
10:25 p.m.
Dear all,
While I try to solve my doubts on the other thread, I decided to try nestml on my own.
For this, I installed docker and did:
wget
https://raw.githubusercontent.com/steffengraber/nest-docker/master/docker-c…
and then:
docker-compose up nest-jupyterlab
as explained here:
https://nest-simulator.readthedocs.io/en/latest/installation/docker.html#do…
Then, I created a silly Python file that simply does:
import matplotlib.pyplot as plt
import nest
import numpy as np
import os
from pynestml.frontend.pynestml_frontend import generate_nest_target
NEST_SIMULATOR_INSTALL_LOCATION = nest.ll_api.sli_func("statusdict/prefix ::")
generate_nest_target(input_path="izhikevich.nestml",
target_path="/tmp/nestml-component",
logging_level="ERROR",
codegen_opts={"nest_path":
NEST_SIMULATOR_INSTALL_LOCATION})
where izhikevich.nestml is nothing else than a brute-force copy and paste of
https://github.com/nest/nestml/blob/master/models/neurons/izhikevich.nestml
It should be trivial, but then I get:
-- N E S T --
Copyright (C) 2004 The NEST Initiative
Version: 3.4
Built: Mar 31 2023 12:33:35
This program is provided AS IS and comes with
NO WARRANTY. See the file LICENSE for details.
Problems or suggestions?
Visit https://www.nest-simulator.org
Type 'nest.help()' to find out more about NEST.
WARNING:root:PyGSL is not available. The stiffness test will be skipped.
WARNING:root:Error when importing: No module named 'pygsl'
line 44:4 extraneous input 'equations' expecting {NEWLINE, 'end',
'inline', 'recordable', NAME}
line 48:4 extraneous input 'parameters' expecting {NEWLINE, 'end',
'inline', 'recordable', 'kernel', NAME}
line 59:4 missing 'end' at 'input'
line 63:4 extraneous input 'output' expecting {NEWLINE, 'end', NAME}
line 77:24 mismatched input '<EOF>' expecting {'end',
'elif', 'else'}
[6,GLOBAL, ERROR]: Error occurred during parsing: abort
Traceback (most recent call last):
File "/opt/data/Izhikevich.py", line 10, in <module>
generate_nest_target(input_path="izhikevich.nestml",
File
"/usr/local/lib/python3.10/dist-packages/pynestml/frontend/pynestml_frontend.py",
line 229, in generate_nest_target
generate_target(input_path, target_platform="NEST", target_path=target_path,
logging_level=logging_level,
File
"/usr/local/lib/python3.10/dist-packages/pynestml/frontend/pynestml_frontend.py",
line 199, in generate_target
raise Exception("Error(s) occurred while processing the model")
Exception: Error(s) occurred while processing the model
which I do not understand. The syntaxis of nestml seems clear, no "end",
right? Then, what am I doing wrong?
Thanks!
gus.-
PS: I still have my doubts, as explained in the other thread, but I thought this is a
different issue... sorry if I did wrong!!!