17 Oct
2019
17 Oct
'19
12:19 p.m.
Hi Benjamin,
Thank you for your feedback.
Your question 2):
Use 'nest.ll_api.sli_run' and 'nest.ll_api.spp' instead of
'nest.sli_run' and 'nest.spp'.
Best
Steffen
Am 17.10.19 um 12:15 schrieb Benjamin Staude:
Hi Stefan,
That worked perfectly, thanks a lot!
Two small comments concerning the documentation:
1) The python example misses the crucial `#!/usr/bin/python` in the first lines of
minimalmusicsetup_sendnest.py and minimalmusicsetup_receivenest.py
2) nest 2.18.0 seem not to support `nest.sli_run` anymore, so I had to remove the checks
in both files. Is there a new implementation of that functionality?
Best,
Benjamin
--
Steffen Graber
SimLab Neuroscience
Division HPC in Neuroscience
Jülich Supercomputing Centre
Institute for Advanced Simulation
Forschungszentrum Jülich GmbH
E-mail: s.graber(a)fz-juelich.de <mailto:s.graber@fz-juelich.de>
Phone: +49 2461 61 85457
http://www.fz-juelich.de/ias/jsc
Institute of Neuroscience and Medicine (INM-6)
Computational and Systems Neuroscience &
Institute for Advanced Simulation (IAS-6)
Theoretical Neuroscience &
JARA Institute Brain Structure-Function Relationships (INM-10)
Forschungszentrum Jülich GmbH
http://www.csn.fz-juelich.de
On 15. Oct 2019, at 14:09, Steffen Graber
<s.graber(a)fz-juelich.de> wrote:
Hi Benjamin
I have updated the docker image with NEST 2.18.0 ( the 'latest' image will follow
in the next days).
Please download/update with:
docker pull nestsim/nest:2.18.0
Go to the folder with your MUSIC scripts and start the container:
docker run -it --rm -e LOCAL_USER_ID=`id -u $USER` -v $(pwd):/opt/data
nestsim/nest:2.18.0 /bin/bash
You are now in the shell of the container. Here you can execute the example program
mpirun -np 2 music /opt/data/minimalmusicsetup.music
So far I have only tested this simple example (minimalmusicsetup.music) on a Mac. It
would be nice to know if this is a usable workflow for you and and if other, more
realistic applications are possible.
In order to achieve the greatest flexibility in dealing with NEST and MUSIC, a standard
installation from source code is recommended.
A small note:
The example in the documentation is not up to date. Please use
'nest.ll_api.sli_run' and 'nest.ll_api.spp' instead of
'nest.sli_run' and 'nest.spp'.
I will adjust this soon in the docs.
Best
Steffen
Am 08.10.19 um 09:56 schrieb Benjamin Staude:
-- -- --
Dr. Benjamin Staude | Paul-Lincke-Ufer 7 | 10999 Berlin |
benjamin.staude(a)gmail.com
Hi there,
I tried to run the basic example from
https://nest-simulator.readthedocs.io/en/latest/guides/using_nest_with_musi… in the
docker environment of NEST (https://github.com/nest/nest-docker) on my OSX host.
To be precise, I create the files minimalmusicsetup.music, minimalmusicsetup_sendnest.py
and minimalmusicsetup_receivenest.py in the root directory (~/nest-docker) of the host
system, and then called mpirun -np 2 music minimalmusicsetup.music from within docker.
The output was:
MUSIC: Unable to determine process rank.
MUSIC: Did you launch music using mpirun?
MUSIC: If so, check the comments about porting in README.
-------------------------------------------------------
Primary job terminated normally, but 1 process returned
a non-zero exit code.. Per user-direction, the job has been aborted.
-------------------------------------------------------
MUSIC: Unable to determine process rank.
MUSIC: Did you launch music using mpirun?
MUSIC: If so, check the comments about porting in README.
--------------------------------------------------------------------------
mpirun detected that one or more processes exited with non-zero status, thus causing
the job to be terminated. The first process to do so was:
Process name: [[46746,1],0]
Exit code: 1
Can anyone help?
Thanks in advance,
Benjamin
-- -- --
Dr. Benjamin Staude | Paul-Lincke-Ufer 7 | 10999 Berlin |
benjamin.staude(a)gmail.com
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--
Steffen Graber
SimLab Neuroscience
Division HPC in Neuroscience
Jülich Supercomputing Centre
Institute for Advanced Simulation
Forschungszentrum Jülich GmbH
E-mail:
s.graber(a)fz-juelich.de <mailto:s.graber@fz-juelich.de>
Phone: +49 2461 61 85457
http://www.fz-juelich.de/ias/jsc
Institute of Neuroscience and Medicine (INM-6)
Computational and Systems Neuroscience &
Institute for Advanced Simulation (IAS-6)
Theoretical Neuroscience &
JARA Institute Brain Structure-Function Relationships (INM-10)
Forschungszentrum Jülich GmbH
http://www.csn.fz-juelich.de