Hi Nina, On windows I successfully tried the following (a longer time ago): docker run -it --rm -v %cd%:/opt/data -p 8080:8080 nestsim/nest:<version> <args> or for the newest version with jupyter notebook: docker run -it --rm -v %cd%:/opt/data -p 8080:8080 nestsim/nest:3.1 notebook In Powershell, '%cd%' might not work for the current directory. Then you should explicitly specify a folder with existing write permissions. As Dennis said, feedback on this would be very helpful for us. Best Steffen Am 25.10.21 um 10:06 schrieb Dennis Terhorst: Dear Nina, did you try the NEST docker containers available on DockerHub? There you would have NEST and a couple of other useful tools installed already. docker run --rm -e LOCAL_USER_ID=`id -u $USER` -v $(pwd):/opt/data -p 8080:8080 nestsim/nest:<version> notebook Check the "Docker" section in the docs [1] details. – I'm not sure how vscode expects it's entrypoint, the 'notebook' at the end of the command is obviously for Jupyter. Other things should however work, same as any other Docker container. You can see how these ones are constructed under 'src/<version>' here [2]. Let us know how it turns out! I think this is interesting for many people either way: for others how to do it (and for developers to document it), or we know what or where to improve. Best, Dennis [1]: https://nest-simulator.readthedocs.io/en/v3.1/installation/index.html [2]: https://github.com/nest/nest-docker On 15.10.21 12:25, Nina Doorn wrote: Dear experts, I have a question about using nest on docker/vscode on my windows PC. I hope this is the right place to ask since I couldn't answer my question using the troubleshooting session. I am using docker to use pyNEST on my windows computer. I have successfully installed NEST using the instructions mentioned here for installing on docker:https://nest-simulator.readthedocs.io/en/v2.20.1/installation/index.html. If I am in the container, I have python version 3.8.10. If I run python and then try to "import nest" it says there is no module named nest. Importing other python packages works perfectly in this way. But indeed, when I look at all the installed packages using pip list, there is no package called "nest". There is, however "nest-desktop 3.0.3" there. So I guess nest is not installed. However, I also don't know how to install it. If I use pip install nest, another package called nest is installed that is not the nest simulator (according to: #754<https://github.com/nest/nest-simulator/issues/754> <https://github.com/nest/nest-simulator/issues/754>). Also, I don't know whether this problem is related or totally unrelated but it might give some insight: when I am in VScode in the nestsim/nest container and I click on python: select interpreter, nothing happens, I cannot select a python interpreter/no window opens. So maybe there is something wrong with the python installations or the used path? I hope the problem is clear. I've been trying different things for days so I would greatly appreciate any help you can offer me! Thanks in advance and have a nice day! Kind regards, Nina Doorn _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org -- Dipl.-Phys. Dennis Terhorst Coordinator Software Development Institute of Neuroscience and Medicine (INM-6) Computational and Systems Neuroscience & Theoretical Neuroscience, Institute for Advanced Simulation (IAS-6) Jülich Research Centre, Member of the Helmholz Association and JARA 52425 Jülich, Germany Building 15.22 Room 4004 Phone +49 2461 61-85062 Fax +49 2461 61- 9460d.terhorst(a)fz-juelich.de ---------------------------------------------------------------------- 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, Prof. Dr. Frauke Melchior ---------------------------------------------------------------------- _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org -- ------------------------------------------------------------------------------------- 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 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 GmbHhttp://www.csn.fz-juelich.de ------------------------------------------------------------------------------------- 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), Dr. Astrid Lambrecht, Prof. Dr. Frauke Melchior ------------------------------------------------------------------------------------- _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org

Dear Nina, which entrypoint do you use for the container? Did you specify "python3", or just "python"? I think this might be just a tiny detail in the container startup settings of vscode, since NEST *is* installed in the container. Can you import nest in the notebook, as given in the docs? Best, Dennis On 25.10.21 10:51, Nina Doorn wrote: Hi Steffen, Thank you as well for the help. I've tried what you mentioned. And for my colleague, that works perfectly well. But somehow I have the problem I mentioned. So it might just be a personal problem. Kind regards, Nina On Mon, Oct 25, 2021 at 10:43 AM Steffen Graber &lt;s.graber(a)fz-juelich.de&gt; &lt;s.graber(a)fz-juelich.de&gt; wrote: Hi Nina, On windows I successfully tried the following (a longer time ago): docker run -it --rm -v %cd%:/opt/data -p 8080:8080 nestsim/nest:<version> <args> or for the newest version with jupyter notebook: docker run -it --rm -v %cd%:/opt/data -p 8080:8080 nestsim/nest:3.1 notebook In Powershell, '%cd%' might not work for the current directory. Then you should explicitly specify a folder with existing write permissions. As Dennis said, feedback on this would be very helpful for us. Best Steffen Am 25.10.21 um 10:06 schrieb Dennis Terhorst: Dear Nina, did you try the NEST docker containers available on DockerHub? There you would have NEST and a couple of other useful tools installed already. docker run --rm -e LOCAL_USER_ID=`id -u $USER` -v $(pwd):/opt/data -p 8080:8080 nestsim/nest:<version> notebook Check the "Docker" section in the docs [1] details. – I'm not sure how vscode expects it's entrypoint, the 'notebook' at the end of the command is obviously for Jupyter. Other things should however work, same as any other Docker container. You can see how these ones are constructed under 'src/<version>' here [2]. Let us know how it turns out! I think this is interesting for many people either way: for others how to do it (and for developers to document it), or we know what or where to improve. Best, Dennis [1]: https://nest-simulator.readthedocs.io/en/v3.1/installation/index.html [2]: https://github.com/nest/nest-docker On 15.10.21 12:25, Nina Doorn wrote: Dear experts, I have a question about using nest on docker/vscode on my windows PC. I hope this is the right place to ask since I couldn't answer my question using the troubleshooting session. I am using docker to use pyNEST on my windows computer. I have successfully installed NEST using the instructions mentioned here for installing on docker:https://nest-simulator.readthedocs.io/en/v2.20.1/installation/index.html. If I am in the container, I have python version 3.8.10. If I run python and then try to "import nest" it says there is no module named nest. Importing other python packages works perfectly in this way. But indeed, when I look at all the installed packages using pip list, there is no package called "nest". There is, however "nest-desktop 3.0.3" there. So I guess nest is not installed. However, I also don't know how to install it. If I use pip install nest, another package called nest is installed that is not the nest simulator (according to: #754<https://github.com/nest/nest-simulator/issues/754> <https://github.com/nest/nest-simulator/issues/754> <https://github.com/nest/nest-simulator/issues/754> <https://github.com/nest/nest-simulator/issues/754>). Also, I don't know whether this problem is related or totally unrelated but it might give some insight: when I am in VScode in the nestsim/nest container and I click on python: select interpreter, nothing happens, I cannot select a python interpreter/no window opens. So maybe there is something wrong with the python installations or the used path? I hope the problem is clear. I've been trying different things for days so I would greatly appreciate any help you can offer me! Thanks in advance and have a nice day! Kind regards, Nina Doorn _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org -- Dipl.-Phys. Dennis Terhorst Coordinator Software Development Institute of Neuroscience and Medicine (INM-6) Computational and Systems Neuroscience & Theoretical Neuroscience, Institute for Advanced Simulation (IAS-6) Jülich Research Centre, Member of the Helmholz Association and JARA 52425 Jülich, Germany Building 15.22 Room 4004 Phone +49 2461 61-85062 Fax +49 2461 61- 9460d.terhorst(a)fz-juelich.de ---------------------------------------------------------------------- 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, Prof. Dr. Frauke Melchior ---------------------------------------------------------------------- _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org -- ------------------------------------------------------------------------------------- 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 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 GmbHhttp://www.csn.fz-juelich.de ------------------------------------------------------------------------------------- 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), Dr. Astrid Lambrecht, Prof. Dr. Frauke Melchior ------------------------------------------------------------------------------------- _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org -- Dipl.-Phys. Dennis Terhorst Coordinator Software Development Institute of Neuroscience and Medicine (INM-6) Computational and Systems Neuroscience & Theoretical Neuroscience, Institute for Advanced Simulation (IAS-6) Jülich Research Centre, Member of the Helmholz Association and JARA 52425 Jülich, Germany Building 15.22 Room 4004 Phone +49 2461 61-85062 Fax +49 2461 61- 9460d.terhorst(a)fz-juelich.de ---------------------------------------------------------------------- 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, Prof. Dr. Frauke Melchior ---------------------------------------------------------------------- _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org

Dear Nina, did you try the NEST docker containers available on DockerHub? There you would have NEST and a couple of other useful tools installed already. docker run --rm -e LOCAL_USER_ID=`id -u $USER` -v $(pwd):/opt/data -p 8080:8080 nestsim/nest:<version> notebook Check the "Docker" section in the docs [1] details. – I'm not sure how vscode expects it's entrypoint, the 'notebook' at the end of the command is obviously for Jupyter. Other things should however work, same as any other Docker container. You can see how these ones are constructed under 'src/<version>' here [2]. Let us know how it turns out! I think this is interesting for many people either way: for others how to do it (and for developers to document it), or we know what or where to improve. Best, Dennis [1]: https://nest-simulator.readthedocs.io/en/v3.1/installation/index.html [2]: https://github.com/nest/nest-docker On 15.10.21 12:25, Nina Doorn wrote: Dear experts, I have a question about using nest on docker/vscode on my windows PC. I hope this is the right place to ask since I couldn't answer my question using the troubleshooting session. I am using docker to use pyNEST on my windows computer. I have successfully installed NEST using the instructions mentioned here for installing on docker:https://nest-simulator.readthedocs.io/en/v2.20.1/installation/index.html. If I am in the container, I have python version 3.8.10. If I run python and then try to "import nest" it says there is no module named nest. Importing other python packages works perfectly in this way. But indeed, when I look at all the installed packages using pip list, there is no package called "nest". There is, however "nest-desktop 3.0.3" there. So I guess nest is not installed. However, I also don't know how to install it. If I use pip install nest, another package called nest is installed that is not the nest simulator (according to: #754<https://github.com/nest/nest-simulator/issues/754> <https://github.com/nest/nest-simulator/issues/754>). Also, I don't know whether this problem is related or totally unrelated but it might give some insight: when I am in VScode in the nestsim/nest container and I click on python: select interpreter, nothing happens, I cannot select a python interpreter/no window opens. So maybe there is something wrong with the python installations or the used path? I hope the problem is clear. I've been trying different things for days so I would greatly appreciate any help you can offer me! Thanks in advance and have a nice day! Kind regards, Nina Doorn _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org -- Dipl.-Phys. Dennis Terhorst Coordinator Software Development Institute of Neuroscience and Medicine (INM-6) Computational and Systems Neuroscience & Theoretical Neuroscience, Institute for Advanced Simulation (IAS-6) Jülich Research Centre, Member of the Helmholz Association and JARA 52425 Jülich, Germany Building 15.22 Room 4004 Phone +49 2461 61-85062 Fax +49 2461 61- 9460d.terhorst(a)fz-juelich.de ---------------------------------------------------------------------- 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, Prof. Dr. Frauke Melchior ---------------------------------------------------------------------- _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org