BioSimulators-pyNeuroML is available as four command-line programs and four command-line programs encapsulated into four Docker images.
Second, install the following additional programs to use NetPyNe and NEURON:
All of the above
NEURON_HOME to the parent directory of the
nrniv executable, up to but not including
NEURON_HOME=$(which nrniv | rev | cut -d '/' -f 3- | rev)).
Third, run the following command to install BioSimulators-pyNeuroML:
pip install biosimulators-pyneuroml
brian2 option to install support for Brian 2.
pip install biosimulators-pyneuroml[brian2]
netpyne option to install support for NetPyNe.
pip install biosimulators-pyneuroml[netpyne]
neuron option to install support for NEURON.
pip install biosimulators-pyneuroml[neuron]
Docker images with command-line entrypoints¶
After installing Docker, run the following commands to install the Docker images for jNeuroML/pyNeuroML, NetPyNe, and NEURON:
docker pull ghcr.io/biosimulators/brian2 docker pull ghcr.io/biosimulators/netpyne docker pull ghcr.io/biosimulators/neuron docker pull ghcr.io/biosimulators/pyneuroml