Installation instructions for Linux

Requirements

Conda is a package management system and environment management system.

The easiest and fastest way to get the package up and running is to install miniconda and to use mamba, which is much faster than conda.

Type the following two lines to install conda from miniconda

wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh

bash Miniconda3-latest-Linux-x86_64.sh

then 'Enter'

space (several times),

'yes'

'ENTER' (default)

Answer 'yes' to (conda init)

Close and reopen your terminal.

To install mamba, run what follows

conda install -c conda-forge mamba

We recommend installing nm-bridge into a separate environment called neuromod, see conda's documentation for more details. To do so, use:

conda  create -n  neuromod

You can choose another name than neuromod.

In the neuromod environment, we will need several dependencies, used in the demo script, which we install as follows

mamba install -c conda-forge r-igraph jupyter

(answer 'yes')

We install nm-bridge in the neuromod environment as follows:

mamba install -c neuromod -c conda-forge nm-bridge python=3.10

(answer 'yes')

To test it, run the two following commands in the terminal

python -c 'import nmbridge'

R -e 'library(nmbridge)'

In case of update of nm-bridge, run inside the neuromod environment

mamba update -c neuromod -c conda-forge nm-bridge