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Commit 37876e94 authored by SOLER Fiona's avatar SOLER Fiona
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micromamba

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Install the micromamba
~~~
curl -L https://micromamba.snakepit.net/api/micromamba/linux-64/latest | tar -xvj bin/micromamba
mkdir -p $HOME/.local/bin
mv bin/micromamba $HOME/.local/bin/
mkdir -p $HOME/micromamba
~~~
Add these lines to ~/.bashrc
~~~
export PATH=$HOME/.local/bin:$PATH
export MAMBA_ROOT_PREFIX=$HOME/micromamba
eval "$(micromamba shell hook -s posix)"
~~~
Create a m2bsgreprod micromamba environment and install apptainer 1.3.2
~~~
micromamba create --name m2bsgreprod python=3.12 -c conda-forge
micromamba activate m2bsgreprod
micromamba install conda-forge::apptainer=1.3.2
~~~
Build the apptainer image
~~~
mkdir -p results/containers
sudo /home/gonzalez/Software/micromamba/envs/m2bsgreprod/bin/apptainer build results/containers/m2bsgreprod.sif containers/m2bsgreprod.def
~~~
Execute the Rscripts
~~~
micromamba activate m2bsgreprod
apptainer exec results/containers/m2bsgreprod3.sif make -f workflows/makefile
~~~
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