micromamba

doc/01install.md

+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
+~~~
+
+
+
+

doc/02run.md

+Execute the Rscripts
+
+~~~
+micromamba activate m2bsgreprod
+
+apptainer exec results/containers/m2bsgreprod3.sif make -f workflows/makefile
+~~~
+