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Commit aec86047 authored by Rachel  LEGENDRE's avatar Rachel LEGENDRE
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add virtualenv

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#install conda via miniconda : #install conda via miniconda :
follow this tuto : https://docs.conda.io/en/latest/miniconda.html#linux-installers
#create your conda env follow this tuto : https://docs.conda.io/en/latest/miniconda.html#linux-installers
##create your conda env
conda create -n snakemake conda create -n snakemake
conda activate snakemake conda activate snakemake
conda config --add channels defaults conda config --add channels defaults
...@@ -12,6 +12,19 @@ conda install -c bioconda snakemake ...@@ -12,6 +12,19 @@ conda install -c bioconda snakemake
conda install -c anaconda pandas conda install -c anaconda pandas
conda install -c bioconda pysam conda install -c bioconda pysam
conda install -c conda-forge singularity conda install -c conda-forge singularity
#mandatory for snakemake 8 only ##mandatory for snakemake 8 only
pip install snakemake-executor-plugin-slurm pip install snakemake-executor-plugin-slurm
pip install snakemake-executor-plugin-cluster-generic pip install snakemake-executor-plugin-cluster-generic
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#install conda via virtulenv :
module load Python/3.11.5 graalvm/
virtualenv ~/snakemake
source ~/snakemake/bin/activate
pip install snakemake
pip install pandas
pip install pysam
pip install snakemake-executor-plugin-slurm
pip install snakemake-executor-plugin-cluster-generic
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