Commit e085f3dc authored by Damien VINTACHE's avatar Damien VINTACHE
Browse files

specification des channels dans la creation des environnements conda

parent 51c07695
#!/bin/bash
# creation de l'environnement conda
# creation d'environnements conda specifiques au pipeline
echo $PATH
conda create -yq -n deseq2 bioconductor-deseq2 bioconductor-biomart xorg-libxrender xorg-libxext xorg-libsm -c conda-forge -c bioconda
echo "=== create conda environments ==="
echo "=== deseq2 ==="
conda create -yq -n deseq2 bioconductor-deseq2 bioconductor-biomart xorg-libxrender xorg-libxext xorg-libsm --override-channels -c conda-forge -c bioconda
conda create -yq -n rnaSeqQuantif snakemake perl openjdk fastqc multiqc cutadapt prinseq star htseq gzip ncurses -c bioconda -c conda-forge -c ostrokach
echo "=== rnaSeqQuantif ==="
conda create -yq -n rnaSeqQuantif snakemake perl openjdk fastqc multiqc cutadapt prinseq star htseq gzip ncurses --override-channels -c bioconda -c conda-forge -c ostrokach
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