SOFT : snakePipes ------ Site du soft: https://github.com/maxplanck-ie/snakepipes ------------- LICENSE: -------- MIT See software documentation for more informations. Location: /usr/local/bioinfo/src/snakePipes --------- Load binaries and environment: ------------------------------ -> Version v2.5.1 #Need Miniconda3-4.7.10 module load system/Miniconda3-4.7.10 module load bioinfo/snakePipes-2.5.1 Be careful, to unload, not use module purge but in order: module unload bioinfo/snakePipes-2.5.1 module unload system/Miniconda3-4.7.10 organismsDir: /usr/local/bioinfo/src/snakePipes/snakePipes-2.5.1/organisms !!! Be careful: organismsDir are writable for all (for yaml file and index files required by various tools within snakePipes. You can choose other directory with --userYAML and -o option of createIndices command) The necessary CONDA environment are re-created each time a pipeline is launched. Don't forget to use --snakemakeOptions= --use-conda --conda-prefix to create it. Example directory for use on cluster: ------------------------------------- /usr/local/bioinfo/src/snakePipes/example_on_cluster To submit: sbatch test_snakePipes-2.5.1.sh See software documentation and our FAQ (http://bioinfo.genotoul.fr/index.php/faq/) for more informations.