SOFT : Biopieces ------ Site du soft: https://github.com/maasha/biopieces ------------- LICENSE: -------- GPL-v2 See software documentation for more informations. Location: /usr/local/bioinfo/src/Biopieces --------- Load binaries and environment: ------------------------------ -> Version 8752df5 #Need perl,ruby,pyhton module load system/ruby-2.5.0 system/Python-2.7.2 #If needed Blast,Muscle,MUMmer,BLAT,Vmatch,Bowtie,Bwa, Uclust(Usearch7), Velvet, idba,ray,scan_for_matche, Prodigal,HMMER... module load bioinfo/blast-2.2.26 bioinfo/muscle3.8.31 bioinfo/mummer-4.0.0beta2 bioinfo/blatSuite.36 bioinfo/vmatch-2.3.0 bioinfo/bowtie2-2.3.5.1 bioinfo/bwa-0.7.17 bioinfo/usearch7.0.1090 bioinfo/velvet_1.2.10 bioinfo/idba-1.1.3 bioinfo/scan_for_matches bioinfo/Prodigal-2.6.3 bioinfo/hmmer-3.2.1 #If needed Ray #Need MPI module load compiler/gcc-4.8.5 mpi/openmpi-2.1.2 module load bioinfo/Ray-2.3.1 #Load Biopieces module load bioinfo/biopieces-8752df5 #Configuring your environment export BP_DATA="$PWD/BP_DATA" # Contains genomic data etc. export BP_TMP="$PWD/tmp" # Required temporary directory. export BP_LOG="$PWD/BP_LOG" # Required log directory. mkdir $BP_DATA $BP_TMP $BP_LOG Example directory for use on cluster: ------------------------------------- /usr/local/bioinfo/src/Biopieces/example_on_cluster To submit: sbatch test_biopieces-8752df5.sh See software documentation and our FAQ (http://bioinfo.genotoul.fr/index.php/faq/) for more informations.