BWA 0.7.15 ¶

Table of contents

BWA 0.7.15

Basic information ¶

Installation date: 27/02/2017
URL: http://bio-bwa.sourceforge.net/
Apolo version: Apolo II
License: GPL

Dependencies ¶

Intel Parallel Studio XE Cluster Edition 2017 Update 1

Installation ¶

After solving the previously mentioned dependencies, you can proceed with the installation of BWA.

Download the latest version of the software (Source code - bz2) (https://sourceforge.net/projects/bio-bwa/files/):

cd /home/$USER/apps/bwa/src
wget https://downloads.sourceforge.net/project/bio-bwa/bwa-0.7.15.tar.bz2?r=https%3A%2F%2Fsourceforge.net%2Fprojects%2Fbio-bwa%2Ffiles%2F&ts=1488235843&use_mirror=ufpr
tar xf bwa-0.7.15.tar.bz2

Compilation (Makefile), do the following steps:

cd bwa-0.7.15
module load intel/2017_update-1
emacs Makefile
...
CC=                     icc
...
make 2>&1 | tee bwa-make.log

After compiling BWA, we continue with the following steps:

sudo mkdir -p /share/apps/bwa/0.7.15/intel/2017_update-1/bin
sudo cp bwa /share/apps/bwa/0.7.15/intel/2017_update-1/bin

Module ¶

#%Module1.0#####################################################################
##
## module bwa/0.7.15_intel-2017_update-1
##
## /share/apps/modules/bwa/0.7.15_intel-2017_update-1     Written by Mateo Gomez-Zuluaga
##

proc ModulesHelp { } {
    puts stderr "\tbwa/0.7.15_intel-2017_update-1 - sets the Environment for Bwa in \
    \n\tthe share directory /share/apps/bwa/0.7.15/intel/2017_update-1\n"
}

module-whatis "\n\n\tSets the environment for using Bwa 0.7.15 \
               \n\tbuilded with Intel Parallel Studio XE 2017\n"

# for Tcl script use only
set       topdir     /share/apps/bwa/0.7.15/intel/2017_update-1
set       version    0.7.15
set       sys        x86_64-redhat-linux

module load intel/2017_update-1

prepend-path PATH    $topdir/bin

Usage mode ¶

Load the necessary environment through the module:

module load bwa/0.7.15_intel-2017_update-1

TO-DO

References ¶

Makefile (inside bz2)

Author ¶

Mateo Gómez Zuluaga