SolexaQA++

http://solexaqa.sourceforge.net

Automatic Build

Inside ${HOME}/bioit/apps/SolexaQA++/SPEC there is a script called build. This just requires the version number and will download, compile, install and create the modulefile for you. Execute it as follows:

${HOME}/bioit/apps/SolexaQA++/SPEC/build 3.1.7.3

When that completes check that the new version is available using:

module avail SolexaQA++

If that shows as being there you can test it works with:

module load SolexaQA++/3.1.7.3
which SolexaQA++
SolexaQA++ --version

If all is good, you can move to the RPM building step.

Manual Build

Download the src.zip file into /opt/bioit/bowtie/src and unzip it.

cd into the unzipped directory and then into Linux_x64 and type the following to move the prebuilt binary into position and correct the ownerships:

mkdir /opt/bioit/SolexaQA++/3.1.7.3/
mv Linux_x64/SolexaQA++ /opt/bioit/SolexaQA++/3.1.7.3/
cd /opt/bioit/SolexaQA++/3.1.7.3/
chmod 755 SolexaQA++

Module setup

Add a module file in /opt/bioit/modulefiles/SolexaQA++/ for this version by copying previous ones and modifying the paths.

#%Module 1.0
#
#  SolexaQA++ module for use with 'environment-modules' package:
#
prepend-path  PATH         /opt/bioit/SolexaQA++/3.1.7.3

RPM

There’s a SPEC file for this package in ${HOME}/bioit/apps/SolexaQA++/SPEC so modify that with the new version details. Once changed, build it with the following command:

rpmbuild -bb SolexaQA++.spec

This will create an installable RPM file which you can find in ${HOME}/rpmbuild/RPMS/x86_64 and just install that. It checks that the installation directory exists and will fail if it isn’t there.