vsearch

https://github.com/torognes/vsearch

Automatic Build

Inside ${HOME}/bioit/apps/vsearch/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/vsearch/SPEC/build 2.30.0

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

module avail vsearch

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

module load vsearch/2.30.0
which vsearch
vsearch --version

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

Manual Build

Download the version to be built into /opt/bioit/vsearch/src and untar

./autogen.sh
./configure --prefix=/opt/bioit/vsearch/2.30.0
sed -i -e 's/native/x86-64/g' Makefile src/Makefile
make
make install

The sed line prevents it building binaries that won’t run on all 64 bit pricessors.

Module setup

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

#%Module 1.0
#
#  vsearch module for use with 'environment-modules' package:
#
prepend-path  PATH         /opt/bioit/vsearch/2.30.0/bin
prepend-path  MANPATH      /opt/bioit/vsearch/2.30.0/share/man

RPM

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

rpmbuild -bb vsearch.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.