nxtrim

https://github.com/sequencing/NxTrim

Automatic Build

Inside ${HOME}/bioit/apps/nxtrim/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/nxtrim/SPEC/build 0.4.3

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

module avail nxtrim

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

module load nxtrim/0.4.3
which nxtrim
nxtrim

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

Manual Build

Download the tar.gz version to be built into /opt/bioit/nxtrim/src and untar.

Inside the resulting directory run the following:

make 
mkdir /opt/bioit/nxtrim/0.4.3
mv nxtrim /opt/bioit/nxtrim/0.4.3

Module setup

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

#%Module 1.0
#
#  nxtrim module for use with 'environment-modules' package:
#
prepend-path  PATH              /opt/bioit/nxtrim/0.4.3

RPM

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

rpmbuild -bb nxtrim.spec

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

Before you install this, you need to sign it using:

rpm --addsign \
${HOME}/rpmbuild/RPMS/x86_64/nxtrim-0.4.3-1.el7.bioit.x86_64.rpm

Now you can move it to /opt/bioit/repo/RPMS

mv ${HOME}/rpmbuild/RPMS/x86_64/nxtrim-0.4.3-1.el7.bioit.x86_64.rpm \
/opt/bioit/repo/RPMS

Lastly, run the buildrepo command:

buildrepo

When this finishes, as root you can do the following:

yum clean all
yum update nxtrim

That should install the new RPM. If that has worked you can now run the following without loading the module:

nxtrim

and it should report the correct version. You’re done.