nhansen / NHGRI-BW2

Software to automate tasks for performing biowulf2 analyses remotely from a different server.

NHGRI-BW2 modules/scripts

This software is intended to automate many of the tasks associated with running
bioinformatic analyses on the NIH biowulf2 cluster using input data residing on a
separate server. It provides methods for transferring data, creating sbatch and
swarm scripts and submitting them with appropriate options, monitoring job status
and checking job outcome, and transferring output files and logs back to the user’s
own server from biowulf2.

NHGRI-BW2 was written by Nancy Fisher Hansen, a staff scientist in the Cancer
Genetics and Comparative Genomics Branch (CGCG) of NHGRI, an institute at the
National Institutes of Health. Nancy can be reached at [e-mail].

Build Dependencies

• None right now

Build Instructions

Clone the repository

git clone git://github.com/nhansen/NHGRI-BW2.git

Build NHGRI-BW2

cd NHGRI-BW2
perl Makefile.PL
make
make test
make install

* For local installation, call perl Makefile.PL with “—install_base $HOME”

Documentation

POD documentation is contained in all modules and scripts. Type “perldoc script_or_module_name”.