indraniel/cnvnator-packager

A utility to help assemble, compile and package CNVnator

CNVnator packager

This repository contains code to help assist in compiling CNVnator and creating rudimentary debian packages. Currently this downloads, compiles, and packages ROOT (version 6.06.02), YEPPP (version 1.0.0), samtools (version 1.3), and CNVNator (version 0.3.2) .

These instructions are based upon using a "default" untainted Ubuntu cloud images for OpenStack, and with a user and group both named ubuntu.

Pre-compiled binary packages

For already pre-compiled debian packages please see cnvnator-packages.

Usage

Ubuntu based distributions

# setup the distribution
sudo apt-get update
sudo apt-get install build-essential
sudo apt-get install git

git clone https://github.com/indraniel/cnvnator-packager
cd cnvnator-packager
# download, and compile the sources 
make
# package up the relevant libraries, headers, files and executables
make debian

# check package existence
ls -al /opt/cnvnator-0.3.2/*.deb

# extract the CNVnator debian package to your host machine
scp /opt/cnvnator-0.3.2/*.deb your-username@your-hostmachine:/path/to/download/directory

NOTES

• The overall build directory can be changed by updating the BASE_DIR parameter in the Makefile.
• You'll need access to a gcc version 4.8 or higher to properly compile ROOT.