The following are required to install Parabricks:
Access to the internet
nvidia-driver that supports cuda-9.0 or higher
nvidia-driver that supports cuda-10.0 or higher if you want to run deepvariant or cnnscorevariants
nvidia-docker or singularity version 2.6.1 or higher
Python 2.7 (Most Linux systems will already have this installed)
curl (Most Linux systems will already have this installed)
Install the Parabricks package to your system:
# Step 1: Unzip the package.tar -xzf parabricks.tar.gz# Step 2: Run the installersudo ./parabricks/installer.py# Step 3: verify your installation.# This should display the parabricks version number:pbrun version
The default installation option for the package received by you, should have the correct options. However, you can modify the following options.
Location in which a folder by the name of
Container technology to use. Currently we support, nvidia-docker, docker with nvidia-container-runtime support and singularity version 2.6.1
The parabricks release version you want to install. Contact firstname.lastname@example.org, if you do not want the default version and need more information
Install on a CPU server. No GPU accelerated tools will run with this option
Create a symlink at /usr/bin/pbrun. You can choose to do this during the installation
Default architecture of the hardware. Currently we support
Uninstall parabricks. Removes all the images and scripts from
installer.py: Installer to download and install the software
license.bin: License file based on your license with Parabricks
EULA.txt: End User License Agreement
1) Log in to a machine with sudo access and singularity 3.0 or higher.
2) To download the software:
$ wget -O parabricks.tar.gz "
< DOWNLOAD_LINK >
3) Unzip the package
$ tar -xvzf parabricks.tar.gz
4) Do a local installation:$ mkdir localdir
$ sudo ./parabricks/installer.py --install-location localdir --container singularity
5) Everything will be installed in localdir/parabricks folder. Tar this folder.
$ cd localdir
$ tar -cvzf parabricks_install.tar.gz parabricks
6) and copy it to the node which will be used for testing and has singularity v3.x.
7) Untar the tar.gz file in some <INSTALL_DIR>$ cd <INSTALL_DIR>
$ tar -xvzf parabricks_install.tar.gz
To uninstall, you can run the uninstall tool: