Please see the Release Notes

APBS (Adaptive Poisson-Boltzmann Solver) is a scalable Poisson-Boltzmann equation solver used to study electrostatic properties of small to nanoscale biomolecular systems. The APBS Roll simplifies APBS deployment and integration on Rocks clusters. More information about APBS can be found at SourceForge or at the NBCR web site.

This APBS Roll contains the latest APBS version 1.3 and PDB2PQR package version 1.7.

The APBS Roll can be downloaded from the APBS download site and the Roll documentation including installation and usage information is available here.

Questions or comments may be directed to Robert Konecny < rok@ucsd.edu>.

This roll include support for Chromium and instruction on running
Google Earth.

ISO images for Viz Roll can be found on the Downloads page.

Installation instructions can be found here.

This roll includes all the fixes from the previous Service Pack (v5.4.1) as well as some new fixes. A description of all the fixes can be found here.

ISO images for the Service Pack Roll can be found on the Downloads page.

Installation instructions can be found here.

This roll contains executables and configuration utilities to deploy a PVFS2 file system on a Rocks cluster.

The roll includes PVFS2 v2.8.2.

ISO images for the PVFS2 Roll can be found on the Downloads page.

Installation and configuration instructions can be found here.

This roll includes the following fixes.

ISO images for the Service Pack Roll can be found on the Downloads page.

Installation instructions can be found here.

The torque roll for Rocks 5.4.0 is now ready for download. Get the bits at:

ftp://ftp.uit.no/pub/linux/rocks/torque-roll/5.4.0

Most important software included:

• Torque v2.4.11
• Maui v3.2.6p21
• mpiexec v0.84

Maintenance Release

This version of the torque roll is a maintenance release. It contains several bug fixes as well as refreshed software.

Installation

The Rocks way of installing the roll is as usual to reinstall your frontend and compute nodes, but you can also use the chain of commands to install a new roll on an existing frontend (with or without a previous version of the roll):

# rocks add roll /path/to/torque/roll.iso
# rocks enable roll torque
# rocks create distro
# rocks run roll torque | sh
# reboot

After the the frontend comes back up you should do the following to populate the node list:

# rocks sync config

then kickstart all your nodes

# rocks run host /boot/kickstart/cluster-kickstart

After the nodes are reinstalled they should automatically pop up in the queueing system.

Source Code

The source code of the roll can be accessed from a public mercurial repository: http://devsrc.cc.uit.no/hg/torque/

Downloads

ISO images for Linux on the i386 and x86_64 architectures can be found here.

Release Notes

Release notes for 5.4.

Downloads

• Jumbo Roll (Area51, Base, Ganglia, HPC, Java, Kernel, OS disk 1 and 2, SGE, Web Server, Xen) x86_64 (dvd)
• Individual Rolls
• MD5 checksums

Features

For an overview of some of the new features in Rocks 5.4, take a look at this presentation: What’s in Rocks 5.4.

The fifth annual Rocks users meeting will be held on June 2nd and 3rd 2010 at UCSD in sunny La Jolla, California. The agenda, registration, and hotel details can be found here.

This is event is free for all participants from non-profit organizations, but you must register. Commercial participation is welcome, but as this meeting is supported by the NSF, attendees from for-profit organizations are required to pay a registration fee of $300 per person.