Related Web Sites
Old LoBoS Web Pages
Parallel Computing Resources
- Cluster Hardware and Design
- Beowulf.org has an extensive list of cluster resources, as well as a guide to building your own Beowulf cluster.
- Engineering a Beowulf-style Compute Cluster is an online book with good information on cluster design.
- Myricom is a company that produces Myrinet, a high-speed, highly-scalable cluster interconnect technology.
- InfiniBand is an emerging set of network standards for high-performance computing.
- Topspin produces InfiniBand network gear.
- Foundry Networks provides the high-performance ethernet switches which LoBoS uses.
- Parallel Programming Libraries and Other Resources
Cluster Software
- Application Software
- CHARMM is a customizable, parallelized, multi-platform molecular modelling program.
- A Tutorial for CHARMM by Laboratory of Computational Biology staff.
- A Web-portal for CHARMM also by Laboratory of Computational Biology staff.
- NAMD is a parallel molecular dynamics code designed for high performance simulations.
- MPICH is an open-source implementation of MPI for Unix and Windows systems.
- PVM is another set of parallel communications libraries, similar to MPI.
- For benchmarking, HPL is a freely-available implementation of Linpack.
- Administration and Monitoring Software
- LoBoS uses Torque, an extension of OpenPBS, as its batch processing system.
- NAGIOS is a flexible, extensible distributed monitoring tool.
- Ganglia is a distributed monitoring tool designed specifically for clusters.
Other Clusters of Note
- Biowulf is another cluster at NIH. Some old LoBoS nodes are now part of Biowulf.
- Vrana at the Slovenian National Institute of Chemistry, which is run by Milan Hodoscek, who did early work on LoBoS.
- The Beowulf Project at the Center for Advanced Computing Research at CalTech.
- The Hoffman Cluster at UCLA.
- Avalon is a Beowulf at Los Alamos National Laboratory which uses HP Alphas instead of Intel processors.
- MadDog at the Theoretical Physics group at the University of Manchester.
Links compiled by Tim Miller, with the assistance of the Computational Biophysics Section staff.