The yellowtail LINUX Server

TSRI has an SGI Altix 3700 LINUX server with 128 Intel Itanium 1.3 GHz processors, 128 GBytes of memory and a 1 TeraByte disk array. Jobs running on this LINUX server are managed by PBS. An account on this server is available to anyone with a valid TSRI email account. To request an account, email wyoung@scripps.edu

Available software

If an application that you need ismissing, please request that it be installed. 

Software package	Owner	Location	Description
Amber	case	/thr/loyd/sbrozell/amber/amber8.ia64	molecular simulation (EM, MD, etc.)
CCP4	weber	/usr/people/applications/ccp4-4.2.2	Xray structures
CNS	weber	/usr/people/applications/cns_solve_1.1	Xray and NMR structures
Cyana	weber	/usr/people/applications/cyana-1.0.5	NMR structures
Dyana	weber	/usr/people/applications/dyana-1.5	NMR structures
Gaussian 03	weber	/usr/people/applications/g03	quantum chemistry
HMMER	weber	/usr/people/applications/hmmer-2.3.2	sequence comparison
spider	wyoung	/usr/people/applications/spider11.3	EM 3D reconstruction

Compilation issues

This machine has the intel compiler and the GNU toolkit.

Checkpoint/restart

At the present time Linux does not have the same Checkpoint/Restart feature that Irix has. However, many applications offer built-in checkpoint and restart support. These are listed below.

Checkpoint/restart support by application