Difference between revisions of "Rizzo Lab Information and Tutorials"

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| [[Amber on Seawulf (comulation)]]
 
| [[NAMD on Seawulf]]
 
| [[NAMD on Seawulf]]
 
| [[Dell 5110cn Printer]]
 
| [[Dell 5110cn Printer]]

Revision as of 13:01, 4 December 2009

Visualization Software

Basic Linux Tools

Unix vi sed - Stream Editor in Unix
Stupid awk tricks Ways to remove the first line PBS Queue
gdb (GNU Debugger) Common Errors - ctrl M C Shell Scripting
Unix find Which Unix Distribution? rsync
MPICH

DOCKing

DOCK Tutorials Testset Protocols Scoring Functions Sampling Methods
ZINC Database Installing DOCK

Molecular Dynamics

AMBER Tutorials AMBER tricks
NAMD tutorial NAMD Amber inputs
ptraj

NAMD and DOCK on BlueGene

Monte Carlo

Analysis Tools

Databases

BlueGene

Get time estimate for free blocks Get Job ids to use for llcancel Get time for job completion
Submitting BlueGene Jobs Compiling Applications for BG/L BlueGene LoadLeveler Jobs with Multiple Steps (Chain Jobs)

Conversion between file types

Miscellaneous

X-Win32 CVS Commands Ethernet Cables
Getting a BNL Account Getting a Seawulf Account Sequence alignment
Visiting BNL Making images for publication Lab-designed code and programs
scp files from cluster to NYBlue Setup ssh tunnel to NYBlue fen Server Administration
Amber on Seawulf (comulation) NAMD on Seawulf Dell 5110cn Printer

Insurance

Research Foundation

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