User Guide for the Altix 3700 (cosmos)

Last Update on February 01, 2008 4:02 PM

This user guide is under development. Any feedback concerning this user guide is welcome.

• Accounts
• Acceptable Use Statement
• Access
• Accessing cosmos from UNIX based machines
• Accessing cosmos from Windows based machines
• System Messages of the Day
• Help
• Basic UNIX Commands
• CPUSETs
• Login & Interactive Environment
• Login Environment
• Interactive Processing
• Viewing Man Pages
• Startup Files
• Application Environment
• Modules
• Additional Information
• File Space
• Allocation Areas & Quotas
• Policies
• Common File Commands
• Display disk space allotments: quota
• Display files and directories: ls
• Recursively display disk usage for directories: du
• Locate files in a directory tree: find
• Protection & File Security
• Alter permissions to files and directories: chmod
• Additional Information
• Compiling & Running Programs
• Using the Intel Compilers
• Compiler Options
• File Name Extensions
• Serial Programs
• Object Files & Shared Objects
• OpenMP Programs
• MPI Programs
• Known Problems
• GNU Compilers
• ProPack 3.0 Compatibility Issues
• Applications that use LinuxThreads
• Applications Unable to Resolve the errno Symbol
• Applications Using glibc Private Symbols
• Statically Linked Applications
• Debugging
• GNU Debugger: gdb
• Intel Debugger: idb
• Data Display Debugger: ddd
• Debugging MPI programs
• Batch (PBS) Processing
• PBS Job Files
• Sample Batch Job File for Gaussian
• Sample Batch Job File for ABAQUS
• Job Submission: The qsub command
• Options for the qsub command
• Queue Structure
• Job Monitoring & Other PBS Commands
• Job Accounting
• The ja command
• The qstat -f command
• The Job Process profile
• Common PBS Environment Variables
• Policies and Best Practices
• Setting Appropriate Resource Limits
• Batch Job Termination
• Valid/Invalid Parallel Batch Jobs
• Queued Jobs Not Executing
• Jobs Using Files from the Tape Archive
• Dedicated Jobs
• Starving Jobs and Backfilling
• High Priority Queues
• Known Problems
• MPI batch jobs are being killed
• Additional Information
• Mathematical Libraries
• Intel's MKL
• SGI's SCSL
• SGI's SCSL for SDSM
• Performance Profiling
• Timing Routines
• Instruction Pointer Sampling
• Hardware Event Sampling
• Call Stack Sampling
• Data Conversions
• Architecture
• Introduction to Altix 3700 Architecture
• Additional Information
• Other Architecture Related Links
• Archiving