archive:computer_resources:campusrocks
Differences
This shows you the differences between two versions of the page.
| Both sides previous revision Previous revision Next revision | Previous revision Next revision Both sides next revision | ||
|
archive:computer_resources:campusrocks [2010/04/11 16:37] karplus paraphrased sungrid info from campusrocks login message |
archive:computer_resources:campusrocks [2010/04/19 19:44] jstjohn |
||
|---|---|---|---|
| Line 7: | Line 7: | ||
| Address: 128.114.48.114 | Address: 128.114.48.114 | ||
| '' | '' | ||
| + | |||
| + | ===== Hardware ===== | ||
| + | |||
| + | [[Hardware|Machine-specific capabilities]] | ||
| + | |||
| + | ^Machine ^GB RAM ^CPUs ^Cores ^MHz ^Model ^ | ||
| + | |campusrocks.local(head node?)|30 |1 |1 |1000 |Dual-Core AMD Opteron(tm) Processor 2218 HE| | ||
| + | |campusrocks-0-2(through 30).local |15 |4 |2 |1800 |Dual-Core AMD Opteron(tm) Processor 2218 HE| | ||
| + | |campusrocks-1-0(through 31).local |15 |2 |1 |2592 |Dual-Core AMD Opteron(tm) Processor 2218 HE| | ||
| + | |||
| + | campusrocks-0-6.local exceptionally has 30 GB RAM | ||
| ===== Account/Documentation ===== | ===== Account/Documentation ===== | ||
| Line 23: | Line 34: | ||
| * 3.4TB available | * 3.4TB available | ||
| * OS: GNU/Linux 2.6.18-128.1.14.el5xen | * OS: GNU/Linux 2.6.18-128.1.14.el5xen | ||
| - | | + | |
| - | ===== Directory structure ===== | + | ===== Setting Environmental Variables ===== |
| - | * Root: /campusdata/BME235 | + | If you would like to set your startup shell to bash, make a file called .profile in your home directory and add this to the //end// of the file. |
| - | * [[bin|bin]] | + | |
| - | * [[bin/x86_64|bin/x86_64]] | + | if [ "$SHELL" = "/bin/sh" ] |
| - | * [[bin/scripts|bin/scripts]] | + | then |
| - | * [[/data|data]] | + | SHELL=/bin/bash |
| - | * [[/programs|programs]] | + | export SHELL |
| - | * [[lib|lib]] (renamed from libs to lib to simplify install process so you can install most programs with --prefix=/campusdata/BME235) --- //[[jstjohn@soe.ucsc.edu|John St. John]] 2010/04/06 23:56// | + | bash |
| - | * [[include|include]] (currently contains boost headers) | + | fi |
| - | * [[experiments|experiments]] | + | |
| + | I also copied the contents of the file .bashrc (already in my home directory) into my .profile file, and then deleted my .bashrc file. This may not be necessary, but if your settings aren't working this is something to try. | ||
| + | |||
| + | If you would like to add our classes bin directory (or any other directory for that matter) then add this to your .profile: | ||
| + | |||
| + | PATH=/campusdata/BME235/bin:$PATH | ||
| + | export PATH | ||
| + | |||
| + | To use the gcc-4.5 family of compilers stored in our bin directory then you can specify the LD_LIBRARY_PATH environmental variable: | ||
| + | LD_LIBRARY_PATH=/campusdata/BME235/lib:/campusdata/BME235/lib64:$LD_LIBRARY_PATH | ||
| + | export LD_LIBRARY_PATH | ||
| + | |||
| + | To make your default folder creation settings group readable and writable then add this line to your .profile: | ||
| + | umask 007 | ||
| + | |||
| ===== Sungrid Job scheduler ===== | ===== Sungrid Job scheduler ===== | ||
| Line 42: | Line 68: | ||
| There is [[http://campusrocks.soe.ucsc.edu/roll-documentation/sge/5.2/|Online documentation]] of how to use sungrid to submit jobs on the cluster. The main commands are | There is [[http://campusrocks.soe.ucsc.edu/roll-documentation/sge/5.2/|Online documentation]] of how to use sungrid to submit jobs on the cluster. The main commands are | ||
| - | * qsub: Submits a job (create a shell script, then run "qsub shellscript") | + | * qsub: Submits a job (create a shell script, then run "qsub -cwd shellscript") |
| * qdel: Delete a job | * qdel: Delete a job | ||
| * qlogin: Interactive login | * qlogin: Interactive login | ||
| Line 50: | Line 76: | ||
| The web site is locked so that it can only be accessed oncampus. | The web site is locked so that it can only be accessed oncampus. | ||
| + | [[http://web.njit.edu/topics/HPC/basement/sge/SGE.html|SunGrid Quick Start]] | ||
| + | |||
| + | Useful submit-script settings for SGE: | ||
| + | |||
| + | #$ -N some_name_here\\ | ||
| + | Apparently, you must have a single word after -N\\ | ||
| + | This gives a nicer name to your script when you run qstat.\\ | ||
| + | #$ -V\\ | ||
| + | Your jobs use **your** environment variables. | ||
archive/computer_resources/campusrocks.txt · Last modified: 2015/09/02 16:42 by ceisenhart
Except where otherwise noted, content on this wiki is licensed under the following license: CC Attribution-Noncommercial-Share Alike 3.0 Unported
