Memo for compas.ucsd.edu †

  • Specification:
    • 160 nodes, 320 CPUs cluster.
    • 5 racks, 0-1: P4 with myrinet, 2-3: P3 with myrinet, 4: P3
    • 2GB memory for one node.
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Note for GSM/RSM run †

Should change compilers in libs/opt_libs/options-linux-mpi and gsm/opt/options-linux-mpi as follows:

  • rack0-1: mpif90
  • rack2-3: mpif90_PIII
  • rack4:
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Using Myrinet (rack 2&3) †

  • With Myrinet: Make path to /opt/mpich/myrinet/pgi/bin
  • Without Myrinet (GigE): Make path to /opt/mpich/pgi/bin
    • In this case, the node_list should be like "compas-3-0.sio.optiputer.net"
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How to run GSM from first login †

  1. ssh to compas 
    $ ssh -l kei compas
 You are asked to make specific pass phrases, 
 but Do not make them and just hit enter.
  2. set your environment 
    modify ~/.bashrc (bash) or ~/.cshrc (tcsh)
 PATH, LD_LIBRARY_PATH, LM_LICENSE_FILE, CVSROOT are important.
  3. install GSM 
    $ mkdir GSM ; cd GSM
$ install --model=gsm --date=20061218 lo
 choose mpi, T62, gsm
  4. re-compile GSM-libs 
    $ cd libs
 modify opt_libs/options-linux-mpi
 all "pgf90" -> "mpif90_PIII" (when you use compute-3-XX)
$ configure-libs
$ make clean ; make
  5. re-compile GSM 
    $ cd gsm
 modify opt/options-linux-mpi
 all "pgf90" -> "mpif90_PIII"
$ configure-models
$ make clean ; make
  6. make "node_list" 
    edit ~/node_list (in your home directory)
 compute-3-16
 compute-3-16
 compute-3-17
 compute-3-17
 :
 compute-3-31
  7. test run! 
    $ cd gruns
$ gsm