Diff of IT memo/Compas Memo - Kei YOSHIMURA in AORI/IIS U-Tokyo

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* Memo for compas.ucsd.edu [#i630b64c]

- 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.

** Note for GSM/RSM run [#kb28dea3]
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:

** Using Myrinet (rack 2&3) [#na6d5851]
- 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"

** How to run GSM from first login [#z8fc122f]
+ ssh to compas
 $ ssh -l kei compas
  You are asked to make specific pass phrases, 
  but Do not make them and just hit enter.
+ set your environment
 modify ~/.bashrc (bash) or ~/.cshrc (tcsh)
  PATH, LD_LIBRARY_PATH, LM_LICENSE_FILE, CVSROOT are important.
+ install GSM
 $ mkdir GSM ; cd GSM
 $ install --model=gsm --date=20061218 lo
  choose mpi, T62, gsm
+ 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
+ re-compile GSM
 $ cd gsm
  modify opt/options-linux-mpi
  all "pgf90" -> "mpif90_PIII"
 $ configure-models
 $ make clean ; make
+ 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
+ test run!
 $ cd gruns
 $ gsm