/[MITgcm]/MITgcm_contrib/MPMice/beaufort/README_beaufort.txt

Diff of /MITgcm_contrib/MPMice/beaufort/README_beaufort.txt

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-revision 1.5 by dimitri,
Thu May 19 07:41:42 2011 UTC
+revision 1.13 by dimitri,
Thu Dec  3 01:18:23 2015 UTC
 Line 1
  Instructions for running the "beaufort" 40x40x50 configuration
  face=6; ix=101:300; jx=290:449; kx=1:50;
-. Set up and log in to cvs server
+. Get code, input, and README files from CVS server
-   bash or sh shell: export CVSROOT=':pserver:cvsanon@mitgcm.org:/u/gcmpack'
+   cvs -d :pserver:cvsanon:cvsanon@mitgcm.org:/u/gcmpack \
-   tcsh or csh shell: setenv CVSROOT ':pserver:cvsanon@mitgcm.org:/u/gcmpack'
+       co -d beaufort MITgcm_contrib/MPMice/beaufort
-   cvs login ( enter the CVS password: "cvsanon" )
-. Get code, input, and README files from CVS server
-   cvs co -d beaufort MITgcm_contrib/MPMice/beaufort
    cd beaufort
-   cvs co MITgcm_code
+   cvs -d :pserver:cvsanon:cvsanon@mitgcm.org:/u/gcmpack co -P MITgcm_code
 . Obtain copies of following directories and put them in beaufort
-   ftp://ecco2.jpl.nasa.gov/data1/beaufort/run_template
+   wget -r -nH --cut-dirs=2 ftp://ecco2.jpl.nasa.gov/data1/beaufort/run_template
-   ftp://ecco2.jpl.nasa.gov/data1/data/atmos/blend_forcing/cube78_forcing
+   wget -r -nH --cut-dirs=4 ftp://ecco2.jpl.nasa.gov/data1/data/atmos/blend_forcing/cube78_forcing
     (Note the forcing files in cube78_forcing span many years.
      To save time, you only need to download the years of interest,
      *92 for example below, plus the runoff-360x180x12.bin file)
 . Get the ice code, PM2 (this item needs to be updated)
          Obtain directories PM2/F95 and PM2/config from ...??
          call the directory containting PM2, ICE_DIR,
          in my case ICE_DIR=/dm5/bep/sulsky/seaice on pollux
-Line 31 
 face=6; ix=101:300; jx=290:449; kx=1:50;
+Line 27 
 face=6; ix=101:300; jx=290:449; kx=1:50;
   ONCE ONLY: (only need to redo if geometry changes)
   cd MITgcm/ice
   mpirun -np 1 ICE_DIR/PM2-Pre
          The PM2/config/hosts files for gemini and pollux  assume petsc is installed in
                  PETSCDIR = /dm5/bep/sulsky/Packages/petsc-2.3.3-p8  on pollux
                  PETSCDIR = /workg/bep/sulsky/Packages/petsc-2.3.3-p8 on gemini
-Line 40 
 face=6; ix=101:300; jx=290:449; kx=1:50;
+Line 36 
 face=6; ix=101:300; jx=290:449; kx=1:50;
          ./config/configure.py --with-debug=1 --with-fc=/opt/intel/fc/9.1.051/bin/ifort
  --with-f90=/opt/intel/fc/9.1.051/bin/ifort --with-mpi-dir=/opt/mpich/ch-p4
  --with-blas-lapack-dir=/opt/intel/mkl/9.1.023/lib/64  for debuggable code and
          ./config/configure.py --with-debug=0 --with-fc=/opt/intel/fc/9.1.051/bin/ifort
  --with-f90=/opt/intel/fc/9.1.051/bin/ifort --with-mpi-dir=/opt/mpich/ch-p4
  --with-blas-lapack-dir=/opt/intel/mkl/9.1.023/lib/64 for optimized code.)
          Input files go in MITgcm/ice (pm2input, pm2geometry) After compile step, run
          PM2-Pre once to generate pm2_grid.nc pm2_part.nc with initial geometry.
  =============================================
- Running on a linux workstation:
+ Running uncoupled, serial code on a linux workstation:
 . Compile code:
   cd MITgcm
   mkdir bin exe
   cd bin
-  ../tools/genmake2 -mods=../../code
+  ../tools/genmake2 -mo ../../code
   make depend
-  make -j
+  make -j 8
 . Model execution:
   cd ../exe
-  cp ../../run_template/* .
+  ln -sf ../../run_template/* .
   cp ../../input/* .
   cp ../bin/mitgcmuv .
   ./mitgcmuv >& output.txt &
  =============================================
- Running on lozenge.
+ Running uncoupled MPI code on spiral.
 . Compile code:
   cd MITgcm
   mkdir bin exe
   cd bin
-  \cp ../../code/* .
+  \cp ../../code/SIZE.h_2 SIZE.h
-  \mv SIZE.h_2 SIZE.h
+  \cp ../../code/CPP_EEOPTIONS.h_UNCOUPLED CPP_EEOPTIONS.h
-  ../tools/genmake2 -of ../../code/linux_amd64_gfortran_lozenge -mpi
+  ../tools/genmake2 -of ../../code/linux_gfortran_spiral -mpi
   make depend
   make -j
-. Model execution:
-  cd ../exe
-  cp ../../run_template/* .
-  cp ../../input/* .
-  cp ../bin/mitgcmuv .
-  mpiexec -np 2 ./mitgcmuv >& output.txt
- =============================================
- Running on gemini.
-. Compile code:
-  cd MITgcm
-  mkdir bin exe
-  cd bin
-  \cp ../../code/* .
   \mv SIZE.h_2 SIZE.h
-  ../tools/genmake2 -of ../tools/build_options/linux_ia64_ifort+mpi_altix_jpl
+  \mv CPP_EEOPTIONS.h_UNCOUPLED CPP_EEOPTIONS.h
-  make depend
-  make -j
+. Model execution:
-. Model execution:
   cd ../exe
   cp ../../run_template/* .
   cp ../../input/* .
   cp ../bin/mitgcmuv .
-  qsub jobfile
+  mpiexec -np 2 ./mitgcmuv >& output.txt
-  qstat
  =============================================
- Running MITgcm and MPMice on gemini.
+ Running MITgcm and MPMice on lozenge.
 . Compile code:
   cd MITgcm
-Line 118 
 Running MITgcm and MPMice on gemini.
+Line 99 
 Running MITgcm and MPMice on gemini.
   \cp ../../code/* .
   \mv SIZE.h_2 SIZE.h
   \mv CPP_EEOPTIONS.h_CPL CPP_EEOPTIONS.h
-  ../tools/genmake2 -of ../tools/build_options/linux_ia64_ifort+mpi_altix_jpl
+  ../tools/genmake2 -of ../../code/linux_amd64_gfortran_lozenge -mpi
   make depend
   make -j
   cd ..
-  cp -r /workg/bep/dmenemen/MITgcm/ice .
+  mkdir ice
+  cp ../../beaufort_020212/MITgcm/ice/* .
+  cp /homes/hantran/MPM_Han/PM2/bin/PM2 .
 . Model execution:
-  \rm out err
+  \rm out err a.out
   mkdir ocean
   cd ocean
   \rm *
   \cp ../../run_template/* .
   \cp ../../input/* .
   cd ..
-  \cp -r /workg/bep/dmenemen/MITgcm/ice .
   \cp bin/mitgcmuv .
-  \cp ice/PM2 .
+  mpiexec -np 2 mitgcmuv : -np 1 PM2 > a.out &
-  bsub < ocean/jobfile2
-  bjobs

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