--- MITgcm_contrib/ocean_inversion_project/README 2003/09/26 20:01:41 1.7 +++ MITgcm_contrib/ocean_inversion_project/README 2005/05/04 23:47:17 1.29 @@ -13,6 +13,17 @@ respective README files in each directory for details. +Notes and problems: +=================== + +there is problem generating ECCO_MaskAreaBathy.nc on columbia +works OK on nireas + +variable global_mean_conc in 0D output from mk_output.F is +screwed up + + + =============================================== First check that pkg/ptracers works OK by using salinity initial and boundary conditions @@ -20,9 +31,9 @@ 1 ===> get MITgcm code from cvs repository - CVSROOT=:pserver:cvsanon@mitgcm.org:/u/u0/gcmpack - cvs login ( CVS password: cvsanon ) - cvs co MITgcm + cvs co -r checkpoint51n_branch MITgcm_code + cvs co -r checkpoint51n_branch MITgcm/verification/testreport + cvs co -r checkpoint51n_branch MITgcm/verification/global_with_exf 2 ===> put MITgcm_contrib/ocean_inversion_project in MITgcm directory @@ -31,48 +42,121 @@ 3 ===> compile and link + mkdir bin exe cd bin + \cp ../verification/global_with_exf/code/* . + \cp ../ocean_inversion_project/code/* . + \rm ptracers_*.F PTRACERS_OPTIONS.h + ../tools/genmake2 + (on orion: ../tools/genmake2 -of linux_ia64_efc+mpi ) + (on columbia: ../tools/genmake2 -of linux_ia64_efc+mpi_altix ) + make depend + make -j 16 + +4 ===> execute + + cd ../exe + \cp ../verification/global_with_exf/input/eedata . + \cp ../verification/global_with_exf/input/data.* . + \cp ../verification/global_with_exf/input/POLY3.COEFFS . + \ln -sf ../verification/global_with_exf/input/*.bin . + \cp ../ocean_inversion_project/input/* . + \cp data.test data + \cp data.ptracers.test data.ptracers + ./mitgcmuv >! output.txt + +5 ===> check that PTRACER output and salinity output are identical. + + diff PTRACER01.0000000020.001.001.data S.0000000020.001.001.data + diff PTRACER30.0000000020.001.001.data S.0000000020.001.001.data + diff PTRtave30.0000000020.001.001.data Stave.0000000020.001.001.data + diff PTRtave30.0000000020.001.001.data Stave.0000000020.001.001.data + + +========================================================== +MPI instructions for carrying out a 3000-year quasi-stationary +integration using the global_ocean.90x40x15 configuration. +========================================================== + + cd MITgcm/exe + rm * + cd ../bin + rm * cp ../verification/global_with_exf/code/* . - cp ../ocean_inversion_project/code/.genmakerc . cp ../ocean_inversion_project/code/* . - rm ptracers_*.F - ../tools/genmake + rm PTRACERS_OPTIONS.h + cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h + cp SIZE.h_mpi SIZE.h + ../tools/genmake2 + (on orion: ../tools/genmake2 -of linux_ia64_efc+mpi) make depend make + cd ../exe + cp ../verification/global_with_exf/input/eedata . + cp ../verification/global_with_exf/input/data.* . + cp ../verification/global_with_exf/input/POLY3.COEFFS . + ln -sf ../verification/global_with_exf/input/*.bin . + cp ../ocean_inversion_project/input/* . + ln -sf ../ocean_inversion_project/region_mask/30reg_regionmask.bin . + ln -sf ../ocean_inversion_project/takahashi/taka02_montlhy.bin . + cp data.stationary.1 data + mpirun -np 24 dplace -s1 mitgcmuv < /dev/null > & ! errlog & + (on orion: qsub job.orion) -4 ===> execute +========================================================== +MPI instructions for carrying out time-dependent, 1765-2005, +anthropogenic carbon perturbation tracer experiments using +the global_ocean.90x40x15 configuration. +========================================================== + + cd MITgcm/exe + rm * + cd ../bin + rm * + cp ../verification/global_with_exf/code/* . + cp ../ocean_inversion_project/code/* . + cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h + cp SIZE.h_mpi SIZE.h + ../tools/genmake2 + (on orion: ../tools/genmake2 -of linux_ia64_efc+mpi) + make depend + make cd ../exe cp ../verification/global_with_exf/input/eedata . cp ../verification/global_with_exf/input/data.* . cp ../verification/global_with_exf/input/POLY3.COEFFS . ln -sf ../verification/global_with_exf/input/*.bin . cp ../ocean_inversion_project/input/* . - cp data.test data - cp data.ptracers.test data.ptracers - mitgcmuv > output.txt - -5 ===> check that PTRACER output and salinity output are identical. - - diff PTRACER01.0000000020.001.001.data S.0000000020.001.001.data - diff PTRACER30.0000000020.001.001.data S.0000000020.001.001.data + cp data.1765-2005 data + ln -sf ../ocean_inversion_project/region_mask/30reg_regionmask.bin . + ln -sf ../ocean_inversion_project/takahashi/taka02_montlhy.bin . + ln -sf ../ocean_inversion_project/atm_co2/splco2_cis92a.dat . + mpirun -np 24 dplace -s1 mitgcmuv < /dev/null > & ! errlog & + (on orion: qsub job.orion.td) ========================================================== -Instructions for carrying out a 3000-year quasi-stationary -integration using the global_ocean.90x40x15 configuration. +Instructions for carrying out time-dependent, 1765-2005, +anthropogenic carbon perturbation tracer experiments using +global_ocean.90x40x15 configuration and netcdf output. +This assumes that the appropriate libnetcdf.a exists +and that it be specified in the genmake2 option file. ========================================================== -1 ===> compile, link, and execute - cd MITgcm/exe rm * cd ../bin rm * cp ../verification/global_with_exf/code/* . - cp ../ocean_inversion_project/code/.genmakerc . cp ../ocean_inversion_project/code/* . - ../tools/genmake + cp PTRACERS_OPTIONS.h.netcdf PTRACERS_OPTIONS.h + cp ../ocean_inversion_project/write_netCDF/* . + \rm mk_output.F + +### need customized option file; example below is for nireas + ../tools/genmake2 -of linux_ia32_g77_netcdf + make depend make cd ../exe @@ -81,11 +165,107 @@ cp ../verification/global_with_exf/input/POLY3.COEFFS . ln -sf ../verification/global_with_exf/input/*.bin . cp ../ocean_inversion_project/input/* . + cp data.1765-2005.1 data ln -sf ../ocean_inversion_project/region_mask/30reg_regionmask.bin . ln -sf ../ocean_inversion_project/takahashi/taka02_montlhy.bin . + ln -sf ../ocean_inversion_project/atm_co2/splco2_cis92a.dat . mitgcmuv > output .txt & +========================================================== +Instructions for carrying out time-dependent, 1765-2005, +anthropogenic carbon perturbation tracer experiments using +the ecco1x1 configuration and netcdf output on columbia. +This assumes that the appropriate libnetcdf.a exists +and that it be specified in the genmake2 option file. +It also assumes that surface forcing files are available +in MITgcm/../iter69 +========================================================== + + cd MITgcm/exe + \rm * + cd ../bin + \rm * + \cp ../ocean_inversion_project/code_ecco1x1/* . + \cp ../ocean_inversion_project/write_netCDF/* . + \rm mk_output.F + \cp SIZE.h.96 SIZE.h + ../tools/genmake2 -of linux_ia64_efc+mpi_altix + make depend + make -j 16 + cd ../exe + \cp ../ocean_inversion_project/input_ecco1x1/* . + ln -sf ../../iter69/* . + ln -sf ../ocean_inversion_project/region_mask/30reg_regionmask.bin . + ln -sf ../ocean_inversion_project/takahashi/taka02_montlhy.bin . + ln -sf ../ocean_inversion_project/atm_co2/splco2_cis92a.dat . + qsub job01 + + +========================================================== +Instructions for carrying out 3000-year quasi-stationary +integration using the ecco1x1 configuration and netcdf +output on columbia. +This assumes that the appropriate libnetcdf.a exists +and that it be specified in the genmake2 option file. +It also assumes that surface forcing files are available +in MITgcm/../iter69 +========================================================== + + cd MITgcm/exe + \rm * + cd ../bin + \rm * + \cp ../ocean_inversion_project/code_ecco1x1/* . + \cp ../ocean_inversion_project/write_netCDF/* . + \rm mk_output.F + \cp SIZE.h.96 SIZE.h + \cp PTRACERS_OPTIONS.h.stationary PTRACERS_OPTIONS.h + ../tools/genmake2 -of linux_ia64_efc+mpi_altix + make depend + make -j 16 + cd ../exe + \cp ../ocean_inversion_project/input_ecco1x1/* . + \ln -sf ../../iter69/* . + \ln -sf ../ocean_inversion_project/region_mask/30reg_regionmask.bin . + \ln -sf ../ocean_inversion_project/takahashi/taka02_montlhy.bin . + qsub job01s + + +========================================================== +Instructions for generating netcdf output files on columbia +========================================================== + +cd ocean_inversion_project/write_netCDF +setenv F_UFMTENDIAN big + +(check that defaults in mk_output.F are appropriate) + +ifort -assume byterecl -W0 -WB mk_output.F write_nc_phys.F nc_util.F \ + handle_errors.F write_nc_basisfnctns.F \ + write_nc_diag_0D.F write_nc_diag_2D.F \ + -I/u/menemenl/software/netcdf-3.5.0/include \ + -L/u/menemenl/software/netcdf-3.5.0/lib -lnetcdf +./a.out + + +========================================================== +Instructions for generating netcdf output files on orion +========================================================== + +cd ocean_inversion_project/write_netCDF +setenv F_UFMTENDIAN big + +(check that defaults in mk_output.F are appropriate) + +efc -W0 -WB mk_output.F write_nc_phys.F nc_util.F \ + handle_errors.F write_nc_basisfnctns.F \ + write_nc_diag_0D.F write_nc_diag_2D.F \ + -I/u2/dmenem/software/netcdf-3.5.0/include \ + -L/u2/dmenem/software/netcdf-3.5.0/lib -lnetcdf +./a.out + + ====================================================== % some matlab code for looking at fort.10 debug files @@ -128,3 +308,19 @@ end end plot(1:30,0*sumtracer,1:30,sumtracer) + + +% check that tracer flux is 1e18 mols / year +nb_seconds_per_year=31556880; +lon=2:4:360; lat=-78:4:78; +mask=readbin('hFacC.data',[90 40 15],1); +tracer=zeros(90,40,30); sumtracer=zeros(30,1); +for i=1:30, mydisp(i) + fn=['PtrFlux' myint2str(i) '.0000000180.data']; + tracer(:,:,i)=readbin(fn,[90 40],1); + for j=1:length(lat) + sumtracer(i) = sumtracer(i) + sum(tracer(:,j,i).*mask(:,j,1)) * ... + nb_seconds_per_year* (4*1.113195e+05)^2 * cos(pi*lat(j)/180); + end +end +plot(1:30,0*sumtracer,1:30,sumtracer-mmean(sumtracer))