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( last edited : October 14th, 2014 -- author : Gael Forget ) |
( 2015/10/23: this file was emptied; see eccov4.pdf instead. ) |
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--------------------------------------------------------------- |
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A) setup the experiments (incl. llc90 and cs32 core2.cnyf runs) |
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--------------------------------------------------------------- |
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0) get MITgcm as explained @ http://mitgcm.org/public/source_code.html |
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1) the following assumes that you are in directory MITgcm/verification/ |
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i.e., after checkout of the model repository, do: |
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cd MITgcm/verification/ |
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from here, get the MITgcm_contrib/gael/verification/setup_these_exps.csh |
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c-shell setup script e.g. by typing |
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cvs co MITgcm_contrib/gael/verification/setup_these_exps.csh |
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mv MITgcm_contrib/gael/verification/setup_these_exps.csh . |
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Unless you already had something in MITgcm_contrib you may want |
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to remove that directory. Hereafter we wont need it anymore. |
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2) execute the setup script by typing |
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source ./setup_these_exps.csh |
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A pre-requisite is that you are logged in to the MITgcm |
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cvs server. If you completed step1, you indeed already are. |
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If otherwise, see http://mitgcm.org/public/source_code.html |
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3) step2 creates a directory global_oce_tmp_download that |
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contains the experiments directories. Move them (incl. |
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global_oce_input_fields) to MITgcm/verification. Once you |
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have done this succesfully you may want to remove the empty |
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global_oce_tmp_download directory. We wont need it anymore. |
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4) exectute MITgcm with testreport. Two examples from one machine. |
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To run the cs32 test on one cpu : |
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./testreport -t global_oce_cs32 |
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And to run the llc90 test on 24 cpus, using mpi |
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./testreport -of=../tools/build_options/linux_amd64_gfortran -MPI 24 -command 'mpirun -np TR_NPROC ./mitgcmuv' -t 'global_oce_cs32 global_oce_llc90' |
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The optfile may be swaped for one that better suits your machine. |
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Notes: - when using mpi and netcdf, testreport expects two environment variables : |
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export MPI_INC_DIR=/opt/local/include |
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export NETCDF_ROOT=/opt/local |
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or something similar depending on your computing environment |
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- whether with testreport or not mpi and netcdf libraries are a pre-requisite |
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5) upon completion of the experiments, testreport should return something like |
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Y Y Y Y>16<16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 . . pass global_oce_cs32 |
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Y Y Y Y> 7<16 16 12 12 16 16 13 11 13 12 10 11 13 13 11 11 . . FAIL global_oce_llc90 |
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Y Y Y Y>10<16 13 12 12 13 16 14 11 13 13 11 11 13 13 11 11 . . pass global_oce_llc90.core2 |
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Y Y Y Y> 4<13 11 9 9 12 16 11 9 10 12 10 10 11 10 8 10 . . FAIL global_oce_llc90.ecco_v4 |
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Y Y Y Y> 7<10 11 12 11 12 11 13 10 10 12 11 11 12 11 11 10 . . FAIL global_oce_llc90.ecmwf |
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implying that the main experiment ran as expected in global_oce_llc90/run. |
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----------------------------------------------------------------------- |
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B) in case you want to change stuff on your end, or for troubleshooting |
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----------------------------------------------------------------------- |
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1) In linking the experiments to one another we rely on 'build/genmake_local' and |
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'input*/prepare_run' which may be worth a special mention, at least to new MITgcm users. |
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1.1) most importantly : if you remove these files, the exps wont run or even compile. |
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1.2) build/genmake_local specifies the use of xmakedepend (since the default |
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cant handle so many files) and in global_oce_cs32 it points to |
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"../../global_oce_llc90/code/" If you move global_oce_llc90 away from |
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global_oce_cs32 you will need to edit that path in genmake_local. |
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1.3) in analogy input*/prepare_run are a set of instructions that "testreport" |
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will execute before running MITgcm, to link all of the proper inputs. |
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And again the experiments form a self-consistent group, such that |
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e.g. global_oce_cs32 will get shared files from global_oce_llc90. If you move |
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the directories appart, you will need to edit the paths in input*/prepare_run |
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1.4) the logic we followed in linking exps to one another : |
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- forward subexperiments : get input.xxx/namelists then run input/prepare_run |
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- adjoint subexperiments : get input_ad.xxx/namelists then run corresponding forward |
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subexperiment input.xxx/prepare_run (that itself ultimately runs input/prepare_run) |
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2) In a couple .h files (that you find in the build directory after compiling) |
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small size parameters are used as a default (to save memory of course) |
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and they can become limiting in certain cases : |
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- you may want to integrate the model beyond a few time steps. You will need to |
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increase nchklev_1/_2/_3 in tamc.h (e.g. use the values in tamc.h_itXX) and recompile. |
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- you may want to use pkg/profiles (i.e. process insitu data via data.profiles). |
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You will need to increase NOBSGLOB in PROFILES_SIZE.h (e.g. use PROFILES_SIZE.h_itXX), and recompile. |
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3) To run the adjoint subexperiments you need the taf/tamc software/license. |
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--------------------------------------------------------------- |
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--------------------------------------------------------------- |
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