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Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
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============================== |
============================== |
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o pkg/gmredi: |
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- apply exchange to GM_PsiX,GM_PsiY to get valid values near CS-corners |
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(needed for multi-dim advection). |
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- switch on GM Advective form in global_ocean.cs32x15 and update output.txt |
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o model/src: |
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- fix wrong re-setting of addMass array (ALLOW_ADDFLUID) for atmospheric run. |
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|
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checkpoint62r (2011/01/24) |
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o testreport: |
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- add option -deloutp (-do) to remove output file after successful run |
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- add option -mfile (-mf) for MPI machile-file and for each test-exp, |
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extract exact list of procs from this file ; adjust COMMAND by |
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replacing TR_MFILE & TR_NPROC with local machile-file & Nb of MPI procs. |
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o pkg/ecco: replace old ineffective way of penalizing deviations from |
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first guess (of obcs) with code by Matt Mazloff |
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o pkg/ctrl: add code that allows the use of ALLOW_OBCS?_CONTROL without |
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exf/cal |
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- ctrl_init: fix initialisation (computation of diffrec) for obcs-ctrl |
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and handle case of obcs?period == 0 |
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Not affected by these changes: There is still an inconsistency in |
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the computation of start/endrec for the obcs variables for ALLOW_CAL |
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defined (see comment by Menemenlis, 7-Mar-2003) |
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- make S/R ctrl_get_gen_rec return something meaningful even if |
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ALLOW_CAL is not defined |
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- ctrl_getobcs?: simplify code so that it does not need to use |
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S/R exf_swapfields |
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o testreport: |
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allow to test MPI with different number of processors for each experiment: |
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create file "SIZE.h.mpi" in each build dir. |
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Note: update of "-command" argument not yet implemented. |
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o model/src, pkg/autodiff, pkg/ecco, pkg/seaice: |
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alleviate the need for additional 3D tapes when using |
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the non-inear free surface in the adjoint. This is done |
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by adding an 'update' of hfacc etc. to their current |
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value at the beginning of forward_step.F. |
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o pkg/seaice |
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seaice_lsr: move stress-divergence computations out of outer pseudo- |
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timestepping loop |
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o pkg/obcs/obcs_prescribe_read.F: move 'CALL OBCS_EXTERNAL_FIELDS_LOAD' |
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up, so that the calls of the ctrl_* subroutines are really at the end |
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of the routine. |
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o pkg/gmredi: |
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allow to specify a 2-D horizontal map and a 1-D vertical profil |
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as scaling factor for Isopycnal diffusivity (Redi) and GM diffusivity. |
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o pkg/seaice: |
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move lsr iterations from seaice_dynsolver to seaice_lsr. |
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o pkg/seaice: |
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reduce memory footprint of seaice mutldim advection tapes, |
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by using a 2D tape independent of the generic_advdiff ones, |
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and setting GAD_AREA=1 etc. rather than GAD_AREA=101 etc. |
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checkpoint62q (2010/12/29) |
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o model/src: |
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- check horizontal grid-spacing for unset or zero/negative values. |
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- change AD test hs94.1x64x5 to be truly a 2-D set-up. |
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o pkg/flt: |
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- use (recent) mdsio S/R MDS_READVEC_LOC instead of local FLT_MDSREADVECTOR |
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- precision of input and output files set according to readBinaryPrec |
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and writeBinaryPrec (previously always 64.b), pickup remains at 64 bits. |
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- initial float position from tiled file was not converted to index space |
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(looks like a bug): fixed to make it similar to initial pos. global file. |
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o global_ocean.cs32x15: |
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change SIZE.h of AD set-up to get same tiling as with MPI. |
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Update output_adm, output_adm.thsice (pass@14) & output_adm.seaice (fail@11) |
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o model/src: |
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add flag to control printing of domain fields (bathymetry, hFac ...) in |
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ini_mask_etc (call to plot_fieds_xy*). |
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o pkg/thsice: |
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if useEXF, some forcing fields are not valid in overlap: fixed by computing |
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over the interior only + apply EXCH at the end (like with SEAICE advection). |
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o pkg/mdsio: |
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- add 2 arguments to S/R MDS_PASS_R4/8toRL/S for overlap size of buffer |
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to copy to/from, so that it can be used to replace MDS_PASS_WH_R8toRL/RS. |
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- change barrier call for safe multi-threads access to 3-D shared buffer. |
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- MDS_READ/WRITEVEC_LOC use buffers from MDSIO_BUFF_3D.h (instead of local ones) |
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- replace call to MDS_PASS_WH_R4/8toRL with call to MDS_PASS_R4/8toRL and |
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remove the 4 S/R MDS_PASS_WH_R4/8toRL/S. |
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o pkg/flt: |
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- add fourth-order Runge-Kutta integration |
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- add basic exch2 support (only 1 facet supported so far!) |
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o pkg/mdsio+rw: |
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new S/R to read local (or tile independent) vector (read counterpart of |
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mds_writevec_loc, and front-end write_glvec_rl/rs). |
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o global_ocean.cs32x15: additional input_ad.seaice experiment |
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that uses pkg/seaice rather than pkg/thsice. |
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(using multidim advection for seaice) |
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o towards more F95 syntax for array specification in namelist: |
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- change "data.diagnostics" (data.ptracers was changed before checkpoint62p) |
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of all verification experiments. |
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e.g.: line: fields(1,3)='ETAN ','ETANSQ ', |
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was changed to: fields(1:2,3)='ETAN ','ETANSQ ', |
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- finish adding "-DNML_EXTENDED_F77" to DEFINES list in pgf77 and g77 optfiles |
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o global_ocean.cs32x15: additional input.seaice experiment |
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that uses pkg/seaice rather than pkg/thsice. |
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checkpoint62p (2010/12/17) |
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o pkg/thsice: rename (ad tape index) iicekey as ticekey, and move it |
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to THSICE_SIZE.h to avoid conflict with pkg/seaice. |
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o pkg/seaice: add seaice_diffusion.f seaice_map_thsice.f to adjoint. |
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allow for use of multim. advection in seaice adjoint. |
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o pkg/seaice: add diagnostics for snow precipitation and sublimation flux |
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- first attempt to close budgets by taking into account the freshwater |
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flux implied by the sublimation of snow and ice. So far only the |
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volume budget is closed, turn on with soon-to-be-retired-again CPP-Flag |
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SEAICE_ADD_SUBLIMATION_TO_FWBUDGET |
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o eesupp/src: |
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new S/R with new option (NML_EXTENDED_F77) to change array specification |
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from F95 standard to commonly accepted extended F77 form. |
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This would allow to use F95 syntax in namelist (needed with gfortran 4.4.5) |
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and to revert back to the original syntax (with -DNML_EXTENDED_F77) |
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for less tolerant f77 compiler (e.g., pgf77, g77). |
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o globalFiles: |
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commented out in parameter file "data" since it's not safe with MPI |
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(e.g., wrong on aces); keep it if useSingleCpuIO=T (but not doing much |
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in this case); no longer commented out in restart test (tst_2+2). |
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o add adTapeDir to specify a special directory where adjoint tapes are |
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written/read (adread_adwrite.F). adTapeDir is specified in data/PARM05 |
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and cannot be used together with mdsioLocalDir. |
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o nesting pkgs: |
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- packages_init_variables : put call to OBCS_INIT_VARIABLES in last position |
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- update Gianmaria's Nesting pkgs (from Contrib/nesting_sannino) |
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- add parameter files + utils dir + output from short run on beagle. |
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o pkg/seaice: |
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fix seaice_growth.F store directives; update results of exp. lab_sea.ad |
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o pkg/seaice: explicitly store tsurfloc in seaice_solve4temp.F to avoid |
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unnecessary copying in adjoint code, requires new parameter NMAX_ITER |
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checkpoint62o (2010/11/25) |
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o pkg/exf: |
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- change CPP option EXF_VERBOSE to run-time logical param exf_verbose. |
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o pkg/seaice: |
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- seaice_ocean_stress: split a loop for better vectorization of the |
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adjoint code |
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- seaice_growth.F: fix bug in conservation of freshwater connected to |
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capping of heff, put contribution into d_HEFFbyNEG |
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- replace irritating parameters SEAICE_latentWater/Ice and SEAICE_sensHeat |
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by something more sensible (parameters that are what their name implies) |
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- change some defaults, so that by default exf-parameters are used for |
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things like rhoAir, cpAir,latent/sensible heat parameters, in order |
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to reproduce the old results, many data.seaice now contain funny values |
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for cpAir and latent heat of sublimation |
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o packages_readparms.F: move exf_readparms up in line so that |
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exf-parameters are visible for other packages (e.g. seaice) |
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o debugMode & debugLevel=2: |
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- differentiate between debugMode & debugLevel=2: |
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debugMode: controls printing of debug messages (sequence of S/R calls). |
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debugLevel: controls printing of algorithm intermediate results and stats. |
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- remove "if debugLevel=2 => debugMode" but keep "debugMode => debugLevel=2"; |
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=> allows to print debug-stats without all sequence of call messages. |
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- switch control of debug print from debugLevel to debugMode in many S/R. |
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o pkg/obcs (obcs-sponge): |
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fix bug that was introduced on Oct 25 (in dynamics.F v1.151): put back the |
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call to OBCS_PRESCRIBE_EXCHANGES (need to exch gU,gV when using obcs-sponge) |
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o pkg/generic_advdiff: |
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- record overlap minimum size for each advection scheme; |
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- refine criteria on overlap minimum size; |
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- check and stop (in gad_check) if overlap size is too small. |
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o pkg/obcs: |
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- with ptracers: remove multiple calls to obcs_apply_ptracer (only done |
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once, in ptracers_implicit.F) |
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- with seaice: remove test on empty file name in obcs_apply_seaice (always |
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apply OB values when tile has OB) |
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o model/src, coriolis setting: |
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- integer parameter "selectCoriMap" (=0,1,2) replaces 3 logical |
| 171 |
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useConstantF, useBetaPlaneF, useSphereF ; can now read coriolis from |
| 172 |
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files (selectCoriMap=3) with any grid. |
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- add parameter "fPrime" for constant second Coriolis coeff (default=0). |
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o pkg/seaice/seaice_growth.F: |
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a few cosmetic changes that reduce the number of lines of code |
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o pkg/obcs: add boundary conditions following Stevens (1990) |
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- the code follows old MOM/NAOSIM code |
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- so far it is only implemented for the eastern and western boundaries |
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and NOT for pTracers |
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o pkg/rbcs: |
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- replace rbcsInIter by rbcsForcingOffset, the time in seconds at the |
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beginning of the first rbcs forcing period. |
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- add option rbcsSingleTimeFiles that makes rbcs read forcing data like the |
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offline package, i.e., one file per time, labeled by iteration number; |
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deltaTrbcs sets the timestep with which the data was generated; |
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rbcsIter0 is the forcing iteration corresponding to rbcsForcingOffset. |
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- rbcsForcingCycle=0 makes forcing non-cyclic. |
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- make arithmetic safe for negative times and odd forcing periods. |
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|
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checkpoint62n (2010/11/09) |
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o pkg/seaice: |
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fix masking in free-drift S/R ; update results of exp. lab_sea.fd |
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o pkg/obcs: |
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New S/R to copy tracer value from the OB location to narrow band region |
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(width = same as overlap) beyond the OB: preserve OB value (needed for |
| 196 |
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high-order scheme) which were overwritten by EXCH call if in overlap |
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region. Applied to theta, salt, ptracer and advected seaice variables. |
| 198 |
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With seaice: use maskInC in similar way as in gad_advection.F, |
| 199 |
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in seaice_advection.F and advect.F. |
| 200 |
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Update output of experiment seaice_obcs and change exp4 to test OBCS with |
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4th order Adv.Scheme. for pasive salt and ptracer. |
| 202 |
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o tools/genmake2: |
| 203 |
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- when looking for an optfile (not specified), only search for Fortran compiler |
| 204 |
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(remove sym-link test + setting of CPP + makedepend check + C-compiler check) |
| 205 |
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- in get_fortran_c_namemangling: use "$CC $CFLAG" to compile C test programm |
| 206 |
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(instead of "$MAKE genmake_test.o" since an existing Makefile can be wrong) |
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- set default for CPP to "cpp -traditional -P" (was the case without specifying |
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an optfile, but otherwise default was just "cpp". |
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- comment out PLATFORM=$p_PLATFORM (no idea where p_PLATFORM comes from) |
| 210 |
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- when "CC" is not set in the optfile, look for possible C compiler |
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(instead of just setting CC=cc) |
| 212 |
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- put back version v.169 modif (from 2008/02/15), was dropped in v.173 changes: |
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=> add a ".F" to ".o" rule for source files with no "#include" (such as |
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port_rand.F); otherwise, default ignores FOPTIM and just uses FFLAGS. |
| 215 |
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- move gfortran before g77 in list of possible Fortran compiler (consistent |
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with reference compiler switch from g77 to gfortran) |
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o pkg/seaice: |
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o remove SEAICE_OLD_AND_BAD_DISCRETIZATION-code, add a test to |
| 219 |
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seaice_check that stops the model, when the CPP flag is used. |
| 220 |
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o seaice_growth.F: make capping of ice volume conserving by returning the |
| 221 |
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capped ice as freshwater to EmPmR. This does not change the verification |
| 222 |
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experiments but will change runs where the capping is acutally active |
| 223 |
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o change reference platform+compiler from faulks+g77 to baudelaire+gfortran |
| 224 |
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(except the 2 fizhi test exp.); update output of exp.: bottom_ctrl_5x5, |
| 225 |
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global_ocean.cs32x15 (icedyn, thsice, AD thsice), global_ocean_ebm (AD), |
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lab_sea (fd, hb87, salt_plume), MLAdjust (3/5) and vermix (dd) |
| 227 |
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o tools/genmake2: |
| 228 |
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- merge genmake_warnings & genmake_errors into 1 log file: "genmake.log") |
| 229 |
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- change DUMPSTATE default to false (can use "-ds" option to switch it to T) |
| 230 |
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- clean previous genmake log files before anything else. |
| 231 |
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- change Makefile to remove testreport log files (*.tr_log) and genmake log |
| 232 |
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files only with "CLEAN" target (instead of "Clean"); |
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o pkg/generic_advdiff: |
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Change OBCS in multiDim advection (gad_advection.F): |
| 235 |
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Use maskInC to prevent intermediate update of tracer-field in OB regions, |
| 236 |
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thus keeping current-time-step OB values; and remove the call to OBCS_APPLY |
| 237 |
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which were applying future time-step OB values. |
| 238 |
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This way, all explicit calculations use current-time-step OB values |
| 239 |
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(simpler and more consistent). |
| 240 |
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Affects results when set-up uses time-varying OBC and multi-dim advection; |
| 241 |
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update output of experiment seaice_obcs. |
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o pkg/seaice: |
o pkg/seaice: |
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move OPTIONS (formerly locally defined) to SEAICE_OPTIONS.h: |
move OPTIONS (formerly locally defined) to SEAICE_OPTIONS.h: |
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this includes SEAICE_GROWTH_LEGACY (+ SEAICE_DO_OPEN_WATER_GROWTH & |
this includes SEAICE_GROWTH_LEGACY (+ SEAICE_DO_OPEN_WATER_GROWTH & |
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