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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/seaice: add diagnostics for snow precipitation |
o pkg/ptracers (adjoint) |
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New option AUTODIFF_PTRACERS_SPLIT_FILES for writing separate |
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tape file for each tracer |
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o model/inc/scr and pkg/autodiff: add parameters that allow to turn |
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of parts of the adjoint code at run time. For now, there are only |
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useKPPinAdMode, useGMrediInAdMode, and useSEAICEinAdMode. These |
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parameters are set in data.pkg. |
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This is the lazy coward's version of doing this, but still useful for |
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debugging. In order to do it right, everything needs to be moved to |
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pkg/autodiff. |
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o pkg/autodiff: fix global_sum_tile_ad.F by resetting adsumPhi at |
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the end; this fixes the adjoint balancing code for open boundaries. |
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o pkg/ctrl: |
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- change behavior of xx_${varname}period to be analogous to exf-conventions: |
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xx_${varname}period = 0., means time-independent control part |
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xx_${varname}period = -12., means one-year-periodic monthly control part |
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- introduce helper routine ctrl_init_rec (part of ctrl_init.F) to |
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clean up ctrl_init a little, remove unused variables |
| 25 |
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- ctrl_init: fixed the handling of the start/endrec for obcs-variables |
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- move "call cal_GetMonthsRec" from s/r ctrl_get_gen to s/r ctrl_get_gen_rec |
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|
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checkpoint62u (2011/03/15) |
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o model/src: |
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- for the adjoint, change NonLin-FreeSurf initialisation sequence: fill-in |
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h0Fac from INITIALISE_FIXED and reset hFac to h0Fac in INITIALISE_VARIA ; |
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- in initialise_varia.F (except for ALLOW_DEPTH_CONTROL) remove 2nd call to |
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INI_DEPTHS, INI_MASKS_ETC & INI_LINEAR_PHISURF. |
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o pkg/ctrl/obcs/ecco: |
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- remove obsolete, unused, and partially broken code: |
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ctrl_obcsvol/ctrl_obcsbal/ctrl_volflux and code within |
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ALLOW_CTRL_OBCS_BALANCE |
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- put a stop statement into ecco/cost_obcsvol.F, but also add |
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cost_obcsvol to ecco_ad_diff.list |
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o pkg/ecco: fix counting cost function contributions for obcs (code |
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by Matt M.) and diffkr for diagnostics |
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o pkg/ecco, pkg/ctrl, pkg/grdchk: |
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add cost penalty terms for initial uvel, vvel, eta controls |
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and I/O for prior error files |
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o pkg/mdsio: |
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move mds_check4file.F from eesupp/src to mdsio_check4file.F ; add option |
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(new argument) to check for tiled file in mdsioLocalDir : this fix the |
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restart from pickup_som , pickup_dic (& dic_co2atm) with mdsioLocalDir. |
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o pkg/ctrl: |
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- ctrl_obcsbal.F, ctrl_obcsvol.F: replace last calls of ctrl_getrec by |
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ctrl_get_gen_rec, put a stop statement into ctrl_getrec. Remove |
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unused and superfluous variables |
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- ctrl_get_gen_rec.F: catch the case of xx_genperiod=0. |
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o pkg/ecco |
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- enable adjoint of Stevens OB |
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o pkg/ctrl/ecco/grdchk: |
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- remove global declaration of tmpfldx/yz and tmpfldx/yz2. |
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Fortunately, we do not have any tests for the numerous cpp-flagged |
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option of "obcs as control parameters" so we will never know |
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if this is an improvement (but at least now things compile). |
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- remove an obsolete initialization from ecco_cost_init_barfiles.F |
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- fix some problems within never used ifdefs to make the code compile |
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o pkg/obcs: |
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- Refine Interior mask definition to work with more complex OB (e.g. |
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if OB_Ie < OB_Iw); In case default setting is not sufficient, allows to |
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read in Interior mask from file. Check if Interior mask is consistent |
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with OB list of indices. |
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o pkg/seaice |
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- beginning code for a seaice tracer package, |
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but currently only used for seaice age: SEAICE_AGE |
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SEAICE_num = 4 |
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iTracer = 1: area-weighted ice age |
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= 2: volume-weighted ice age |
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= 3, 4: template for one-year vs. multi-year ice |
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data.seaice has new namelist SEAICE_PARM03 for arrays related to |
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SEAICE_num |
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checkpoint62t (2011/03/05) |
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o pkg/obcs: |
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- obcs_apply_uv.F: change to a 2 steps method, first tangential component; |
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then normal component. This ensures that the normal component is set |
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correctly even when it conficts with tangential setting from an other OB. |
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Affects results of test-experiment seaice_obcs: update the output.txt |
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o pkg/obcs: |
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- add code to monitor statistics of dynamical fields at OB. |
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- take OBCS_BALANCE code out of obcs_calc.F into new S/R OBCS_BALANCE_FLOW : |
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- fix to OBCS_BALANCE code (right hFac ; deal with simple OB intersection). |
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- change default: balance the Net inflow through all OB (instead of balancing |
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each OB separately); keep the old method if setting OBC_balanceFacX < 0. |
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- switch on useOBCSbalance in dome experiment: only correct Western OB outflow |
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to match Nortern OB inflow (OBCS_balanceFacN=0). |
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o pkg/seaice: |
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- redefined actual sea ice age to be ICEAGE/HEFF ifdef SEAICE_AGE_VOL |
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o pkg/seaice (seaice_growth v 1.113): |
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- reverting seaice_growth to v 1.111 in order to have code with exact bit |
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compatibility with MITgcm_contrib/ifenty/Fenty_seaice_thermo_code_merge |
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CPP option SEAICE_OCN_MELT_ACT_ON_AREA removed in v 1.112 is reintroduced |
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runtime flag SEAICEareaFormula is kept but is inactive |
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o model/src: |
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- add new param to scale curvilinear grid distance and area when using |
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a different sphere radius from the grid-files. |
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- test/check multi-threads EXCH applied to local variable (cg2d_x) |
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o adjoint: |
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- enable adjoint of Stevens OB |
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- add dummy_in_dynamics to enable extraction of ADJrhoinsitu |
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(a bit delicate because of potentially modified adj. common block structure; |
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current switch is ALLOW_AUTODIFF_MONITOR_DIAG, could be changed later) |
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checkpoint62s (2011/02/15) |
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o pkg/seaice (seaice_growth v 1.112): |
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- introduce SEAICEareaFormula run time parameter, which selects the recipe for |
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computing the ice cover tendency from effective thickness tendencies. Include |
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Ian Fenty's formula. |
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- remove 'undef SEAICE_OCN_MELT_ACT_ON_AREA' which may now be achieved using |
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SEAICEareaFormula. |
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- simplify notations for the various d_HEFF/d_AREA terms. |
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o pkg/gmredi: |
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- add Boundary-Value-Problem bolus transport (Ferrari etal, OM 2010) code |
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from Christopher Wolfe (UCSD); add partial cell factor in vertical derivative; |
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add a verification test-run (front_relax.bvp) to test GM_useBVP. |
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o pkg/seaice (seaice_growth v 1.111): |
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- for SEAICE_DO_OPEN_WATER_GROWTH, replace Gael's implementation with Ian's. |
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- the new SEAICE_DO_OPEN_WATER_MELT allows open-water air-sea heat fluxes to |
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also melt ice. |
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o pkg/seaice: |
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- McPhee formula for Ice-Ocean fluxes (provided by Ian Fenty). |
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- can be used by #define MCPHEE_OCEAN_ICE_HEAT_FLUX in SEAICE_OPTIONS.h |
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o pkg/cheapaml: |
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- from Nico Wienders: New version of this package. |
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o pkg/flt: |
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- add CPP options to prevent floats to re-enter the opposite side of |
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a periodic domain (default: keep periodicity) |
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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. |
| 139 |
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o tutorial_tracer_adjsens |
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- extend to NLFS and replace maskC by hFacC |
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(change reference output accordingly) |
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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) |
| 158 |
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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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|
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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. |
| 195 |
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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. |
| 199 |
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Update output_adm, output_adm.thsice (pass@14) & output_adm.seaice (fail@11) |
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o model/src: |
| 201 |
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add flag to control printing of domain fields (bathymetry, hFac ...) in |
| 202 |
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ini_mask_etc (call to plot_fieds_xy*). |
| 203 |
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o pkg/thsice: |
| 204 |
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if useEXF, some forcing fields are not valid in overlap: fixed by computing |
| 205 |
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over the interior only + apply EXCH at the end (like with SEAICE advection). |
| 206 |
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o pkg/mdsio: |
| 207 |
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- add 2 arguments to S/R MDS_PASS_R4/8toRL/S for overlap size of buffer |
| 208 |
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to copy to/from, so that it can be used to replace MDS_PASS_WH_R8toRL/RS. |
| 209 |
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- change barrier call for safe multi-threads access to 3-D shared buffer. |
| 210 |
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- MDS_READ/WRITEVEC_LOC use buffers from MDSIO_BUFF_3D.h (instead of local ones) |
| 211 |
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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 |
| 215 |
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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 |
| 218 |
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mds_writevec_loc, and front-end write_glvec_rl/rs). |
| 219 |
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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) |
| 222 |
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o towards more F95 syntax for array specification in namelist: |
| 223 |
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- change "data.diagnostics" (data.ptracers was changed before checkpoint62p) |
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of all verification experiments. |
| 225 |
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e.g.: line: fields(1,3)='ETAN ','ETANSQ ', |
| 226 |
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was changed to: fields(1:2,3)='ETAN ','ETANSQ ', |
| 227 |
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- finish adding "-DNML_EXTENDED_F77" to DEFINES list in pgf77 and g77 optfiles |
| 228 |
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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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|
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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. |
| 234 |
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o pkg/seaice: add seaice_diffusion.f seaice_map_thsice.f to adjoint. |
| 235 |
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allow for use of multim. advection in seaice adjoint. |
| 236 |
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o pkg/seaice: add diagnostics for snow precipitation and sublimation flux |
| 237 |
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- first attempt to close budgets by taking into account the freshwater |
| 238 |
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flux implied by the sublimation of snow and ice. So far only the |
| 239 |
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volume budget is closed, turn on with soon-to-be-retired-again CPP-Flag |
| 240 |
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SEAICE_ADD_SUBLIMATION_TO_FWBUDGET |
| 241 |
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o eesupp/src: |
| 242 |
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new S/R with new option (NML_EXTENDED_F77) to change array specification |
| 243 |
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from F95 standard to commonly accepted extended F77 form. |
| 244 |
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This would allow to use F95 syntax in namelist (needed with gfortran 4.4.5) |
| 245 |
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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: |
o globalFiles: |
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commented out in parameter file "data" since it's not safe with MPI |
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 |
(e.g., wrong on aces); keep it if useSingleCpuIO=T (but not doing much |
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