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revision 1.1555 by mlosch, Tue Dec 20 10:06:51 2011 UTC revision 1.1639 by jmc, Fri Mar 30 18:48:32 2012 UTC
# Line 4  $Name$ Line 4  $Name$
4      Notes on tags used in MITgcmUV      Notes on tags used in MITgcmUV
5      ==============================      ==============================
6    
7  o pkg/exf/exf_radiation.F: add the factor ocean_emissivity to lwdown, for  o eesupp/src:
8      - PRINT_MESSAGE: use OpenMP critical instruction (similar to PRINT_ERROR);
9        writing to unit 0 (if unit=errorMessageUnit) extended to the case myThid=1
10      - CHECK_THREADS: specific code if using OpenMP threading: improve checking of
11        # of threads across processors (e.g., different env OMP_NUM_THREADS setting)
12      - improve special preliminary call to EESET_PARMS (if eedata is read 2 times).
13      - when using MPI, always set usingMPI=T ; set default accordingly and stop
14        if not consistent.
15      - ALL_PROC_DIE: add a BARRIER after MPI_FINALIZE call ; skip this when thread
16        argument is zero (in case called within single-thread section).
17    o pkg/fizhi:
18        clean-up turbulence cold-start switch: decided in fizhi_init_vars.F, stored
19        in common bloc (fizhi_coms.h) and then passed as argument up to S/R TURBIO.
20    o pkg/exch2:
21      - add argument "updateCorners" to S/R exch2_get_uv_bounds (enable to
22        activate EXCH_IGNORE_CORNERS in vector EXCH S/R).
23      - switch 1rst EXCH call to IGNORE_CORNERS (instead of UPDATE_CORNERS)
24        but keep the 2nd with UPDATE_CORNERS: this prevents overwriting good data
25        with bad ones coming from a not-yet-updated halo.
26        This should fix the problem when sNx <> sNy and GCD(sNx,sNy) < 2*Olx.
27    o pkg/frazil:
28        move FrzForcT diag from frazil_diagnostics_state.F to frazil_calc_rhs.F
29        http://mitgcm.org/pipermail/mitgcm-devel/2012-March/005384.html
30    o model/src/config_check.F: add a check for OLx>sNx/OLy>sNy
31    o verification/lab_sea
32      * #undef SEAICE_EXCLUDE_FOR_EXACT_AD_TESTING
33      * #define ALLOW_SST_CONTROL & ALLOW_SST_CONTROL
34      * nTimeSteps 3 -> 4
35      * changed reference output accordingly
36    o pkg/ctrl:
37      * fix ctrl_get_gen for xx_sst, xx_sss
38    o pkg/fizhi:
39      - fix 2 calls to S/R GRD2MSC (argument igrd) in update_earth_exports.F
40        update results of exp. fizhi-cs-32x32x40 (fail with only 6 digits for cg2d)
41      - by default, use new version of S/R GETPWHERE (#define TRY_NEW_GETPWHERE);
42        fix few out-of-bounds indices in referencing vars (initialise igrd to 1);
43        clean-up fizhi_turb.F (remove unused & uninitialised qdiaglsm array).
44    o pkg/gmredi:
45      - add diagnostic of Redi (main diagnonal) vertical diffusive flux of Temp
46    o pkg/fizhi:
47      - fix few initialisation and multi-tile Pb: aqualev & gridalt now pass the
48        (old)aces open64 tuv test.
49    o pkg/icefront: fix bug and reorder loop in icefront_init_varia.F
50    o pkg/mom_vecinv:
51      - fix 1 loop range in mom_vecinv.F to be like all the other loops which
52        set/update gu,gv/Diss (fix Pb of uninitialised fVerUkp in admom_vecinv
53        with non-lin free-surf).
54    o model/src: move k-loop outside of i/j-loops when (re-)computing R_low
55      in ini/update_masks_etc.F in order to avoid -O3 optimization problems with
56      some compilers (gfortran 4.6.0 on MacOS)
57    o momentum:
58      - separate fVer?(:,:,kUp) & fVer?(:,:,kDown) in argument list of MOM_FLUXFORM
59        & MOM_VECINV subroutines (to help TAF). This fixes Pb of uninitialised
60        fVer?(kUp) in admom_fluxform with non-lin free-surf or bottom control.
61    
62    checkpoint63k (2012/03/17)
63    o model/src:
64       - selectAddFluid (ALLOW_ADDFLUID): add missing term in horizontal momentum
65         flux-form (mom_fluxform.F) and vertical momentum (calc_gw.F) equations.
66       - SOLVE_DIAGONAL: switch default to use adjoinable & vectorized version
67         (#undef SOLVE_DIAGONAL_LOWMEMORY); update output of exp. front_relax.bvp.
68    o model/src: solve_*diagonal.F
69       - replace division with multiplication by inverse (similar to original version)
70         update output of AD exp. global_ocean.90x40x15.
71       - fix pkg/gmredi/gmredi_calc_psi_bvp.F & pkg/ggl90/ggl90_calc.F
72         to enable the use of the vectorized & differentiable solve_tridiagonal.F
73       - test exp. global_ocean.90x40x15/input_ad: switch to advection scheme 20 for
74         vertical advection (to get solve_tridiagonal tested in AD mode).
75    o pkg/seaice: ECCO-CLIVAR merge:
76      1. seaice AREA relaxation
77         * CPP option: SEAICE_ALLOW_AREA_RELAXATION
78         * runtime flag: SEAICE_tauAreaObsRelax
79      2. modified global mean cost imbalance code: CPP option
80          ALLOW_SSH_GLOBMEAN_COST_CONTRIBUTION
81    o another iteration on solve_*diagonal.F
82       Make choices independent of AUTODIFF
83       Default will be the adjoinable vectorized version.
84       Alternative choices are:
85       * non-adjoinable original version with low memory footprint:
86         #define SOLVE_DIAGONAL_LOWMEMORY
87       * still adjoinable but does not vectorize (k as inner-most loop):
88         #define SOLVE_DIAGONAL_KINNER (keeping SOLVE_DIAGONAL_LOWMEMORY undef)
89    o testreport
90     - add option to use a home made wrapper around "make"
91     - remove MITGCM_IEEE env. variable (no longer active)
92    o pkg/shelfice
93     - improve computation of friction velocity for velocity dependent
94       exchange coefficients: include velocities into SHELFICEBoundaryLayer
95       block to average velocities vertically
96     - add TAF store directives for SHI_ALLOW_GAMMAFRICT
97    o Modify diagonal solvers, now three versions (upon request):
98      #ifndef SOLVE_DIAGONAL_AUTODIFF
99        1. default version (dating back a while ago)
100      #else /* def SOLVE_DIAGONAL_AUTODIFF */
101      # ifdef SOLVE_DIAGONAL_KINNER
102        2. adjoinable version with k-innermost loop (G. Forget)
103      # else
104        3. adjoinable vectorized version of 2.
105      # endif
106      #endif /* SOLVE_DIAGONAL_AUTODIFF */
107      All flags are currently set within routines, but could/should be moved to CPP-options.
108      Array bounds for 1. are as before, for 2.,3. cover the entire domain
109      (could be changed for 1. too).
110    o verification/lab_sea (fwd):
111      - update the 4 fwd lab_sea test experiment: no longer SEAICE_GROWTH_LEGACY,
112        use 7 categories (except hb87), new solve4temp params (except salt_plume),
113        constant salinity (=4) or variable salinity (salt_plume) done through
114        SItracer.
115    o pkg/seaice:
116      - rename parameters: SIsalFrac to SEAICE_saltFrac & SIsal0 to SEAICE_salt0;
117      - remove old parameters ( SEAICE_freeze, SEAICEturbFluxFormula, SEAICE_gamma_t,
118         SEAICE_gamma_t_frz, SEAICE_availHeatTaper & SEAICE_availHeatFracFrz)
119        from SEAICE_PARMS.h ; still need to fix seaice_cost_sst.F (broken when
120        SEAICE_freeze got retired) but already better than previously with
121        SEAICE_freeze=123456.7 deg.C;
122      - move setting of facOpenGrow/Melt from SEAICE_INIT_FIXED to SEAICE_READPARMS
123        (safer multi-threaded setting); always set SEAICEuseEVP;
124      - setting of ocean-ice turb. flux coeff: moved from SEAICE_CHECK to
125        SEAICE_READPARMS & SEAICE_INIT_FIXED (this fixes wrong summary report);
126        stop if multiple specifications for the same coeff; make sure default
127        SEAICE_mcPheePiston is compatible with drF(1) & deltaT.
128    o pkg/obcs:
129      - allow to switch to upwind 1rst order advection scheme for the advective
130        flux computation at the open-boundary; disabled for adjoint built.
131    o pkg/ptracers:
132      - rename PTRACERS_RESTART.h -> PTRACERS_START.h
133      - rename ptracers_fields_blocking_exchanges.F -> ptracers_fields_blocking_exch.F
134      - add parameter to decide when to start a tracer; use internal flag to
135        know which tracer to step-forward; switch this internal flag at the top
136        of forward_step.F (new S/R PTRACERS_SWITCH_ONOFF); for now, not enabled
137        for adjoint built.
138    o pkg/seaice:
139      - add SEAICE_SIZE.h anywhere in the code where SEAICE.h is included ;
140      - move MULTDIM declaration and setting from SEAICE.h to SEAICE_SIZE.h ;
141      - keep experiment offline_exf_seaice truly single category (set MULTDIM=1).
142    o pkg/ecco:
143      - fix writing of output file DiagnosCost_ClimSalt/Theta
144        and DiagnosCost_DriftSalt/Theta (if multi-tiles per proc).
145    o pkg/seaice:
146      - add missing initialisation of COR_ICE array in dynsolver.F
147      - merging SEAICE_MULTICATEGORY define and undef cases. Now the same code is
148        compiled either way, and is tested in all exps (multidim was only tested
149        in lab_sea ad before).
150      - cosmetic change to prepare for future addition of ITD. no change to results.
151        no defaults change.
152      - added run time param SEAICE_multDim (7 for SEAICE_MULTICATEGORY, 1 otherwise).
153      - by lack of adequate verification experiments, I further used custom versions
154        of global_ocean.cs32x15 to test multicat or not, with pickup or not. All
155        should be correct.
156      - avoid recomputations in ad.
157    o array initialisation in adjoint mode:
158      1) pkg/mom_common/mom_calc_ke.F:
159        add full array initialisation of KE inside mom_calc_ke.F (ALLOW_AUTODIFF_TAMC):
160        The S/R which calls MOM_CALC_KE initialises KE but in some recomputation
161        part this initialisation is gone, resulting in Floating Point Exception
162        (caught by open64 compiler with debug option).
163      2) model/src/convective_weights.F
164        set output convectCount over the full array range (instead of doing
165        an update): this fix a similar issue when called within recomputation (adjoint)
166        which could by-pass the initialisation (normally done in the caller S/R).
167    o pkg/seaice:
168      - final version of turbulent flux params, as agreed at MIT ice meet:
169           SEAICE_mcPheePiston (default is ~ 0.000875)
170           SEAICE_mcPheeTaper (default is 0.)
171           SEAICE_frazilFrac (defualt is 1.)
172           SEAICE_mcPheeStepFunc (default is false)
173      - changes results at trunction error level
174      - ifdef SEAICE_EXTERNAL_FLUXES, disallow SEAICE_waterAlbedo
175    o added pkg/frazil:
176      - see frazil_description.tex for details
177      - verification experiment is global_with_exf/input.yearly; changes output.yearly.txt
178    o pkg/shelfice/shelfice_thermodynamics.F
179      - fix exponents for velocity dependent exchange coefficients: change
180        from 2/3(=0) to 0.66666666666666667
181      - move computation of velocity dependent exchange coefficients into
182        separate loop, so that it applies to both thermodynamics
183      - move some divisions by constants out of loops
184    
185    checkpoint63j (2012/02/16)
186    o pkg/seaice:
187      - overhaul of seaice_summary.F after feb 2012 clean-up of seaice_growth.F etc.
188      - SItracer:  added run time params, and allow coupling to ocn salinity.
189    o pkg/seaice: remove (almost) all divisions by constants within loops
190      in seaice_growth.F and seaice_solve4temp.F, this changes (only) the cg2d
191      results of global_ocean.cs32x15.seaice from 16 to 11 digits (but only
192      those, caused by 1/QI -> recip_QI) -> update output.seaice.txt,
193      output_adm.seaice_dynmix.txt and also lab_sea: output_adm.evp.txt
194    o pkg/seaice :
195      - simplify McPhee tapering, and allow to use it with SEAICEturbFluxFormula
196        = 1 or 2, using newly added run time parameter SEAICE_availHeatTaper.
197      - fix d_AREAbyATM, d_AREAbyOCN, d_AREAbyICE diags I broke in r1.148.
198      - add permanent SItflux diag that corresponds to TFLUX but includes
199        ice+snow. Hence SItflux-TFLUX should match the ice+snow heat budget.
200      - allow activation/testing of a fix for suspected missing term in
201        ocn-ice heat budget (to be confirmed). To test this, you want to
202        undef SEAICE_DISABLE_HEATCONSFIX, and then set the run time param
203        SEAICEheatConsFix to .TRUE. that also allows the 'SIaaflux' diagnostic.
204      - no change in results, fwd or ad.
205    o global_ocean.cs32x15/results: 3 changes following from the pkg/seaice commit below:
206      - switch to variable freezing point.
207           Results change : cg2d -> 1 digits; ad -> 3-6-6 digits.
208      - bug fix : the sublimation term that was missing is now activated.
209           Results change : cg2d -> 2 digits; ad -> 8-6-6 digits.
210      - bug fix : flooding sign term for SIsal0.NE.0.
211           Result change : cg2d -> 8 digits; ad -> 11-12-9 digits.
212    o pkg/seaice:
213      - unified freezing point treatment : the old SEAICE_VARIABLE_FREEZING_POINT
214        is now the default, and the old default constant freezing point is recovered
215        with SEAICE_tempFrz0    = -1.96,
216             SEAICE_dTempFrz_dS = 0.,
217      - retire SEAICE_freeze (= the old way of specifycing the constant freezing point)
218      - remove ALLOW_SEAICE_FLOODING brackets; run time switch is already there.
219      - bug fix (thanks to M. Losch) : the sublimation term that was missing is now
220        activated. To reproduce old results with this bug define SEAICE_DISABLE_SUBLIM.
221      - bug fix (silly me) : flooding sign term (seaice_growth.F r 1.149line 1211)
222        was wrong for SIsal0.NE.0. Changes cs32x15 results (see above item for detail).
223      - bug fix (thanks to O. Jahn) : area loss for melting  got messed up in
224        seaice_growth r149 for legacy branch (no results change).
225      - introduce SEAICE_CAP_SUBLIM : caps sublimation heat flux in solve4temp (code
226        from I. Fenty).
227      - results did not change except for global_ocean.cs32x15, mostly due to the
228        switch to variable freezing point (see above item for detail).
229    o pkg/thsice:
230      - fix and simplify interface to salt_plume pkg ; diagnose directly amount of
231        seawater freezing in thsice_calc_thickn (not used).
232    o pkg/seaice: turbulent flux term specification via run time params.
233      - replace CPP switches with run time switches to facilitate testing
234      - retired CPPs : MCPHEE_OCEAN_ICE_HEAT_FLUX,
235                       GRADIENT_MIXED_LAYER_TURBULENCE_FACTOR
236      - added runtime parameter : SEAICEturbFluxFormula
237      - move Mcphee constants to SEAICE_PARAMS.h
238      - seaice_readparms.F : read turbulent flux term params (SEAICEturbFluxFormula;
239                 SEAICE_availHeatFrac/Frz, or SEAICE_gamma_t/_frz if apply);
240                 remove seaice_summary call (moved to seaice_init_fixed)
241      - seaice_init_fixed.F : set SEAICE_availHeatFrac/Frz depending on
242        SEAICEturbFluxFormula, and seaice_summary call (moved from seaice_readparms)
243      - seaice_summary.F : add missing report of read turbulent flux term set up
244                           and SITRACER.
245      - seaice_check.F : check range; inform and stop if retired CPPs are used
246                         (incl. SEAICE_AGE).
247      - seaice_growth.F : unified use of SEAICE_availHeatFrac/Frz, without
248             CPP switch, same computation as before for the different options.
249      - change results at the truncation level.
250    o pkg/seaice:
251      - remove un-used parameters LAD & MAX_TICE ; add new run-time parameters:
252        useMaykutSatVapPoly (default=F), postSolvTempIter (default=2) and
253        SEAICE_wetAlbTemp (default=-1e-3). Remove option SEAICE_SOLVE4TEMP_LEGACY.
254      - update verification/*/input*/data.seaice:
255        to reproduce previous results with former #defined SEAICE_SOLVE4TEMP_LEGACY
256        code, set useMaykutSatVapPoly=T & postSolvTempIter=0 ;
257        and to reproduce previous results with former non-SOLVE4TEMP_LEGACY code,
258        set SEAICE_wetAlbTemp=0 & SEAICE_snowThick=0.
259    o pkg/seaice/seaice_solve4temp.F (SOLVE4TEMP_LEGACY):
260      - remove LEGACY code for solving for tsurf (A1,A2,A3) but maintain the same
261        algorithm (same choice: useMaykutPolySatVap=T, postSolvTempIter=0);
262        difference in results only due to machine truncation.
263      - remove MAX_TICE (tsurf is always =< TMELT anyway); keep MIN_TICE if using
264        MaykutPolySatVap; keep MIN_LWDOWN.
265      - adapt SEAICE_MODIFY_GROWTH_ADJ code (untested) to non-legacy formulation.
266      - update output of verification exp. lab_sea (4 fwd: 11 cg2d digits except hb87,
267        + 3 AD: 6 digits except evp) and offline_exf_seaice.seaice (12 digits).
268    o pkg/salt_plume:
269      - isolate saltPlumeFlux array exch into a specific S/R called from
270        do_oceanic_phys.F
271      - add interface to pkg/salt_plume (filling of saltPlumeFlux) in pkg/thsice.
272    o verification:
273      - move untested set-up to MITgcm_contrib/verification_other.
274    o pkg/seaice:
275      - retire old way of SEAICE_AGE. Now replaced with ALLOW_SITRACER.
276    o pkg/seaice:
277      - seaice_solve4temp.F (keeping results unchanged):
278        * add 2 future run-time params to select which saturation vapor pressure
279          formula is used and how post-iteration fluxes are set.
280          Temporary set these 2 params according to option SOLVE4TEMP_LEGACY;
281        * New piece of code (not used) to update surf. atmos. heat flux F_ia using
282          the linearized expression to stay consistent with tsurf finding.
283      - seaice_freedrift.F avoid floating exception in sqrt(y) since y=sqrt(x*x)-x
284        can be < 0.
285    o pkg/seaice/seaice_solve4temp.F (SOLVE4TEMP_LEGACY undef):
286      - remove from F_ia (and from it's derivative dFiDTs1) the contribution of
287        conductive heat flux F_c , and add it explicitly when updating tsurf as
288        solution of: Fc = Fia + d/dT(Fia - Fc) *delta.tsurf
289        so that now F_ia has a consistent meaning through the entire routine.
290        This causes differences at truncation level: update output of fwd exp.
291        global_ocean.cs32x15.seaice.
292    o pkg/seaice:
293      - lots of editing/cleaning in seaice_solve4temp.F + better documentation
294        of arrays, sign/direction of fluxes; no effect on results.
295      - replace hard coded 273.16 (=previous value of celsius2K) by celsius2K
296        in seaice_budget_ocean.F & seaice_solve4temp.F (SOLVE4TEMP_LEGACY part);
297        note: this should have been done before changing celsius2K default.
298      - to keep results unchanged, add back old value of celsius2K in verification
299        exp. input*/data : lab_sea (AD), offline_exf_seaice (fwd+AD) & seaice_obcs
300      - replace hard coded seawater freezing temp in seaice_solve4temp.F (part
301        SOLVE4TEMP_LEGACY) of 271.20 (=previous value of celsius2K + default
302        value of SEAICE_freeze) by celsius2K+SEAICE_freeze so that seawater
303        freezing temp is consistent with value in seaice_growth.F ; this causes
304        differences at machine truncation level: update lab_sea AD output (3/4).
305    o pkg/seaice:
306      - mask (in exf_init_fixed.F) atemp,aqh,evap,precip,runoff,lwflx,areamask
307        and climsst/sss even when using seaice (to prevent calculation that might
308        use SST on land); does not affect any verification exp.
309      - apply mask to taux,tauy (in seaice_get_dynforcing.F); update output
310        of lab_sea.fd & lab_sea.hb87 and global_ocean.cs32x15.seaice_dynmix.
311    o pkg/seaice/seaice_growth.F: add mask to avoid non-zero ice thickness
312      over land (non-legacy code)
313    o vectorize salt_plume package:
314      - add extra code to salt_plume_frac and salt_plume_tendency_apply_s
315      - this code computes plumebk everywhere (also over land), thus requires
316        code to avoid divisions by zero and catch the case of kLev=Nr.
317      - efficiency of salt_plume_frac is still sub-optimal
318    o tools (genmake2):
319      - fix makefile NAME specification (option: -makefile NAME) by adding
320        "-f $MAKEFILE" in few places where it was missing including makedepend
321        command (contribution from Paul).
322    
323    checkpoint63i (2012/01/24)
324    o model/src:
325      - add factorized versions of some EOS code to find_rho.F,
326        define USE_FACTORIZED_EOS to turn it on (default for TARGET_NEC_SX)
327    o model/src:
328      - add celsius2K to namelist PARM01; remove unused recip_rhoNil from PARAMS.h;
329      - change default celsius2K from 273.16 to 273.15
330      - to keep results unchanged, add back old value of celsius2K in verification
331        exp. input*/data : aim.5l_cs, 1D_ocean_ice_column, lab_sea (fwd),
332         global_ocean.cs32x15(seaice) & cpl_aim+ocn(input_atm).
333    o model/src: add a little initialisation trick to find_rho.F and find_alpha.F
334      to make TAF generate vectorizable code
335    o pkg/seaice/seaice_evp.F: add code (copied from CICE) that avoids underflows.
336       Turn on by defining SEAICE_EVP_ELIMINATE_UNDERFLOWS. Most compilers
337       have flags that do this more efficiently.
338    o pkg/diagnostics/diagstats_calc.F
339      - for TARGET_NEC_SX fix the treatment of the scaling factor tmpFac=scaleFact
340    o pkg/obcs (with exch2):
341      - derive OB indices in overlap region from OB-InsideMask (in obcs_init_fixed.F)
342        and remove code (in obcs_readparms.F) which was based on EXCH of indices
343        (through buffer) and did not account for exch2 (e.g., CS-grid) topology.
344    o pkg/exf and seaice exp:
345      - change offline_exf_seaice.seaicetd test exp. to use default DIFF1 value (=0)
346        so that switching off area & heff advection flags does not affect results.
347      - change default EXF_LWDOWN_WITH_EMISSIVITY to #define in EXF_OPTIONS.h
348      - keep exp. seaice_obcs & 1D_ocean_ice_column(ad) unchanged (using #undef
349        EXF_LWDOWN_WITH_EMISSIVITY) and, using pkg/exf default emissivities, update
350        results of verification experiments: 1D_ocean_ice_column(fwd),
351        global_ocean.cs32x15.seaice(fwd+ad) & seaice_dynmix(ad), lab_sea (all 8)
352        and offline_exf_seaice (all 4).
353    o pkg/seaice:
354      - remove array YNEG, RIVER, TMIX (replaced by local var) from common block;
355        remove also areaNm1 & hEffNm1 when SEAICE_GROWTH_LEGACY is undef.
356      - fix bug: areaNm1 & hEffNm1 are needed in seaice_growth (SEAICE_GROWTH_LEGACY)
357        but were not filled when resp. SEAICEadvArea=F & SEAICEadvHeff=F and
358        not multi-dim advection;
359      - fix seaice_growth.F to compile with both SEAICE_GROWTH_LEGACY and
360        SHORTWAVE_HEATING #undef.
361    o optim: make Makefile more robust (?)
362    o pkg/obcs:
363      * fix treatment of obcs_read_pickup for TAF
364    o pkg/shelfice:
365      * add missing initialisation of num_shifwflx
366      * new adjoint verification exp. for isomip
367      * change Prandtl and Schmidt numbers from generic formulations
368        (in terms of model diffus. and visc.) to separate runtime
369        parameters, with Holland and Jenkins (1999) default values.
370    o pkg/exf (interpolation):
371      - extended input field (2 rows) near the N & S poles:
372        * fill in with the symetric value (when even Nb of data in longitude)
373        * add average value at the poles only for scalar quantities ; for vector
374          component interpolation, skip the averaging and keep duplicated values,
375          unless the 2 components have same location (uvInterp=T) in which case
376          interpolate the 2 components together using S/R EXF_INTERP_UV.
377      - new S/R EXF_INTERP_UV to interpolate the 2 components of a vector field
378        together: this allows to account properly for local orientation when
379        averaging at N & S pole.
380      - add CPP option EXF_USE_OLD_INTERP_POLE to recover old results regarding
381        exf-interpolation near N & S poles. Undef by default.
382      - add debug check/print on 1rst iter if debugLevel >=2.
383    o pkg/exf:
384      - change masking flags definition (no longer "parameter"), put them in
385        common block and set them in S/R EXF_INIT_FIXED.
386      - change recognized masking flag from s,u,v to c,w,s since the mask
387        to use (maskC,W,S) depends on position on model grid and has little to
388        do with scalar/vector difference; fix masking if using P-coordinates.
389      - fix masking of wind-stress (was wrong if interpolated or read on A-grid)
390        and update results of exp. global_with_exf (x2).
391      - fix setting of zenith-angle table when SHORTWAVE_HEATING is undef.
392    o pkg/obcs
393      - S/R obcs_calc_stevens: fix a small bug (gammat -> gammas where appropriate)
394    o pkg/exf (interpolation):
395      - assume periodicity in X only if input field cover full longitude range.
396      - improve search for lat. index (supposed to be faster, in ~log2(ny) steps,
397        and should vectorise).
398      - fix input lat of the 2 added row (in case we provide N.pole data).
399    
400    checkpoint63h (2011/12/30)
401    o pkg/seaice:
402      - change declaration of UVM from _RL to _RS in order to get B-grid
403        uIce,vIce monitor when _RS = real*4
404    o pkg/offline:
405      - new S/R OFFLINE_RESET_PARMS for resetting main-model params (switch off flags);
406      - compute vertical velocity if not read from file (switch on exactConserv
407        & staggerTimeStep);
408      - fix output of ptracer monitor iter & time for default PTRACERS_monitorFreq.
409    o verification:
410      - update grid-files (in tutorial_held_suarez_cs/input and fizhi-cs-32x32x40/input)
411        with grid-angle generated using "utils/matlab/cs_grid/cubeCalcAngle.m":
412        fix Pb in yG definition @ 2 missing corners (previously yG was averaged);
413      - update output of exp. global_ocean.cs32x15.viscA4 after changing
414        grid-file angles (used here for coriolis-3d);
415      - remove (or gzip) few files not needed to run fizhi-cs experiments.
416    o pkg/exf (vector interpolation):
417      - rotate vector component toward local grid-axis orientation using grid-angles
418        (stored in GRID.h) instead of locally computed rotation angle; keep old code
419        available with exf option EXF_USE_OLD_VEC_ROTATION (undef by default).
420    o pkg/seaice:
421      - allow to compile with exf options ALLOW_ATM_TEMP or ALLOW_DOWNWARD_RADIATION
422        undefined. Fix and remove the stop when ALLOW_RUNOFF is undefined.
423    o pkg/PKG_OPTIONS.h files:
424      - move #include "CPP_OPTIONS.h" just after #include "PACKAGES_CONFIG.h",
425        outside of the #ifdef ALLOW_THISPKG / #endif block.
426      - update verification/*/code/PKG_OPTIONS.h files.
427    o add a verification experiment (offline_exf_seaice/input.seaice) that test
428      the B-grid LSOR solver
429    o pkg/seaice: sort out emissivity and long wave radiation step 2:
430      - add emissivity for snow and ice as new run-time parameters
431        (unfortunately) that default to the corresponding exf values; this
432        changes results in most verification experiments so that for backward
433        compatibility these parameter have to be set explicitly to inconsistent
434        values (ugly);
435      - the exf-flag EXF_LWDOWN_WITH_EMISSIVITY then gets rid off the hard-wired
436        emissivities of 0.97 associated with lwdownloc in S/R seaice_solve4temp
437        until we agree how to handle this bug properly
438    o pkg/exf (interpolation):
439      - add a set of run-time param ({inputfield}_interpMethod), one for
440        each interpolated input field, to select the interpolation method
441        with a value of zero switching off the interpolation;
442      - print interpolation parameters to standard output;
443      - refine exf_check.F accordingly ; stop if USE_NO_INTERP_RUNOFF is defined
444        (to use instead runoff_interpMethod=0 in data.exf).
445      - simplify default setting of interpolation parameters (for all fields,
446        set position to match model grid cell-center position, leading to trivial
447        interpolation in case of regular Lat-Lon grid) and fix for the case of
448        non-uniform delY.
449    o pkg/exf/exf_radiation.F: add the factor ocean_emissivity to lwdown, for
450     within #ifdef EXF_LWDOWN_WITH_EMISSIVITY/#endif. Unless ocean_emissivity=1.     within #ifdef EXF_LWDOWN_WITH_EMISSIVITY/#endif. Unless ocean_emissivity=1.
451     this factor is absolutely required, because the lw exitance (= out-going     this factor is absolutely required, because the lw exitance (= out-going
452     long wave radiation) is emissivity*stefanBoltzmann*T^4 + rho*lwdown,     long wave radiation) is emissivity*stefanBoltzmann*T^4 + rho*lwdown,
453     where the reflectivity rho = 1-emissivity for conservation reasons. Once     where the reflectivity rho = 1-emissivity for conservation reasons. Once
454     this is established, we can remove the CPP-Flag (if we want to).     this is established, we can remove the CPP-Flag (if we want to).
455  o pkg/seaice:  o pkg/seaice:
456      - qualify a stop statement in S/R seaice_check: EXF_READ_EVAP and
457        ALLOW_BULKFORMULAE are only required if SEAICE_EXTERNAL_FLUXES is defined
458    - sort out emissivity and long wave radiation, step 1: make SEAICE_emissivity    - sort out emissivity and long wave radiation, step 1: make SEAICE_emissivity
459      what the name implies (and not emissivity*BoltzmannConstant), this means      what the name implies (and not emissivity*BoltzmannConstant), this means
460      the old default value of 5.5e-8 now means      the old default value of 5.5e-8 now means
461      5.5e-8/5.670e-8 = 0.97001763668430343479 as ocean_emissivity in      5.5e-8/5.670e-8 = 0.97001763668430343479 as ocean_emissivity in
462      S/R exf_readparms      S/R exf_readparms
463    - FV-discretization of the B-grid LSOR solver, turn on with    - FV-discretization of the B-grid LSOR solver, turn on with
464      SEAICE_LSRBNEW. This new solver also involves a slight re-organization      SEAICE_LSRBNEW. This new solver also involves a slight re-organization
465      of the calling routine dynsolver, so that B and C-grid code look a      of the calling routine dynsolver, so that B and C-grid code look a
466      little more alike.      little more alike.
467      - fix index bugs in ostres.F (B-grid code)
468  o pkg/seaice/seaice_ocean_budget.F: change (unused) code to make it look better  o pkg/seaice/seaice_ocean_budget.F: change (unused) code to make it look better
469  o pkg/seaice/seaice_readparms.F: make ocean_emissivity*stefanBoltzmann the  o pkg/seaice/seaice_readparms.F: make ocean_emissivity*stefanBoltzmann the
470    default for SEAICE_emissivity, if useEXF; requires setting a wrong    default for SEAICE_emissivity, if useEXF; requires setting a wrong
# Line 37  o pkg/seaice/seaice_growth.F: Line 482  o pkg/seaice/seaice_growth.F:
482  o pkg/seaice/seaice_model.F:  o pkg/seaice/seaice_model.F:
483    Remove this patholigical case treatment in evolution branch,    Remove this patholigical case treatment in evolution branch,
484    where it is un-necessary and breaks conservation.    where it is un-necessary and breaks conservation.
485    Update global_ocean.cs32x15/results accordingly for    Update global_ocean.cs32x15/results accordingly for
486    output.seaice.txt output_adm.seaice.txt and output_adm.seaice_dynmix.txt    output.seaice.txt output_adm.seaice.txt and output_adm.seaice_dynmix.txt
487  o model/src:  o model/src:
488    useRealFreshWaterFlux: remove masking of EmPmP (using maskInC) in    useRealFreshWaterFlux: remove masking of EmPmP (using maskInC) in
489    external_forcing_surf.F and apply mask directly in S/R SOLVE_FOR_PRESSURE.    external_forcing_surf.F and apply mask directly in S/R SOLVE_FOR_PRESSURE.
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