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revision 1.1540 by jmc, Thu Dec 1 19:33:51 2011 UTC revision 1.1595 by gforget, Mon Feb 13 16:38:08 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 global_ocean.cs32x15/results: three changes following from the pkg/seaice commit below.
8      - switch to variable freezing point.
9           Results change : cg2d -> 1 digits; ad -> 3-6-6 digits.
10      - bug fix : the sublimation term that was missing is now activated.
11           Results change : cg2d -> 2 digits; ad -> 8-6-6 digits.
12      - bug fix : flooding sign term for SIsal0.NE.0.
13           Result change : cg2d -> 8 digits; ad -> 11-12-9 digits.
14    o pkg/seaice:
15      - unified freezing point treatment : the old SEAICE_VARIABLE_FREEZING_POINT
16     is now the default, and the old default constant freezing point is recovered with
17     SEAICE_tempFrz0    = -1.96,
18     SEAICE_dTempFrz_dS = 0.,
19      - retire SEAICE_freeze that was the old way of specifycing the constant freezing point.
20      - remove ALLOW_SEAICE_FLOODING brackets; run time switch is already there.
21      - bug fix (thanks to M. Losch) : the sublimation term that was missing is now
22     activated. To reproduce old results that had this bug define SEAICE_DISABLE_SUBLIM.
23      - bug fix (silly me) : flooding sign term (seaice_growth.F r 1.149line 1211)
24     was wrong for SIsal0.NE.0. Changes cs32x15 results (see above item for detail).
25      - bug fix (thanks to O. Jahn) : area loss for melting  got messed up in
26     seaice_growth r149 for legacy branch (no results change).
27      - introduce SEAICE_CAP_SUBLIM : caps sublimation heat flux in solve4temp (code from I. Fenty).
28      - results did not change except for global_ocean.cs32x15, mostly due to the switch
29      to variable freezing point (see above item for detail).
30    o pkg/thsice:
31      - fix and simplify interface to salt_plume pkg ; diagnose directly amount of
32        seawater freezing in thsice_calc_thickn (not used).
33    o pkg/seaice: turbulent flux term specification via run time params.
34      - replace CPP switches with run time switches to facilitate testing
35      - retired CPPs : MCPHEE_OCEAN_ICE_HEAT_FLUX, GRADIENT_MIXED_LAYER_TURBULENCE_FACTOR
36      - added runtime parameter : SEAICEturbFluxFormula
37      - move Mcphee constants to SEAICE_PARAMS.h
38      - seaice_readparms.F : read turbulent flux term params (SEAICEturbFluxFormula;
39        SEAICE_availHeatFrac/Frz, or SEAICE_gamma_t/_frz if apply); remove
40        seaice_summary call (moved to seaice_init_fixed)
41      - seaice_init_fixed.F : set SEAICE_availHeatFrac/Frz depending on
42        SEAICEturbFluxFormula, and seaice_summary call (moved from seaice_readparms)
43      - seaice_summary.F : add missing report of read turbulent flux term set up (and SITRACER).
44      - seaice_check.F : check range; inform and stop if retired CPPs are used (incl. SEAICE_AGE).
45      - seaice_growth.F : unified use of SEAICE_availHeatFrac/Frz, without
46            CPP switch, same computation as before for the different options.
47      - change results at the truncation level.
48    o pkg/seaice:
49      - remove un-used parameters LAD & MAX_TICE ; add new run-time parameters:
50        useMaykutSatVapPoly (default=F), postSolvTempIter (default=2) and
51        SEAICE_wetAlbTemp (default=-1e-3). Remove option SEAICE_SOLVE4TEMP_LEGACY.
52      - update verification/*/input*/data.seaice:
53        to reproduce previous results with former #defined SEAICE_SOLVE4TEMP_LEGACY
54        code, set useMaykutSatVapPoly=T & postSolvTempIter=0 ;
55        and to reproduce previous results with former non-SOLVE4TEMP_LEGACY code,
56        set SEAICE_wetAlbTemp=0 & SEAICE_snowThick=0.
57    o pkg/seaice/seaice_solve4temp.F (SOLVE4TEMP_LEGACY):
58      - remove LEGACY code for solving for tsurf (A1,A2,A3) but maintain the same
59        algorithm (same choice: useMaykutPolySatVap=T, postSolvTempIter=0);
60        difference in results only due to machine truncation.
61      - remove MAX_TICE (tsurf is always =< TMELT anyway); keep MIN_TICE if using
62        MaykutPolySatVap; keep MIN_LWDOWN.
63      - adapt SEAICE_MODIFY_GROWTH_ADJ code (untested) to non-legacy formulation.
64      - update output of verification exp. lab_sea (4 fwd: 11 cg2d digits except hb87,
65        + 3 AD: 6 digits except evp) and offline_exf_seaice.seaice (12 digits).
66    o pkg/salt_plume:
67      - isolate saltPlumeFlux array exch into a specific S/R called from
68        do_oceanic_phys.F
69      - add interface to pkg/salt_plume (filling of saltPlumeFlux) in pkg/thsice.
70    o verification:
71      - move untested set-up to MITgcm_contrib/verification_other.
72    o pkg/seaice:
73      - retire old way of SEAICE_AGE. Now replaced with ALLOW_SITRACER.
74    o pkg/seaice:
75      - seaice_solve4temp.F (keeping results unchanged):
76        * add 2 future run-time params to select which saturation vapor pressure
77          formula is used and how post-iteration fluxes are set.
78          Temporary set these 2 params according to option SOLVE4TEMP_LEGACY;
79        * New piece of code (not used) to update surf. atmos. heat flux F_ia using
80          the linearized expression to stay consistent with tsurf finding.
81      - seaice_freedrift.F avoid floating exception in sqrt(y) since y=sqrt(x*x)-x
82        can be < 0.
83    o pkg/seaice/seaice_solve4temp.F (SOLVE4TEMP_LEGACY undef):
84      - remove from F_ia (and from it's derivative dFiDTs1) the contribution of
85        conductive heat flux F_c , and add it explicitly when updating tsurf as
86        solution of: Fc = Fia + d/dT(Fia - Fc) *delta.tsurf
87        so that now F_ia has a consistent meaning through the entire routine.
88        This causes differences at truncation level: update output of fwd exp.
89        global_ocean.cs32x15.seaice.
90    o pkg/seaice:
91      - lots of editing/cleaning in seaice_solve4temp.F + better documentation
92        of arrays, sign/direction of fluxes; no effect on results.
93      - replace hard coded 273.16 (=previous value of celsius2K) by celsius2K
94        in seaice_budget_ocean.F & seaice_solve4temp.F (SOLVE4TEMP_LEGACY part);
95        note: this should have been done before changing celsius2K default.
96      - to keep results unchanged, add back old value of celsius2K in verification
97        exp. input*/data : lab_sea (AD), offline_exf_seaice (fwd+AD) & seaice_obcs
98      - replace hard coded seawater freezing temp in seaice_solve4temp.F (part
99        SOLVE4TEMP_LEGACY) of 271.20 (=previous value of celsius2K + default
100        value of SEAICE_freeze) by celsius2K+SEAICE_freeze so that seawater
101        freezing temp is consistent with value in seaice_growth.F ; this causes
102        differences at machine truncation level: update lab_sea AD output (3/4).
103    o pkg/seaice:
104      - mask (in exf_init_fixed.F) atemp,aqh,evap,precip,runoff,lwflx,areamask
105        and climsst/sss even when using seaice (to prevent calculation that might
106        use SST on land); does not affect any verification exp.
107      - apply mask to taux,tauy (in seaice_get_dynforcing.F); update output
108        of lab_sea.fd & lab_sea.hb87 and global_ocean.cs32x15.seaice_dynmix.
109    o pkg/seaice/seaice_growth.F: add mask to avoid non-zero ice thickness
110      over land (non-legacy code)
111    o vectorize salt_plume package:
112      - add extra code to salt_plume_frac and salt_plume_tendency_apply_s
113      - this code computes plumebk everywhere (also over land), thus requires
114        code to avoid divisions by zero and catch the case of kLev=Nr.
115      - efficiency of salt_plume_frac is still sub-optimal
116    o tools (genmake2):
117      - fix makefile NAME specification (option: -makefile NAME) by adding
118        "-f $MAKEFILE" in few places where it was missing including makedepend
119        command (contribution from Paul).
120    
121    checkpoint63i (2012/01/24)
122    o model/src:
123      - add factorized versions of some EOS code to find_rho.F,
124        define USE_FACTORIZED_EOS to turn it on (default for TARGET_NEC_SX)
125    o model/src:
126      - add celsius2K to namelist PARM01; remove unused recip_rhoNil from PARAMS.h;
127      - change default celsius2K from 273.16 to 273.15
128      - to keep results unchanged, add back old value of celsius2K in verification
129        exp. input*/data : aim.5l_cs, 1D_ocean_ice_column, lab_sea (fwd),
130         global_ocean.cs32x15(seaice) & cpl_aim+ocn(input_atm).
131    o model/src: add a little initialisation trick to find_rho.F and find_alpha.F
132      to make TAF generate vectorizable code
133    o pkg/seaice/seaice_evp.F: add code (copied from CICE) that avoids underflows.
134       Turn on by defining SEAICE_EVP_ELIMINATE_UNDERFLOWS. Most compilers
135       have flags that do this more efficiently.
136    o pkg/diagnostics/diagstats_calc.F
137      - for TARGET_NEC_SX fix the treatment of the scaling factor tmpFac=scaleFact
138    o pkg/obcs (with exch2):
139      - derive OB indices in overlap region from OB-InsideMask (in obcs_init_fixed.F)
140        and remove code (in obcs_readparms.F) which was based on EXCH of indices
141        (through buffer) and did not account for exch2 (e.g., CS-grid) topology.
142    o pkg/exf and seaice exp:
143      - change offline_exf_seaice.seaicetd test exp. to use default DIFF1 value (=0)
144        so that switching off area & heff advection flags does not affect results.
145      - change default EXF_LWDOWN_WITH_EMISSIVITY to #define in EXF_OPTIONS.h
146      - keep exp. seaice_obcs & 1D_ocean_ice_column(ad) unchanged (using #undef
147        EXF_LWDOWN_WITH_EMISSIVITY) and, using pkg/exf default emissivities, update
148        results of verification experiments: 1D_ocean_ice_column(fwd),
149        global_ocean.cs32x15.seaice(fwd+ad) & seaice_dynmix(ad), lab_sea (all 8)
150        and offline_exf_seaice (all 4).
151    o pkg/seaice:
152      - remove array YNEG, RIVER, TMIX (replaced by local var) from common block;
153        remove also areaNm1 & hEffNm1 when SEAICE_GROWTH_LEGACY is undef.
154      - fix bug: areaNm1 & hEffNm1 are needed in seaice_growth (SEAICE_GROWTH_LEGACY)
155        but were not filled when resp. SEAICEadvArea=F & SEAICEadvHeff=F and
156        not multi-dim advection;
157      - fix seaice_growth.F to compile with both SEAICE_GROWTH_LEGACY and
158        SHORTWAVE_HEATING #undef.
159    o optim: make Makefile more robust (?)
160    o pkg/obcs:
161      * fix treatment of obcs_read_pickup for TAF
162    o pkg/shelfice:
163      * add missing initialisation of num_shifwflx
164      * new adjoint verification exp. for isomip
165      * change Prandtl and Schmidt numbers from generic formulations
166        (in terms of model diffus. and visc.) to separate runtime
167        parameters, with Holland and Jenkins (1999) default values.
168    o pkg/exf (interpolation):
169      - extended input field (2 rows) near the N & S poles:
170        * fill in with the symetric value (when even Nb of data in longitude)
171        * add average value at the poles only for scalar quantities ; for vector
172          component interpolation, skip the averaging and keep duplicated values,
173          unless the 2 components have same location (uvInterp=T) in which case
174          interpolate the 2 components together using S/R EXF_INTERP_UV.
175      - new S/R EXF_INTERP_UV to interpolate the 2 components of a vector field
176        together: this allows to account properly for local orientation when
177        averaging at N & S pole.
178      - add CPP option EXF_USE_OLD_INTERP_POLE to recover old results regarding
179        exf-interpolation near N & S poles. Undef by default.
180      - add debug check/print on 1rst iter if debugLevel >=2.
181    o pkg/exf:
182      - change masking flags definition (no longer "parameter"), put them in
183        common block and set them in S/R EXF_INIT_FIXED.
184      - change recognized masking flag from s,u,v to c,w,s since the mask
185        to use (maskC,W,S) depends on position on model grid and has little to
186        do with scalar/vector difference; fix masking if using P-coordinates.
187      - fix masking of wind-stress (was wrong if interpolated or read on A-grid)
188        and update results of exp. global_with_exf (x2).
189      - fix setting of zenith-angle table when SHORTWAVE_HEATING is undef.
190    o pkg/obcs
191      - S/R obcs_calc_stevens: fix a small bug (gammat -> gammas where appropriate)
192    o pkg/exf (interpolation):
193      - assume periodicity in X only if input field cover full longitude range.
194      - improve search for lat. index (supposed to be faster, in ~log2(ny) steps,
195        and should vectorise).
196      - fix input lat of the 2 added row (in case we provide N.pole data).
197    
198    checkpoint63h (2011/12/30)
199    o pkg/seaice:
200      - change declaration of UVM from _RL to _RS in order to get B-grid
201        uIce,vIce monitor when _RS = real*4
202    o pkg/offline:
203      - new S/R OFFLINE_RESET_PARMS for resetting main-model params (switch off flags);
204      - compute vertical velocity if not read from file (switch on exactConserv
205        & staggerTimeStep);
206      - fix output of ptracer monitor iter & time for default PTRACERS_monitorFreq.
207    o verification:
208      - update grid-files (in tutorial_held_suarez_cs/input and fizhi-cs-32x32x40/input)
209        with grid-angle generated using "utils/matlab/cs_grid/cubeCalcAngle.m":
210        fix Pb in yG definition @ 2 missing corners (previously yG was averaged);
211      - update output of exp. global_ocean.cs32x15.viscA4 after changing
212        grid-file angles (used here for coriolis-3d);
213      - remove (or gzip) few files not needed to run fizhi-cs experiments.
214    o pkg/exf (vector interpolation):
215      - rotate vector component toward local grid-axis orientation using grid-angles
216        (stored in GRID.h) instead of locally computed rotation angle; keep old code
217        available with exf option EXF_USE_OLD_VEC_ROTATION (undef by default).
218    o pkg/seaice:
219      - allow to compile with exf options ALLOW_ATM_TEMP or ALLOW_DOWNWARD_RADIATION
220        undefined. Fix and remove the stop when ALLOW_RUNOFF is undefined.
221    o pkg/PKG_OPTIONS.h files:
222      - move #include "CPP_OPTIONS.h" just after #include "PACKAGES_CONFIG.h",
223        outside of the #ifdef ALLOW_THISPKG / #endif block.
224      - update verification/*/code/PKG_OPTIONS.h files.
225    o add a verification experiment (offline_exf_seaice/input.seaice) that test
226      the B-grid LSOR solver
227    o pkg/seaice: sort out emissivity and long wave radiation step 2:
228      - add emissivity for snow and ice as new run-time parameters
229        (unfortunately) that default to the corresponding exf values; this
230        changes results in most verification experiments so that for backward
231        compatibility these parameter have to be set explicitly to inconsistent
232        values (ugly);
233      - the exf-flag EXF_LWDOWN_WITH_EMISSIVITY then gets rid off the hard-wired
234        emissivities of 0.97 associated with lwdownloc in S/R seaice_solve4temp
235        until we agree how to handle this bug properly
236    o pkg/exf (interpolation):
237      - add a set of run-time param ({inputfield}_interpMethod), one for
238        each interpolated input field, to select the interpolation method
239        with a value of zero switching off the interpolation;
240      - print interpolation parameters to standard output;
241      - refine exf_check.F accordingly ; stop if USE_NO_INTERP_RUNOFF is defined
242        (to use instead runoff_interpMethod=0 in data.exf).
243      - simplify default setting of interpolation parameters (for all fields,
244        set position to match model grid cell-center position, leading to trivial
245        interpolation in case of regular Lat-Lon grid) and fix for the case of
246        non-uniform delY.
247    o pkg/exf/exf_radiation.F: add the factor ocean_emissivity to lwdown, for
248       within #ifdef EXF_LWDOWN_WITH_EMISSIVITY/#endif. Unless ocean_emissivity=1.
249       this factor is absolutely required, because the lw exitance (= out-going
250       long wave radiation) is emissivity*stefanBoltzmann*T^4 + rho*lwdown,
251       where the reflectivity rho = 1-emissivity for conservation reasons. Once
252       this is established, we can remove the CPP-Flag (if we want to).
253    o pkg/seaice:
254      - qualify a stop statement in S/R seaice_check: EXF_READ_EVAP and
255        ALLOW_BULKFORMULAE are only required if SEAICE_EXTERNAL_FLUXES is defined
256      - sort out emissivity and long wave radiation, step 1: make SEAICE_emissivity
257        what the name implies (and not emissivity*BoltzmannConstant), this means
258        the old default value of 5.5e-8 now means
259        5.5e-8/5.670e-8 = 0.97001763668430343479 as ocean_emissivity in
260        S/R exf_readparms
261      - FV-discretization of the B-grid LSOR solver, turn on with
262        SEAICE_LSRBNEW. This new solver also involves a slight re-organization
263        of the calling routine dynsolver, so that B and C-grid code look a
264        little more alike.
265      - fix index bugs in ostres.F (B-grid code)
266    o pkg/seaice/seaice_ocean_budget.F: change (unused) code to make it look better
267    o pkg/seaice/seaice_readparms.F: make ocean_emissivity*stefanBoltzmann the
268      default for SEAICE_emissivity, if useEXF; requires setting a wrong
269      parameter value in global_ocean.cs32x15/input.seaice/data.seaice for
270      backward compatiblity
271    o model/src: use sigmaR in calc_ivdc
272    
273    checkpoint63g (2011/12/16)
274    o pkg/seaice/seaice_growth.F:
275      fix heat conservation of the coupled ocean-seaice system.
276      when SEAICE_HEAT_CONSERV_FIX is defined, the mismatch of
277      solid vs liquid water treatment is resolved via QNET.
278    o pkg/seaice/seaice_growth.F:
279      add missing term for sublimation in saltFlux, which was breaking conservation.
280    o pkg/seaice/seaice_model.F:
281      Remove this patholigical case treatment in evolution branch,
282      where it is un-necessary and breaks conservation.
283      Update global_ocean.cs32x15/results accordingly for
284      output.seaice.txt output_adm.seaice.txt and output_adm.seaice_dynmix.txt
285    o model/src:
286      useRealFreshWaterFlux: remove masking of EmPmP (using maskInC) in
287      external_forcing_surf.F and apply mask directly in S/R SOLVE_FOR_PRESSURE.
288    o pkg/obcs:
289      modify Stevens boundary conditions so that S/R obcs_calc_stevens computes
290      tendency for temperature and salinity that is then applied to update
291      theta and salt in S/R obcs_apply_ts; this requires proper masking of all
292      horizontal advection and diffusion contributions on the boundary (in
293      S/Rs gad_advection, gad_calc_rhs, gmredi_rtransport, gmredi_calc_diff), and
294      removing the mask in S/R timestep_tracer. The advantage of this approach is
295      that the updated tracer values include contributions from the surface
296      forcing and vertical diffusion.
297      This modification changes exp4.stevens because of vertical diffusion.
298    o model/src:
299      change non-curvilinear grid setting to also work with exch2 + blank tiles:
300      - move delX,delY to new header file (SET_GRID.h) and adjust length to 1rst
301        face dimensions.
302      - new S/R INI_LOCAL_GRID to define model tile-local grid (using same units
303        as delX,delY) and called from S/R INI_CARTESIAN_GRID, INI_CYLINDER_GRID
304        and INI_SPHERICAL_POLAR_GRID.
305      change test-experiment global_ocean.90x40x15:
306      - split the domain in many more tiles (9x4 tiles of 10x10 each);
307      - switch to exch2 and remove 1 blank-tile (but only for MPI test).
308      - update results of both test (std & dwnslp).
309    o pkg/diagnostics/diagstat_calc.F: fix problem with non-initialised halos in
310       tmp-fields for TARGET_NEC_SX at the cost of extra loops and less vectorisation
311    o model/src:
312      - take sigma-coords related code out of update_etah.F into new S/R UPDATE_ETAWS
313        and fix initialisation when using sigma-coords.
314    o model/src:
315     - improve Gael's changes from Jan 14, 2011 "addition of an 'update' of hfacc etc.
316       to their current value at the beginning of forward_step.F": add a new run-time
317       switch "doResetHFactors" (default=false) and use it to do (or not) the resetting.
318     - set doResetHFactors=T in the following test exp:
319        global_ocean.90x40x15/input (rStar) & input.dwnslp (linFS),
320        global_ocean.cs32x15/input.seaice (rStar), hs94.cs-32x32x5/input.impIGW (linFS)
321        and tutorial_global_oce_in_p (nonLinFS in p)
322    o pkg/ecco
323      - added IES cost term
324    o verification/advect_xz
325      - scale down the depth by 1/100 (from 200 km to just 2.km)
326      - add secondary test using divergent flow, r-star and implicit vertical advection.
327      - add note (check_conserve_TS.txt) and matlab script to check global
328        conservation of T & S with NonLin-FreeSurf and Adams-Bashforth.
329    o pkg/rbcs:
330      - add missing relaxUFile & relaxVFile in namelist (in rbcs_readparms.F).
331    o pkg/obcs (Stevens BCs):
332      - fix various problems in the phase speed computations of the Stevens
333        boundary conditions:
334        - sign error for western and southern boundaries,
335        - time tendencies were underestimated by factor of dTracerLev and some just
336          zero (for multidim advection schemes) -> now estimate time tendencies
337          from difference between previous (n) time level and the one before (n-1);
338          this requires storing a field per tracer per boundary, also in the pickup
339          files.
340        - replace deltaTmom in cflMer/Zon computation with dTracerLev
341        - set default phase velocity to cflMer/Zon
342      - update verification experiment exp4.stevens
343  o pkg/generic_advdiff (implicit_r):  o pkg/generic_advdiff (implicit_r):
344    - fix implicit vertical advection conservation with AB and/or NonLin-FreeSurf    - fix implicit vertical advection conservation with AB and/or NonLin-FreeSurf
345      (remove Tr*d/dz(w) in gad_implicit_r.F and add it in gad_calc_rhs.F);      (remove Tr*d/dz(w) in gad_implicit_r.F and add it in gad_calc_rhs.F);

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