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revision 1.1560 by mlosch, Thu Dec 22 15:38:56 2011 UTC revision 1.1618 by mlosch, Mon Mar 12 16:51:37 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/shelfice
8     - improve computation of friction velocity for velocity dependent
9       exchange coefficients: include velocities into SHELFICEBoundaryLayer
10       block to average velocities vertically
11     - add TAF store directives for SHI_ALLOW_GAMMAFRICT
12    o Modify diagonal solvers, now three versions (upon request):
13      #ifndef SOLVE_DIAGONAL_AUTODIFF
14        1. default version (dating back a while ago)
15      #else /* def SOLVE_DIAGONAL_AUTODIFF */
16      # ifdef SOLVE_DIAGONAL_KINNER
17        2. adjoinable version with k-innermost loop (G. Forget)
18      # else
19        3. adjoinable vectorized version of 2.
20      # endif
21      #endif /* SOLVE_DIAGONAL_AUTODIFF */
22      All flags are currently set within routines, but could/should be moved to CPP-options.
23      Array bounds for 1. are as before, for 2.,3. cover the entire domain
24      (could be changed for 1. too).
25    o verification/lab_sea (fwd):
26      - update the 4 fwd lab_sea test experiment: no longer SEAICE_GROWTH_LEGACY,
27        use 7 categories (except hb87), new solve4temp params (except salt_plume),
28        constant salinity (=4) or variable salinity (salt_plume) done through
29        SItracer.
30    o pkg/seaice:
31      - rename parameters: SIsalFrac to SEAICE_saltFrac & SIsal0 to SEAICE_salt0;
32      - remove old parameters ( SEAICE_freeze, SEAICEturbFluxFormula, SEAICE_gamma_t,
33         SEAICE_gamma_t_frz, SEAICE_availHeatTaper & SEAICE_availHeatFracFrz)
34        from SEAICE_PARMS.h ; still need to fix seaice_cost_sst.F (broken when
35        SEAICE_freeze got retired) but already better than previously with
36        SEAICE_freeze=123456.7 deg.C;
37      - move setting of facOpenGrow/Melt from SEAICE_INIT_FIXED to SEAICE_READPARMS
38        (safer multi-threaded setting); always set SEAICEuseEVP;
39      - setting of ocean-ice turb. flux coeff: moved from SEAICE_CHECK to
40        SEAICE_READPARMS & SEAICE_INIT_FIXED (this fixes wrong summary report);
41        stop if multiple specifications for the same coeff; make sure default
42        SEAICE_mcPheePiston is compatible with drF(1) & deltaT.
43    o pkg/obcs:
44      - allow to switch to upwind 1rst order advection scheme for the advective
45        flux computation at the open-boundary; disabled for adjoint built.
46    o pkg/ptracers:
47      - rename PTRACERS_RESTART.h -> PTRACERS_START.h
48      - rename ptracers_fields_blocking_exchanges.F -> ptracers_fields_blocking_exch.F
49      - add parameter to decide when to start a tracer; use internal flag to
50        know which tracer to step-forward; switch this internal flag at the top
51        of forward_step.F (new S/R PTRACERS_SWITCH_ONOFF); for now, not enabled
52        for adjoint built.
53    o pkg/seaice:
54      - add SEAICE_SIZE.h anywhere in the code where SEAICE.h is included ;
55      - move MULTDIM declaration and setting from SEAICE.h to SEAICE_SIZE.h ;
56      - keep experiment offline_exf_seaice truly single category (set MULTDIM=1).
57    o pkg/ecco:
58      - fix writing of output file DiagnosCost_ClimSalt/Theta
59        and DiagnosCost_DriftSalt/Theta (if multi-tiles per proc).
60    o pkg/seaice:
61      - add missing initialisation of COR_ICE array in dynsolver.F
62      - merging SEAICE_MULTICATEGORY define and undef cases. Now the same code is
63        compiled either way, and is tested in all exps (multidim was only tested
64        in lab_sea ad before).
65      - cosmetic change to prepare for future addition of ITD. no change to results.
66        no defaults change.
67      - added run time param SEAICE_multDim (7 for SEAICE_MULTICATEGORY, 1 otherwise).
68      - by lack of adequate verification experiments, I further used custom versions
69        of global_ocean.cs32x15 to test multicat or not, with pickup or not. All
70        should be correct.
71      - avoid recomputations in ad.
72    o array initialisation in adjoint mode:
73      1) pkg/mom_common/mom_calc_ke.F:
74        add full array initialisation of KE inside mom_calc_ke.F (ALLOW_AUTODIFF_TAMC):
75        The S/R which calls MOM_CALC_KE initialises KE but in some recomputation
76        part this initialisation is gone, resulting in Floating Point Exception
77        (caught by open64 compiler with debug option).
78      2) model/src/convective_weights.F
79        set output convectCount over the full array range (instead of doing
80        an update): this fix a similar issue when called within recomputation (adjoint)
81        which could by-pass the initialisation (normally done in the caller S/R).
82    o pkg/seaice:
83      - final version of turbulent flux params, as agreed at MIT ice meet:
84           SEAICE_mcPheePiston (default is ~ 0.000875)
85           SEAICE_mcPheeTaper (default is 0.)
86           SEAICE_frazilFrac (defualt is 1.)
87           SEAICE_mcPheeStepFunc (default is false)
88      - changes results at trunction error level
89      - ifdef SEAICE_EXTERNAL_FLUXES, disallow SEAICE_waterAlbedo
90    o added pkg/frazil:
91      - see frazil_description.tex for details
92      - verification experiment is global_with_exf/input.yearly; changes output.yearly.txt
93    o pkg/shelfice/shelfice_thermodynamics.F
94      - fix exponents for velocity dependent exchange coefficients: change
95        from 2/3(=0) to 0.66666666666666667
96      - move computation of velocity dependent exchange coefficients into
97        separate loop, so that it applies to both thermodynamics
98      - move some divisions by constants out of loops
99    
100    checkpoint63j (2012/02/16)
101    o pkg/seaice:
102      - overhaul of seaice_summary.F after feb 2012 clean-up of seaice_growth.F etc.
103      - SItracer:  added run time params, and allow coupling to ocn salinity.
104    o pkg/seaice: remove (almost) all divisions by constants within loops
105      in seaice_growth.F and seaice_solve4temp.F, this changes (only) the cg2d
106      results of global_ocean.cs32x15.seaice from 16 to 11 digits (but only
107      those, caused by 1/QI -> recip_QI) -> update output.seaice.txt,
108      output_adm.seaice_dynmix.txt and also lab_sea: output_adm.evp.txt
109    o pkg/seaice :
110      - simplify McPhee tapering, and allow to use it with SEAICEturbFluxFormula
111        = 1 or 2, using newly added run time parameter SEAICE_availHeatTaper.
112      - fix d_AREAbyATM, d_AREAbyOCN, d_AREAbyICE diags I broke in r1.148.
113      - add permanent SItflux diag that corresponds to TFLUX but includes
114        ice+snow. Hence SItflux-TFLUX should match the ice+snow heat budget.
115      - allow activation/testing of a fix for suspected missing term in
116        ocn-ice heat budget (to be confirmed). To test this, you want to
117        undef SEAICE_DISABLE_HEATCONSFIX, and then set the run time param
118        SEAICEheatConsFix to .TRUE. that also allows the 'SIaaflux' diagnostic.
119      - no change in results, fwd or ad.
120    o global_ocean.cs32x15/results: 3 changes following from the pkg/seaice commit below:
121      - switch to variable freezing point.
122           Results change : cg2d -> 1 digits; ad -> 3-6-6 digits.
123      - bug fix : the sublimation term that was missing is now activated.
124           Results change : cg2d -> 2 digits; ad -> 8-6-6 digits.
125      - bug fix : flooding sign term for SIsal0.NE.0.
126           Result change : cg2d -> 8 digits; ad -> 11-12-9 digits.
127    o pkg/seaice:
128      - unified freezing point treatment : the old SEAICE_VARIABLE_FREEZING_POINT
129        is now the default, and the old default constant freezing point is recovered
130        with SEAICE_tempFrz0    = -1.96,
131             SEAICE_dTempFrz_dS = 0.,
132      - retire SEAICE_freeze (= the old way of specifycing the constant freezing point)
133      - remove ALLOW_SEAICE_FLOODING brackets; run time switch is already there.
134      - bug fix (thanks to M. Losch) : the sublimation term that was missing is now
135        activated. To reproduce old results with this bug define SEAICE_DISABLE_SUBLIM.
136      - bug fix (silly me) : flooding sign term (seaice_growth.F r 1.149line 1211)
137        was wrong for SIsal0.NE.0. Changes cs32x15 results (see above item for detail).
138      - bug fix (thanks to O. Jahn) : area loss for melting  got messed up in
139        seaice_growth r149 for legacy branch (no results change).
140      - introduce SEAICE_CAP_SUBLIM : caps sublimation heat flux in solve4temp (code
141        from I. Fenty).
142      - results did not change except for global_ocean.cs32x15, mostly due to the
143        switch to variable freezing point (see above item for detail).
144    o pkg/thsice:
145      - fix and simplify interface to salt_plume pkg ; diagnose directly amount of
146        seawater freezing in thsice_calc_thickn (not used).
147    o pkg/seaice: turbulent flux term specification via run time params.
148      - replace CPP switches with run time switches to facilitate testing
149      - retired CPPs : MCPHEE_OCEAN_ICE_HEAT_FLUX,
150                       GRADIENT_MIXED_LAYER_TURBULENCE_FACTOR
151      - added runtime parameter : SEAICEturbFluxFormula
152      - move Mcphee constants to SEAICE_PARAMS.h
153      - seaice_readparms.F : read turbulent flux term params (SEAICEturbFluxFormula;
154                 SEAICE_availHeatFrac/Frz, or SEAICE_gamma_t/_frz if apply);
155                 remove seaice_summary call (moved to seaice_init_fixed)
156      - seaice_init_fixed.F : set SEAICE_availHeatFrac/Frz depending on
157        SEAICEturbFluxFormula, and seaice_summary call (moved from seaice_readparms)
158      - seaice_summary.F : add missing report of read turbulent flux term set up
159                           and SITRACER.
160      - seaice_check.F : check range; inform and stop if retired CPPs are used
161                         (incl. SEAICE_AGE).
162      - seaice_growth.F : unified use of SEAICE_availHeatFrac/Frz, without
163             CPP switch, same computation as before for the different options.
164      - change results at the truncation level.
165    o pkg/seaice:
166      - remove un-used parameters LAD & MAX_TICE ; add new run-time parameters:
167        useMaykutSatVapPoly (default=F), postSolvTempIter (default=2) and
168        SEAICE_wetAlbTemp (default=-1e-3). Remove option SEAICE_SOLVE4TEMP_LEGACY.
169      - update verification/*/input*/data.seaice:
170        to reproduce previous results with former #defined SEAICE_SOLVE4TEMP_LEGACY
171        code, set useMaykutSatVapPoly=T & postSolvTempIter=0 ;
172        and to reproduce previous results with former non-SOLVE4TEMP_LEGACY code,
173        set SEAICE_wetAlbTemp=0 & SEAICE_snowThick=0.
174    o pkg/seaice/seaice_solve4temp.F (SOLVE4TEMP_LEGACY):
175      - remove LEGACY code for solving for tsurf (A1,A2,A3) but maintain the same
176        algorithm (same choice: useMaykutPolySatVap=T, postSolvTempIter=0);
177        difference in results only due to machine truncation.
178      - remove MAX_TICE (tsurf is always =< TMELT anyway); keep MIN_TICE if using
179        MaykutPolySatVap; keep MIN_LWDOWN.
180      - adapt SEAICE_MODIFY_GROWTH_ADJ code (untested) to non-legacy formulation.
181      - update output of verification exp. lab_sea (4 fwd: 11 cg2d digits except hb87,
182        + 3 AD: 6 digits except evp) and offline_exf_seaice.seaice (12 digits).
183    o pkg/salt_plume:
184      - isolate saltPlumeFlux array exch into a specific S/R called from
185        do_oceanic_phys.F
186      - add interface to pkg/salt_plume (filling of saltPlumeFlux) in pkg/thsice.
187    o verification:
188      - move untested set-up to MITgcm_contrib/verification_other.
189    o pkg/seaice:
190      - retire old way of SEAICE_AGE. Now replaced with ALLOW_SITRACER.
191    o pkg/seaice:
192      - seaice_solve4temp.F (keeping results unchanged):
193        * add 2 future run-time params to select which saturation vapor pressure
194          formula is used and how post-iteration fluxes are set.
195          Temporary set these 2 params according to option SOLVE4TEMP_LEGACY;
196        * New piece of code (not used) to update surf. atmos. heat flux F_ia using
197          the linearized expression to stay consistent with tsurf finding.
198      - seaice_freedrift.F avoid floating exception in sqrt(y) since y=sqrt(x*x)-x
199        can be < 0.
200    o pkg/seaice/seaice_solve4temp.F (SOLVE4TEMP_LEGACY undef):
201      - remove from F_ia (and from it's derivative dFiDTs1) the contribution of
202        conductive heat flux F_c , and add it explicitly when updating tsurf as
203        solution of: Fc = Fia + d/dT(Fia - Fc) *delta.tsurf
204        so that now F_ia has a consistent meaning through the entire routine.
205        This causes differences at truncation level: update output of fwd exp.
206        global_ocean.cs32x15.seaice.
207    o pkg/seaice:
208      - lots of editing/cleaning in seaice_solve4temp.F + better documentation
209        of arrays, sign/direction of fluxes; no effect on results.
210      - replace hard coded 273.16 (=previous value of celsius2K) by celsius2K
211        in seaice_budget_ocean.F & seaice_solve4temp.F (SOLVE4TEMP_LEGACY part);
212        note: this should have been done before changing celsius2K default.
213      - to keep results unchanged, add back old value of celsius2K in verification
214        exp. input*/data : lab_sea (AD), offline_exf_seaice (fwd+AD) & seaice_obcs
215      - replace hard coded seawater freezing temp in seaice_solve4temp.F (part
216        SOLVE4TEMP_LEGACY) of 271.20 (=previous value of celsius2K + default
217        value of SEAICE_freeze) by celsius2K+SEAICE_freeze so that seawater
218        freezing temp is consistent with value in seaice_growth.F ; this causes
219        differences at machine truncation level: update lab_sea AD output (3/4).
220    o pkg/seaice:
221      - mask (in exf_init_fixed.F) atemp,aqh,evap,precip,runoff,lwflx,areamask
222        and climsst/sss even when using seaice (to prevent calculation that might
223        use SST on land); does not affect any verification exp.
224      - apply mask to taux,tauy (in seaice_get_dynforcing.F); update output
225        of lab_sea.fd & lab_sea.hb87 and global_ocean.cs32x15.seaice_dynmix.
226    o pkg/seaice/seaice_growth.F: add mask to avoid non-zero ice thickness
227      over land (non-legacy code)
228    o vectorize salt_plume package:
229      - add extra code to salt_plume_frac and salt_plume_tendency_apply_s
230      - this code computes plumebk everywhere (also over land), thus requires
231        code to avoid divisions by zero and catch the case of kLev=Nr.
232      - efficiency of salt_plume_frac is still sub-optimal
233    o tools (genmake2):
234      - fix makefile NAME specification (option: -makefile NAME) by adding
235        "-f $MAKEFILE" in few places where it was missing including makedepend
236        command (contribution from Paul).
237    
238    checkpoint63i (2012/01/24)
239    o model/src:
240      - add factorized versions of some EOS code to find_rho.F,
241        define USE_FACTORIZED_EOS to turn it on (default for TARGET_NEC_SX)
242    o model/src:
243      - add celsius2K to namelist PARM01; remove unused recip_rhoNil from PARAMS.h;
244      - change default celsius2K from 273.16 to 273.15
245      - to keep results unchanged, add back old value of celsius2K in verification
246        exp. input*/data : aim.5l_cs, 1D_ocean_ice_column, lab_sea (fwd),
247         global_ocean.cs32x15(seaice) & cpl_aim+ocn(input_atm).
248    o model/src: add a little initialisation trick to find_rho.F and find_alpha.F
249      to make TAF generate vectorizable code
250    o pkg/seaice/seaice_evp.F: add code (copied from CICE) that avoids underflows.
251       Turn on by defining SEAICE_EVP_ELIMINATE_UNDERFLOWS. Most compilers
252       have flags that do this more efficiently.
253    o pkg/diagnostics/diagstats_calc.F
254      - for TARGET_NEC_SX fix the treatment of the scaling factor tmpFac=scaleFact
255    o pkg/obcs (with exch2):
256      - derive OB indices in overlap region from OB-InsideMask (in obcs_init_fixed.F)
257        and remove code (in obcs_readparms.F) which was based on EXCH of indices
258        (through buffer) and did not account for exch2 (e.g., CS-grid) topology.
259    o pkg/exf and seaice exp:
260      - change offline_exf_seaice.seaicetd test exp. to use default DIFF1 value (=0)
261        so that switching off area & heff advection flags does not affect results.
262      - change default EXF_LWDOWN_WITH_EMISSIVITY to #define in EXF_OPTIONS.h
263      - keep exp. seaice_obcs & 1D_ocean_ice_column(ad) unchanged (using #undef
264        EXF_LWDOWN_WITH_EMISSIVITY) and, using pkg/exf default emissivities, update
265        results of verification experiments: 1D_ocean_ice_column(fwd),
266        global_ocean.cs32x15.seaice(fwd+ad) & seaice_dynmix(ad), lab_sea (all 8)
267        and offline_exf_seaice (all 4).
268    o pkg/seaice:
269      - remove array YNEG, RIVER, TMIX (replaced by local var) from common block;
270        remove also areaNm1 & hEffNm1 when SEAICE_GROWTH_LEGACY is undef.
271      - fix bug: areaNm1 & hEffNm1 are needed in seaice_growth (SEAICE_GROWTH_LEGACY)
272        but were not filled when resp. SEAICEadvArea=F & SEAICEadvHeff=F and
273        not multi-dim advection;
274      - fix seaice_growth.F to compile with both SEAICE_GROWTH_LEGACY and
275        SHORTWAVE_HEATING #undef.
276    o optim: make Makefile more robust (?)
277    o pkg/obcs:
278      * fix treatment of obcs_read_pickup for TAF
279    o pkg/shelfice:
280      * add missing initialisation of num_shifwflx
281      * new adjoint verification exp. for isomip
282      * change Prandtl and Schmidt numbers from generic formulations
283        (in terms of model diffus. and visc.) to separate runtime
284        parameters, with Holland and Jenkins (1999) default values.
285    o pkg/exf (interpolation):
286      - extended input field (2 rows) near the N & S poles:
287        * fill in with the symetric value (when even Nb of data in longitude)
288        * add average value at the poles only for scalar quantities ; for vector
289          component interpolation, skip the averaging and keep duplicated values,
290          unless the 2 components have same location (uvInterp=T) in which case
291          interpolate the 2 components together using S/R EXF_INTERP_UV.
292      - new S/R EXF_INTERP_UV to interpolate the 2 components of a vector field
293        together: this allows to account properly for local orientation when
294        averaging at N & S pole.
295      - add CPP option EXF_USE_OLD_INTERP_POLE to recover old results regarding
296        exf-interpolation near N & S poles. Undef by default.
297      - add debug check/print on 1rst iter if debugLevel >=2.
298    o pkg/exf:
299      - change masking flags definition (no longer "parameter"), put them in
300        common block and set them in S/R EXF_INIT_FIXED.
301      - change recognized masking flag from s,u,v to c,w,s since the mask
302        to use (maskC,W,S) depends on position on model grid and has little to
303        do with scalar/vector difference; fix masking if using P-coordinates.
304      - fix masking of wind-stress (was wrong if interpolated or read on A-grid)
305        and update results of exp. global_with_exf (x2).
306      - fix setting of zenith-angle table when SHORTWAVE_HEATING is undef.
307    o pkg/obcs
308      - S/R obcs_calc_stevens: fix a small bug (gammat -> gammas where appropriate)
309    o pkg/exf (interpolation):
310      - assume periodicity in X only if input field cover full longitude range.
311      - improve search for lat. index (supposed to be faster, in ~log2(ny) steps,
312        and should vectorise).
313      - fix input lat of the 2 added row (in case we provide N.pole data).
314    
315    checkpoint63h (2011/12/30)
316    o pkg/seaice:
317      - change declaration of UVM from _RL to _RS in order to get B-grid
318        uIce,vIce monitor when _RS = real*4
319    o pkg/offline:
320      - new S/R OFFLINE_RESET_PARMS for resetting main-model params (switch off flags);
321      - compute vertical velocity if not read from file (switch on exactConserv
322        & staggerTimeStep);
323      - fix output of ptracer monitor iter & time for default PTRACERS_monitorFreq.
324    o verification:
325      - update grid-files (in tutorial_held_suarez_cs/input and fizhi-cs-32x32x40/input)
326        with grid-angle generated using "utils/matlab/cs_grid/cubeCalcAngle.m":
327        fix Pb in yG definition @ 2 missing corners (previously yG was averaged);
328      - update output of exp. global_ocean.cs32x15.viscA4 after changing
329        grid-file angles (used here for coriolis-3d);
330      - remove (or gzip) few files not needed to run fizhi-cs experiments.
331    o pkg/exf (vector interpolation):
332      - rotate vector component toward local grid-axis orientation using grid-angles
333        (stored in GRID.h) instead of locally computed rotation angle; keep old code
334        available with exf option EXF_USE_OLD_VEC_ROTATION (undef by default).
335    o pkg/seaice:
336      - allow to compile with exf options ALLOW_ATM_TEMP or ALLOW_DOWNWARD_RADIATION
337        undefined. Fix and remove the stop when ALLOW_RUNOFF is undefined.
338    o pkg/PKG_OPTIONS.h files:
339      - move #include "CPP_OPTIONS.h" just after #include "PACKAGES_CONFIG.h",
340        outside of the #ifdef ALLOW_THISPKG / #endif block.
341      - update verification/*/code/PKG_OPTIONS.h files.
342  o add a verification experiment (offline_exf_seaice/input.seaice) that test  o add a verification experiment (offline_exf_seaice/input.seaice) that test
343    the B-grid LSOR solver    the B-grid LSOR solver
344  o pkg/seaice: sort out emissivity and long wave radiation step 2:  o pkg/seaice: sort out emissivity and long wave radiation step 2:
345    - add emissivity for snow and ice as new run-time parameters    - add emissivity for snow and ice as new run-time parameters
346      (unfortunately) that default to the corresponding exf values; this      (unfortunately) that default to the corresponding exf values; this
347      changes results in most verification experiments so that for backward      changes results in most verification experiments so that for backward
348      compatibility these parameter have to be set explicitly to inconsistent      compatibility these parameter have to be set explicitly to inconsistent
349      values (ugly);      values (ugly);
350    - the exf-flag EXF_LWDOWN_WITH_EMISSIVITY then gets rid off the hard-wired    - the exf-flag EXF_LWDOWN_WITH_EMISSIVITY then gets rid off the hard-wired
351      emissivities of 0.97 associated with lwdownloc in S/R seaice_solve4temp      emissivities of 0.97 associated with lwdownloc in S/R seaice_solve4temp
352      until we agree how to handle this bug properly      until we agree how to handle this bug properly

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