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revision 1.1442 by gforget, Wed May 25 23:56:29 2011 UTC revision 1.1459 by jmc, Tue Jun 21 15:15:10 2011 UTC
# Line 4  $Name$ Line 4  $Name$
4      Notes on tags used in MITgcmUV      Notes on tags used in MITgcmUV
5      ==============================      ==============================
6    
7    o adjoint monitor:
8     - Add adjoint monitor output for packages exf, seaice
9       and update relevant testreport output
10  o pkg/seaice:  o pkg/seaice:
11   - seaice_growth.F : in EVOLUTION branch, always include   - re-order diags inits so that they appear in order in available_diagnostics.log
12     - added diags: hsnow thermo. rates of change, area preceeding ridiging process,
13       area/heff/hsnow preceeding thermodynamic growth/melt.
14     - modified diag: SIdA; output actual effect, as the description states.
15     - modified description: SIqneti, SIqneto, SIuheff, SIvheff, SIdAb*, HSNOW.
16     - retired redundant diags: SIyneg, SIfice, SIsnwice, SIthdgrh.
17       (SIyneg->SIdHbOCN; SIfice->SIdHbATC; SIsnwice->SIdHbFLO;
18        and SIthdgrh->SIdHbOCN+SIdHbATC+SIdHbATO)
19     - modified diags (2) : switch all SIdA*, SIdH*, SIdS* from delta to rates.
20     - added diagnostics for seaice generic tracers (SItr*).
21     - added SItrUnit and SItrNameLong run time param (for SItr* diags).
22     - in diag names, replaced 'PrTh' abbrev. of 'preceeding thermo' with 'PT'.
23     I. Fenty: 18-Jun-2011:
24     Minor changes to seaice package:
25     1) Retired old variables (A22, SEAICE_lhsublim, areaMax, areaMin, hiceMin) and
26        added some new ones (SEAICE_area_reg, SEAICE_hice_reg, SEAICE_area_floor)
27       - Differentiated "regularization variables" from "floor variables"
28        * areaMin became SEAICE_area_reg (old A22) and SEAICE_area_floor
29        * hiceMin became SEAICE_hice_reg (old hiceMin)
30          (with _reg meaning regularization variable)
31       - SEAICE_lhSublim becomes lhSublim, the sum of SEAICE_lhEvap and SEAICE_lhFusion
32        so as to ensure energy conservation when going between phases
33      - A22 was not used anywhere
34     2) Changed regularization procedure for heffActual and hsnowActual to ensure
35        well-boundedness and smooth adjoint in seaice_growth.F
36     3) Fixed a bug where seaice_solve4temp would not recognize ice-free grid cells
37        because the old regularization always set heffActual >= 0.05 cm
38     4) Changed the model so that the default behavior is to put a small (10^-5) "floor"
39        on AREA when HEFF > 0.
40      - went from requiring ALLOW_PRECLUDE_INFINITESIMAL_AREA to be defined to
41        requiring that DISABLE_AREA_FLOOR *not* be defined
42     Affected verifications:
43      - 1D_ocean_ice_column (output.txt output_adm.txt)
44      - global_ocean.cs32x15 (output.seaice.txt output_adm.seaice.txt)
45    o pkg/diagnostics:
46      - move MNC code from diagnostics_out.F into new diagnostics_mnc_out.F (2 S/R).
47      - rename S/R GETDIAG to DIAGNOSTICS_GET_DIAG and change type of 1rst argument
48        (was _RL, now integer) with option = 0 to retrieve all levels.
49      - add pieces of code to compute velocity potential at each level (new diagnostics
50        PhiVEL, works only when UVELMASS & VVELMASS are also turned on);
51        for now, using same params as CG2D (target-resisual, max Nb of iter ...).
52      - fix few issues with counter diagnostics in diagnostics_setdiag.F &
53        diagstats_setdiag.F (if diagnostic counter is itself a counter diag)
54        and in diagnostics_fract_fill.F (do not need a valid pointer for the
55        diagnostics counter-mate); check that definition of counter-diagnostic
56        includes a valid counter-mate (in diagnostics_set_levels.F).
57    o model/src (rStar):
58      - add rStar scaling factor in diags_phi_hyd.F (similar to calc_grad_phi_hyd.F);
59        affect solution only if z* with full pressure in EOS;
60        update output of test-exp global_ocean.90x40x15.
61    o pkg/seaice:
62      - introduce siEps=1e-5 parameter
63      - use areaMax in AREA update (part 4), consistent with ridging step (part 2.5).
64      - re-organize SEAICE_ADD_SUBLIMATION_TO_FWBUDGET code.
65      - introduce ALLOW_SITRACER and seaice_tracer_phys.F to handle generic seaice tracer.
66        For now it covers, and was tested for, ice salinity and age (attached to HEFF),
67        as well as ice cover age and ridging index (attached to AREA).
68        For now the run time parameters (in data.seaice/SEAICE_PARM03) are
69        SItrName (e.g. 'age') and SItrMate ('HEFF', which is the default, or 'AREA').
70        Up to SItrMaxNum=3 tracers can be used simultaneously.
71    o pkg/salt_plume:
72      -introduce SPsalFRAC run time parameter that sets the fraction of the
73       salt by-product of ice growth (SPsalFRAC*(1-SIsalFRAC)*salt typically)
74       that gets vertically redistributed (fluxed down) by pkg/salt_plume.
75    o model debug options:
76      - Switch reading of debugMode from S/R INI_PARMS (parameter file "data", stored
77        in PARAMS.h) to S/R EESET_PARMS (parameter file "eedata", stored in EEPARAMS.h).
78      - Refine debug-msg printing selection (3 new levels):
79        debugMode  : controls printing of debug messages (sequence of S/R calls).
80        debugLevel : controls printing of algorithm-relevant auxiliary/debug messages
81         debLevZero =  0 ; /* level of disabled aux. msg printing */
82         debLevA =  1 ; /* level of minimum  aux. msg printing */
83         debLevB =  2 ; /* level of low aux. print (report read-file opening)*/
84         debLevC =  3 ; /* level of moderate debug prt (most pkgs debug msg) */
85         debLevD =  4 ; /* level of enhanced debug prt (add DEBUG_STATS prt) */
86         debLevE =  5 ; /* level of extensive debug printing */
87        New debugLevel default: with default debugMode value (=F),
88          = 2 (debLevB) or = 1 (debLevA) in case ALLOW_AUTODIFF is defined.;
89          and if debugMode=T, default debugLevel = 4 (debLevD).
90        Relation with previous settings:
91         debLevB (=2) corresponds to former debLevA (=1)
92         debLevD (=4) corresponds to former debLevB (=2)
93        Note:
94         a) if debugLevel=0, skip WRITE_GRID call when nIter0 > 0 (same as before);
95         b) default debugLevel=1 is convenient in AD runs (avoid many file opening msgs);
96            to recover previous default, set debugLevel=2 (e.g. AD-test hs94.1x64x5)
97      - Add new parameter (printResidualFreq, read from PARM02 namelist) to print
98        detailed CG solvers convergence; off (=0) by default, except if debugLevel=5.
99    o pkg/obcs:
100      - change OBCSfixTopo default from True to False (should not change the results);
101        keep OBCSfixTopo=T in verification-exp. seaice_obcs.
102    o pkg/thsice:
103      - fix bug in thsice_calc_thickn.F (was introduced in version 1.18) in
104        2nd layer seaice sublimation (unlikely to happen)
105      - use Interior mask for OBCS in thsice_advection.F (similar to what is
106        done in gad_advection & seaice_advection).
107    o adjoint:
108      bug fix spotted by Gael Forget:
109      seaice_advection and thsice_advection still had
110      legacy CPP options to avoid CS corner updates for adjoint
111    o pkg/seaice:
112      => Change some of the defaults (2011/05/29):
113         - change SEAICEuseFluxForm default (from False to True)
114         - change DIFF1 default (from 0.004 m/s to 0. m/s)
115         And print warnings if DIFF1 is not set in data.seaice and centered
116          avection scheme is used without any diffusion.
117      also:
118      - fix seaice_diffusion calls in default AdvScheme part of seaice_advdiff.F;
119      - set SEAICEdiffKh[] default in the same way as SEAICEadvSch[]
120      - stop if DIFF1<>0 with SEAICEadvScheme <> 2, if DIFF1<>0 with any
121        other non-zero SEAICEdiffKh[] diffusivity, if SEAICEadvSalt=T with
122        #undef SEAICE_VARIABLE_SALINITY, if SEAICEadvAge=T with #undef SEAICE_AGE.
123      update results of test exp.:
124         lab_sea: output.fd (switch to AdvScheme=33 with diffKh=20)
125             output.hb87, output_adm.evp (SEAICEuseFluxForm=T and diffKh=200)
126             output_adm.noseaicedyn (SEAICEuseFluxForm=T)
127         offline_exf_seaice: output.seaicetd, output_adm (SEAICEuseFluxForm=T)
128         seaice_obcs: output (SEAICEuseFluxForm=T)
129      and prescribe old default for SEAICEuseFluxForm (=F) and DIFF1 (=0.004)
130          for standard fwd & AD lab_sea tests (to keep the same output).
131    o pkg/seaice/seaice_growth.F:
132      - use Ian Fenty's capping formulas for actual ice
133      thickness thoughout EVOLUTION branch.
134      - put treatment pathological case #2) in CPP brackets
135      (ALLOW_AVOID_INFINITESIMAL_AREA, undef by default).
136      - update global_ocean.cs32x15 and 1D_ocean_ice_colum results accordingly.
137    o pkg/seaice:
138      - seaice_diffusion.F : remove the min(DX,DY) factor permanently;
139      pass the Laplacian diffusivity (in m^2/s) diffKh as a parameter;
140      also pass fac as a param, which can be 1. (to update the tendency
141      field) or the time step (to update the field itself).
142      - seaice_advdiff.F: for multidim, call seaice_diffusion with
143      e.g. SEAICEdiffKhHeff and with fac=1; for single-dim, call
144      seaice_diffusion with e.g. SEAICEdiffKhHeff and with fac=time step.
145      - SEAICE_PARAMS.h, seaice_readparms.F, seaice_check.F :
146      hooks to handle SEAICEdiffKhHeff, SEAICEdiffKhArea, etc.
147    o pkg/seaice:
148      diffusion with centered advection scheme (diffus.F & advect.F):
149      - simplify S/R DIFFUS (put deltaT & DIFF1 factor outside, move EXCH outside)
150        to just compute the laplacian of input-field.
151      - unroll k loop (harmonic,biharmonic diff) in advect.F to save 1 exch call.
152      - fix flux-form version in diffus.F to conserve tracer.
153      update output of lab_sea.fd & lab_sea.hb87 (1rst set of modif affects
154       machine truncation) and lab_sea.salt_plume (conservative flux-form modif)
155    
156    checkpoint62y (2011/05/26)
157    o pkg/seaice:
158     - seaice_growth.F : in EVOLUTION branch, always include
159     a_QSWbyATM_cover in qnet (as it should be).     a_QSWbyATM_cover in qnet (as it should be).
160   - verification/global_ocean.cs32x15 : update results accordingly   - verification/global_ocean.cs32x15 : update results accordingly
161     (output.seaice.txt output_adm.seaice.txt).     (output.seaice.txt output_adm.seaice.txt).
162  o pkg/seaice + obcs:  o pkg/seaice + obcs:
163   - use maskInW & maskInS in multi-dim advection and biharmonic diffusion:   - use maskInW & maskInS in multi-dim advection and biharmonic diffusion:
164     equivalent of assuming no tracer gradient outside the OB region.     equivalent of assuming no tracer gradient outside the OB region.
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