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revision 1.1442 by gforget, Wed May 25 23:56:29 2011 UTC revision 1.1464 by ifenty, Fri Jun 24 15:51:59 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 verification 1D_ocean_ice_column:
8       made model domain truly 1x1x23 instead of 5x5x23 with only center cell (3,3,:) wet
9       update results
10    o pkg/diagnostics:
11     - Implement setting of "Post-Processed" diagnostics (corresponding to gdiag(5)='P')
12       which are not filled-up but computed from other diags ; In this case, the mate
13       diag points to the primary (filled-up) diag to used for post processing.
14     - Update Velocity-potential computation using post-processed diag framework.
15     ==> Change the ordering of fields and time-periods in MDS output file
16       when using periodic averaging: now writes one time record with the full set
17       of fields for this time period, then the next time reccord (it used to be
18       one field with the full set of time records then the next field).
19         Note: this is now similar to NetCDF (MNC) output file. <==
20     - Extend the use of "missing_value" setting from data.diagnostics for the case
21       of counter-diagnostics (where fraction-weight is zero). This applies both to
22       MNC and MDS output files.
23    
24    checkpoint62z (2011/06/21)
25    o adjoint monitor:
26     - Add adjoint monitor output for packages exf, seaice
27       and update relevant testreport output
28    o pkg/seaice:
29     - re-order diags inits so that they appear in order in available_diagnostics.log
30     - added diags: hsnow thermo. rates of change, area preceeding ridiging process,
31       area/heff/hsnow preceeding thermodynamic growth/melt.
32     - modified diag: SIdA; output actual effect, as the description states.
33     - modified description: SIqneti, SIqneto, SIuheff, SIvheff, SIdAb*, HSNOW.
34     - retired redundant diags: SIyneg, SIfice, SIsnwice, SIthdgrh.
35       (SIyneg->SIdHbOCN; SIfice->SIdHbATC; SIsnwice->SIdHbFLO;
36        and SIthdgrh->SIdHbOCN+SIdHbATC+SIdHbATO)
37     - modified diags (2) : switch all SIdA*, SIdH*, SIdS* from delta to rates.
38     - added diagnostics for seaice generic tracers (SItr*).
39     - added SItrUnit and SItrNameLong run time param (for SItr* diags).
40     - in diag names, replaced 'PrTh' abbrev. of 'preceeding thermo' with 'PT'.
41     I. Fenty: 18-Jun-2011:
42     Minor changes to seaice package:
43     1) Retired old variables (A22, SEAICE_lhsublim, areaMax, areaMin, hiceMin) and
44        added some new ones (SEAICE_area_reg, SEAICE_hice_reg, SEAICE_area_floor)
45       - Differentiated "regularization variables" from "floor variables"
46        * areaMin became SEAICE_area_reg (old A22) and SEAICE_area_floor
47        * hiceMin became SEAICE_hice_reg (old hiceMin)
48          (with _reg meaning regularization variable)
49       - SEAICE_lhSublim becomes lhSublim, the sum of SEAICE_lhEvap and SEAICE_lhFusion
50        so as to ensure energy conservation when going between phases
51      - A22 was not used anywhere
52     2) Changed regularization procedure for heffActual and hsnowActual to ensure
53        well-boundedness and smooth adjoint in seaice_growth.F
54     3) Fixed a bug where seaice_solve4temp would not recognize ice-free grid cells
55        because the old regularization always set heffActual >= 0.05 cm
56     4) Changed the model so that the default behavior is to put a small (10^-5) "floor"
57        on AREA when HEFF > 0.
58      - went from requiring ALLOW_PRECLUDE_INFINITESIMAL_AREA to be defined to
59        requiring that DISABLE_AREA_FLOOR *not* be defined
60     Affected verifications:
61      - 1D_ocean_ice_column (output.txt output_adm.txt)
62      - global_ocean.cs32x15 (output.seaice.txt output_adm.seaice.txt)
63    o pkg/diagnostics:
64      - move MNC code from diagnostics_out.F into new diagnostics_mnc_out.F (2 S/R).
65      - rename S/R GETDIAG to DIAGNOSTICS_GET_DIAG and change type of 1rst argument
66        (was _RL, now integer) with option = 0 to retrieve all levels.
67      - add pieces of code to compute velocity potential at each level (new diagnostics
68        PhiVEL, works only when UVELMASS & VVELMASS are also turned on);
69        for now, using same params as CG2D (target-resisual, max Nb of iter ...).
70      - fix few issues with counter diagnostics in diagnostics_setdiag.F &
71        diagstats_setdiag.F (if diagnostic counter is itself a counter diag)
72        and in diagnostics_fract_fill.F (do not need a valid pointer for the
73        diagnostics counter-mate); check that definition of counter-diagnostic
74        includes a valid counter-mate (in diagnostics_set_levels.F).
75    o model/src (rStar):
76      - add rStar scaling factor in diags_phi_hyd.F (similar to calc_grad_phi_hyd.F);
77        affect solution only if z* with full pressure in EOS;
78        update output of test-exp global_ocean.90x40x15.
79    o pkg/seaice:
80      - introduce siEps=1e-5 parameter
81      - use areaMax in AREA update (part 4), consistent with ridging step (part 2.5).
82      - re-organize SEAICE_ADD_SUBLIMATION_TO_FWBUDGET code.
83      - introduce ALLOW_SITRACER and seaice_tracer_phys.F to handle generic seaice tracer.
84        For now it covers, and was tested for, ice salinity and age (attached to HEFF),
85        as well as ice cover age and ridging index (attached to AREA).
86        For now the run time parameters (in data.seaice/SEAICE_PARM03) are
87        SItrName (e.g. 'age') and SItrMate ('HEFF', which is the default, or 'AREA').
88        Up to SItrMaxNum=3 tracers can be used simultaneously.
89    o pkg/salt_plume:
90      -introduce SPsalFRAC run time parameter that sets the fraction of the
91       salt by-product of ice growth (SPsalFRAC*(1-SIsalFRAC)*salt typically)
92       that gets vertically redistributed (fluxed down) by pkg/salt_plume.
93    o model debug options:
94      - Switch reading of debugMode from S/R INI_PARMS (parameter file "data", stored
95        in PARAMS.h) to S/R EESET_PARMS (parameter file "eedata", stored in EEPARAMS.h).
96      - Refine debug-msg printing selection (3 new levels):
97        debugMode  : controls printing of debug messages (sequence of S/R calls).
98        debugLevel : controls printing of algorithm-relevant auxiliary/debug messages
99         debLevZero =  0 ; /* level of disabled aux. msg printing */
100         debLevA =  1 ; /* level of minimum  aux. msg printing */
101         debLevB =  2 ; /* level of low aux. print (report read-file opening)*/
102         debLevC =  3 ; /* level of moderate debug prt (most pkgs debug msg) */
103         debLevD =  4 ; /* level of enhanced debug prt (add DEBUG_STATS prt) */
104         debLevE =  5 ; /* level of extensive debug printing */
105        New debugLevel default: with default debugMode value (=F),
106          = 2 (debLevB) or = 1 (debLevA) in case ALLOW_AUTODIFF is defined.;
107          and if debugMode=T, default debugLevel = 4 (debLevD).
108        Relation with previous settings:
109         debLevB (=2) corresponds to former debLevA (=1)
110         debLevD (=4) corresponds to former debLevB (=2)
111        Note:
112         a) if debugLevel=0, skip WRITE_GRID call when nIter0 > 0 (same as before);
113         b) default debugLevel=1 is convenient in AD runs (avoid many file opening msgs);
114            to recover previous default, set debugLevel=2 (e.g. AD-test hs94.1x64x5)
115      - Add new parameter (printResidualFreq, read from PARM02 namelist) to print
116        detailed CG solvers convergence; off (=0) by default, except if debugLevel=5.
117    o pkg/obcs:
118      - change OBCSfixTopo default from True to False (should not change the results);
119        keep OBCSfixTopo=T in verification-exp. seaice_obcs.
120    o pkg/thsice:
121      - fix bug in thsice_calc_thickn.F (was introduced in version 1.18) in
122        2nd layer seaice sublimation (unlikely to happen)
123      - use Interior mask for OBCS in thsice_advection.F (similar to what is
124        done in gad_advection & seaice_advection).
125    o adjoint:
126      bug fix spotted by Gael Forget:
127      seaice_advection and thsice_advection still had
128      legacy CPP options to avoid CS corner updates for adjoint
129    o pkg/seaice:
130      => Change some of the defaults (2011/05/29):
131         - change SEAICEuseFluxForm default (from False to True)
132         - change DIFF1 default (from 0.004 m/s to 0. m/s)
133         And print warnings if DIFF1 is not set in data.seaice and centered
134          avection scheme is used without any diffusion.
135      also:
136      - fix seaice_diffusion calls in default AdvScheme part of seaice_advdiff.F;
137      - set SEAICEdiffKh[] default in the same way as SEAICEadvSch[]
138      - stop if DIFF1<>0 with SEAICEadvScheme <> 2, if DIFF1<>0 with any
139        other non-zero SEAICEdiffKh[] diffusivity, if SEAICEadvSalt=T with
140        #undef SEAICE_VARIABLE_SALINITY, if SEAICEadvAge=T with #undef SEAICE_AGE.
141      update results of test exp.:
142         lab_sea: output.fd (switch to AdvScheme=33 with diffKh=20)
143             output.hb87, output_adm.evp (SEAICEuseFluxForm=T and diffKh=200)
144             output_adm.noseaicedyn (SEAICEuseFluxForm=T)
145         offline_exf_seaice: output.seaicetd, output_adm (SEAICEuseFluxForm=T)
146         seaice_obcs: output (SEAICEuseFluxForm=T)
147      and prescribe old default for SEAICEuseFluxForm (=F) and DIFF1 (=0.004)
148          for standard fwd & AD lab_sea tests (to keep the same output).
149    o pkg/seaice/seaice_growth.F:
150      - use Ian Fenty's capping formulas for actual ice
151      thickness thoughout EVOLUTION branch.
152      - put treatment pathological case #2) in CPP brackets
153      (ALLOW_AVOID_INFINITESIMAL_AREA, undef by default).
154      - update global_ocean.cs32x15 and 1D_ocean_ice_colum results accordingly.
155    o pkg/seaice:
156      - seaice_diffusion.F : remove the min(DX,DY) factor permanently;
157      pass the Laplacian diffusivity (in m^2/s) diffKh as a parameter;
158      also pass fac as a param, which can be 1. (to update the tendency
159      field) or the time step (to update the field itself).
160      - seaice_advdiff.F: for multidim, call seaice_diffusion with
161      e.g. SEAICEdiffKhHeff and with fac=1; for single-dim, call
162      seaice_diffusion with e.g. SEAICEdiffKhHeff and with fac=time step.
163      - SEAICE_PARAMS.h, seaice_readparms.F, seaice_check.F :
164      hooks to handle SEAICEdiffKhHeff, SEAICEdiffKhArea, etc.
165    o pkg/seaice:
166      diffusion with centered advection scheme (diffus.F & advect.F):
167      - simplify S/R DIFFUS (put deltaT & DIFF1 factor outside, move EXCH outside)
168        to just compute the laplacian of input-field.
169      - unroll k loop (harmonic,biharmonic diff) in advect.F to save 1 exch call.
170      - fix flux-form version in diffus.F to conserve tracer.
171      update output of lab_sea.fd & lab_sea.hb87 (1rst set of modif affects
172       machine truncation) and lab_sea.salt_plume (conservative flux-form modif)
173    
174    checkpoint62y (2011/05/26)
175  o pkg/seaice:  o pkg/seaice:
176   - seaice_growth.F : in EVOLUTION branch, always include   - seaice_growth.F : in EVOLUTION branch, always include
177     a_QSWbyATM_cover in qnet (as it should be).     a_QSWbyATM_cover in qnet (as it should be).
178   - verification/global_ocean.cs32x15 : update results accordingly   - verification/global_ocean.cs32x15 : update results accordingly
179     (output.seaice.txt output_adm.seaice.txt).     (output.seaice.txt output_adm.seaice.txt).
180  o pkg/seaice + obcs:  o pkg/seaice + obcs:
181   - use maskInW & maskInS in multi-dim advection and biharmonic diffusion:   - use maskInW & maskInS in multi-dim advection and biharmonic diffusion:
182     equivalent of assuming no tracer gradient outside the OB region.     equivalent of assuming no tracer gradient outside the OB region.
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