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revision 1.821 by jmc, Thu May 24 23:10:12 2007 UTC revision 1.872 by dimitri, Sat Sep 15 01:38:59 2007 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/seaice: adding ice salinity HSALT as a prognostic variable
8    o pkg/seaice: changes for using pkg/seaice with pkg/obcs
9    o pkg/ecco: allow user defined cost function contributions
10    o testreport:
11      Allow to choose (per experiment) the list of tested output variables
12       and the main variable (used to issue a pass/FAIL ) ;
13      - for now, done by adding the specific list in file: [exp]/input/tr_checklist
14      - default is unchange: >cg2d< , (T,S,U,V,5 tracers)_[min,max,mean,StD] ;
15      Also modify printing of summary:
16       a) ">" NN "<" indicates the "main" variable (used for pass/FAIL)
17       b) echo the list of tested variables in the individual summary.txt of
18          each experiment.
19    o new S/R GLOBAL_SUM_TILE to compute global sum independently of number of
20      threads and number of processes (with #define GLOBAL_SUM_SEND_RECV)
21      (but still depend on the tile decompostion of the domain).
22    o pkg/seaice: change a discretization detail to make the B-grid code
23      "more symmetric". This change is likely to remove all "ridges/leads" that
24      where quasi-aligned with the grid in B-grid solutions. It may also be
25      the solution to the stress coupling issues with the B-grid.
26    o each tested exp: add a "run" directory with a standard ".cvsignore" file ;
27      remove .cvsignore from input dir. (since testreport no longer run here).
28    o pkg/thsice:
29     - cleaning: move common block out of "THSICE_2DYN.h" (removed) to "THSICE_VARS.h"
30     - fix reshaping of sea-ice just after advection:
31       melt all the ice only if ice-volume is too small.
32     - re-visit lateral/thinning repartition of melting (modifs from May 04, 2007):
33       prevent lateral melting if sea-ice fraction is too close to iceMaskMin ;
34     and update experiment global_ocean.cs32x15.icedyn (+start from pickup files).
35    o external_forcing_surf : extend the use of salt_EvPrRn & temp_EvPrRn (fresh-water
36      tracer content) to linFS or no RealFreshWaterFlux ; default remains unchanged.
37    o define mass2rUnit & rUnit2mass as units conversion factor, used for surface
38      forcing. mass2rUnit: from mass per unit area [kg/m2] to r-coordinate unit
39      (z-coord: =1/rhoConst ; p-coord: =gravity) ; rUnit2mass is just the reverse;
40      and remove horiVertRatio (& recip_horiVertRatio). Affects truncation error
41      of exp. global_oce_in_p: 10 16 16 14 16 13 16 16 16 13 13 13 16 13 13 12 16
42      -> update output.txt
43    o pkg/cd_code: add brackets in multiple terms sum (S/R CD_CODE_SCHEME):
44     this affects truncation error: -> update output.txt of exp:
45      global_ocean.90x40x15 (fw&adm), lab_sea (fw&adm) & lab_sea.lsr,
46      ideal_2D_oce, isomip.htd, natl_box, tutorial_global_oce_latlon.
47    
48    checkpoint59f
49    o pkg/autodiff: zero_adj resets an ajoint variable to zero (in adjoint mode)
50    o pkg/ctrl: ctrl_bound  forces parameter corrections to stay in
51      a bounded range (in forward mode)
52    o pkg/ecco, ctrl, autodiff and mom_common:
53     internal parameter controls, completements of implementations
54    o add few EXCH S/R (UV_BGRID, UV_DGRID, SM) for B & D-Grid velocity & 2nd Moment Sxy.
55    o use UV_BGRID exch for dxV,dyU: for now, only with pkg/exch2 & forward ;
56      (not seem any difference in testing results).
57    o pkg/cd_code: use the right EXCH calls (for CS-grid); but problem remains
58       at face corners.
59    o pkg/generic_advdiff:
60     - in GAD.h, define as parameters (iMinAdvR,iMaxAdvR,jMinAdvR,jMaxAdvR)
61      loop range indices for computing vertical advection tendency
62      and do the calculation in the interior only (no overlap) ;
63      for now, only implemented for SOM advection (to save CPU time).
64     - add argument "withSigns" to S/R FILL_CS_CORNER_TR_RL (needed for SOM_xy moment)
65    o exch2 adjoint
66      First set of changes:
67      - add exch2 hand-written adjoint templates
68      - exch2 hand-written no longer use TAF-flag 'nownew_arg'
69        This will require cleanup in pkg/autodiff/*.F
70        (changed routines currently kept separate in verif. code/)
71      - Comment all relevant #ifndef ALLOW_AUTODIFF_TAMC
72        that used to hide exch2 or cubed-sphere specific code
73        (commented via 'cph-exch2')
74    o pkg/seaice
75      - Close southern and western boundaries for UICE/VICE when useOBCS=.TRUE.
76    o pkg/bulk_force: fix loading into Qsw of Short-Wave flux; and update
77       output of global_ocean.cs32x15.thsice .
78    
79    checkpoint59e
80    o exch2: new S/R that only use the cube-tracer (center-position) exchange:
81      for B-grid vector (not yet tested) and C-grid vector (<- only used
82      when option W2_USE_R1_ONLY in W2_OPTIONS.h is defined).
83    o starting implementation of Duffy et al. (GRL 1999) salt plume scheme
84      (#ifdef ALLOW_SALT_PLUME)
85    o gather_2d/scatter_2d: removed halo regions
86    o gmredi: add option (GM_taper_scheme='fm07') for Ferrari & McWilliams 2007
87      scheme and the corresponding test case (under front_relax dir). For now,
88      only available with Skew-flux form and not yet tested in realistic set-up.
89      adjoint: store directives updated, but gradient checks deteriorated,
90      so maybe GM/Redi adjoint is now broken.
91    o seaice adjoint
92      * add AREA, HEFF, HSNOW as control variable
93        (should not change lab_sea results)
94      * CTRL_OPTIONS.h needs new flag: CTRL_SET_OLD_MAXCVARS_40
95    o pkg/seaice:
96      * added computation of saltFlux in seaice_growth;
97        For time being, sea ice salinity is assumed constant
98        contribution of snow flooding to freshening of sea ice is neglected.
99        SEAICE_salinity is set in SEAICE_PARM01 of data.seaice and it
100        defaults to 0.0 in order to maintain backward compatibility.
101        Typical values for SEAICE_salinity are 4 to 10 g/kg.
102      * replaced dRf(1) with dRf(kSurface)*hFacC(kSurface) in seaice_growth.F
103      * added SEAICE_availHeatFrac, which specifies fraction of surface level
104        heat content used to melt or grow ice
105      * commented out cap of HICE: it helps keep ice thinner
106      * reintroduced cap of HEFF via MAX_HEFF and SEAICE_CAP_HEFF option
107      * applied OBCS T/S mask to HEFFM sea ice mask
108    
109    checkpoint59d
110    o standard name: {PKG}_DIAGNOSTICS_STATE to fill diagnostics array
111     for {PKG} state variables, and called from DO_STATEVARS_DIAGS.
112     (keep {PKG}_DIAGNOSTICS_FILL for non-state variables diagnostics)
113    o pkg/gmredi (gmredi_readparms.F): add some missing "_d 0"
114     and change default value of parameter "GM_Small_Number";
115     update output of exp: lab_sea (x2), cfc_example, global_ocean.90x40x15,
116       global_ocean.cs32x15 (x4), global_ocean_ebm, global_with_exf,  
117       tutorial_global_oce_biogeo, tutorial_global_oce_latlon
118    o pkg/ecco: cost function when applying pkg/smooth to controls
119    o pkg/ctrl: add forcingPrecond run time parameter
120    o pkg/seaice:
121     - replace ZMIN=4.e8 with ZMIN=0. in dynsolver.F as in C-grid code
122     - fix bug in metric terms of u-equation in LSR solver (implicit part),
123       changes verification/lab_sea
124     - rearrange implicit part of u-equation in LSR solver to make it easier to
125       read, understand, and debug. This causes changes at the truncation level.
126     - fix (serious) bug in the boundary conditions (sign error in the implicit
127       part) of the LSR solver. Changes all LSR results.
128     - fixed problem with HSNOW initialization to avoid thick snow when AREA
129       is initilized with small values - does not change lab_sea results.
130     - added HsnowFile initialization capability
131    o pkg/smooth: addition to model/src and pkg/ctrl so allow
132     initialization of pkg/smooth and application to control vector
133    o pkg/seaice: fix another bug in the LSR no-slip boundary conditons
134    o dependencies: pkg/profiles requires pkg/cal
135    o pkg/profiles:
136     - added option ALLOW_PROFILES_GENERICGRID
137         -> pkg/profiles can thus be used with any grid (e.g. cs32x15) assuming
138         that interpolation information (grid points and coefficients) is provided
139         within the netcdf input files.
140         -> sample matlab scripts can be found in MITgcm_contrib/gael
141         that allow you to prepare netcdf input files.
142     - also modified: cleaner include statements, cleaner error print statements,
143       cleaner stops when error, and more tests of the netcdf input files consistency.
144    o additional test (in global_ocean.cs32x15) using seaice+thsice pkgs.
145    o pkg/seaice:
146     - move seaice-diagnostics from seaice_do_diags to do_statevars_diags; this
147       requires a new routine: seaice_diagnostics_fill.F
148     - make sure that seaice does not move if not forced (pressure replacement
149       method, Hibler and Ip, 1995), changes results
150     - and new damping criterion for EVP solver according to Hunke, JCP, 2001
151     - SEAICE_evpDampC = > 0. turns it on (615. is the recommended value).
152       It is turned off by default (=-1.), because it changes the results.
153     - make it possible to read AREA from a file, too.
154    
155    checkpoint59c
156    o add S/R and diagnostics for oceanic mixed-layer depth
157    o move GMRedi call after all vertical mixing schemes (including KPP)
158    o pkg/thsice:
159     - ensure iceMask > iceMaskMin : this problem appeared after May-04 modifs
160      (melt only laterally if thin ice): update output of global_ocean.cs32x15.thsice
161    o pkg/obcs:
162     - bug fix for balance code
163    o pkg/seaice:
164      - allow values of SEAICE_elasticParm > 1
165      - add new parameter SEAICE_evpTauRelax as an alternative
166        to SEAICE_elasticParm
167      - make lsr boundary conditions free slip (by default), changes result
168      - add code for no slip boundary conditions for lsr
169      - set minimum of zeta to zero (and not 4e8) (changes results)
170      - add a cap on AREA after advecting AREA if seaice_growth is not called
171  o change calculation of Visbeck K:  o change calculation of Visbeck K:
172    - no longer depend on tapering scheme; instead, compute slope (limited    - no longer depend on tapering scheme; instead, compute slope (limited
173      by GM_maxSlope). this is equivalent to what was comuted before with      by GM_maxSlope). this is equivalent to what was comuted before with
174      clipping or linear tappering.      clipping or linear tappering.
175    - fix vertical averaging (wrong by 1 level)    - fix vertical averaging (wrong by 1/2 level)
176    - leave the old version (but will not be maintained) within    - leave the old version (but will not be maintained) within
177      #ifdef OLD_VISBECK_CALC / #endif      #ifdef OLD_VISBECK_CALC / #endif
178      - update output of exp. ideal_2D_oce
179  o change error catch in calc_r_star to improve vectorization  o change error catch in calc_r_star to improve vectorization
180  o exf runoff and seaice: remove ALLOW_SEAICE from exf pkg files and  o exf runoff and seaice: remove ALLOW_SEAICE from exf pkg files and
181    add #define ALLOW_RUNOFF in SEAICE_OPTIONS.h (when not using exf).    add #define ALLOW_RUNOFF in SEAICE_OPTIONS.h (when not using exf).
182    o adjoint:
183      Re-organized adjoint checkpointing according to Matt Mazloff
184      (but with modifs/completions/cleanups)
185      Storing is now bundled into large arrays to optimized I/O
186      (and second step in cleanup of the_main_loop)
187    
188  checkpoint59b  checkpoint59b
189  o coupler (pkg/atm_ocn_coupler, pkg/ocn_compon_interf, pkg/atm2d):  o coupler (pkg/atm_ocn_coupler, pkg/ocn_compon_interf, pkg/atm2d):
# Line 67  o pkg/exf: some cleaning-up: Line 237  o pkg/exf: some cleaning-up:
237  o pkg/thsice:  o pkg/thsice:
238   fix few little problems, in thsice_calc_thickn.F:   fix few little problems, in thsice_calc_thickn.F:
239    - growth vertically (and not laterally) if iceFrac == iceMaskMax    - growth vertically (and not laterally) if iceFrac == iceMaskMax
240    - melt laterally only if hIce < hThinIce (as the comments say)    - melt only laterally if hIce < hThinIce (as the comments say)
241    and in thsice_extend.F:    and in thsice_extend.F:
242    - allow to form ice even when iceFrac == iceMaskMax (by increasing thickness)    - allow to form ice even when iceFrac == iceMaskMax (by increasing thickness)
243    - start to form ice as soon as the minimum ice-volume is reachable.    - start to form ice as soon as the minimum ice-volume is reachable.
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