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revision 1.824 by mlosch, Wed May 30 09:27:05 2007 UTC revision 1.871 by dimitri, Fri Sep 14 02:07:37 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: changes for using pkg/seaice with pkg/obcs
8    o pkg/ecco: allow user defined cost function contributions
9    o testreport:
10      Allow to choose (per experiment) the list of tested output variables
11       and the main variable (used to issue a pass/FAIL ) ;
12      - for now, done by adding the specific list in file: [exp]/input/tr_checklist
13      - default is unchange: >cg2d< , (T,S,U,V,5 tracers)_[min,max,mean,StD] ;
14      Also modify printing of summary:
15       a) ">" NN "<" indicates the "main" variable (used for pass/FAIL)
16       b) echo the list of tested variables in the individual summary.txt of
17          each experiment.
18    o new S/R GLOBAL_SUM_TILE to compute global sum independently of number of
19      threads and number of processes (with #define GLOBAL_SUM_SEND_RECV)
20      (but still depend on the tile decompostion of the domain).
21    o pkg/seaice: change a discretization detail to make the B-grid code
22      "more symmetric". This change is likely to remove all "ridges/leads" that
23      where quasi-aligned with the grid in B-grid solutions. It may also be
24      the solution to the stress coupling issues with the B-grid.
25    o each tested exp: add a "run" directory with a standard ".cvsignore" file ;
26      remove .cvsignore from input dir. (since testreport no longer run here).
27    o pkg/thsice:
28     - cleaning: move common block out of "THSICE_2DYN.h" (removed) to "THSICE_VARS.h"
29     - fix reshaping of sea-ice just after advection:
30       melt all the ice only if ice-volume is too small.
31     - re-visit lateral/thinning repartition of melting (modifs from May 04, 2007):
32       prevent lateral melting if sea-ice fraction is too close to iceMaskMin ;
33     and update experiment global_ocean.cs32x15.icedyn (+start from pickup files).
34    o external_forcing_surf : extend the use of salt_EvPrRn & temp_EvPrRn (fresh-water
35      tracer content) to linFS or no RealFreshWaterFlux ; default remains unchanged.
36    o define mass2rUnit & rUnit2mass as units conversion factor, used for surface
37      forcing. mass2rUnit: from mass per unit area [kg/m2] to r-coordinate unit
38      (z-coord: =1/rhoConst ; p-coord: =gravity) ; rUnit2mass is just the reverse;
39      and remove horiVertRatio (& recip_horiVertRatio). Affects truncation error
40      of exp. global_oce_in_p: 10 16 16 14 16 13 16 16 16 13 13 13 16 13 13 12 16
41      -> update output.txt
42    o pkg/cd_code: add brackets in multiple terms sum (S/R CD_CODE_SCHEME):
43     this affects truncation error: -> update output.txt of exp:
44      global_ocean.90x40x15 (fw&adm), lab_sea (fw&adm) & lab_sea.lsr,
45      ideal_2D_oce, isomip.htd, natl_box, tutorial_global_oce_latlon.
46    
47    checkpoint59f
48    o pkg/autodiff: zero_adj resets an ajoint variable to zero (in adjoint mode)
49    o pkg/ctrl: ctrl_bound  forces parameter corrections to stay in
50      a bounded range (in forward mode)
51    o pkg/ecco, ctrl, autodiff and mom_common:
52     internal parameter controls, completements of implementations
53    o add few EXCH S/R (UV_BGRID, UV_DGRID, SM) for B & D-Grid velocity & 2nd Moment Sxy.
54    o use UV_BGRID exch for dxV,dyU: for now, only with pkg/exch2 & forward ;
55      (not seem any difference in testing results).
56    o pkg/cd_code: use the right EXCH calls (for CS-grid); but problem remains
57       at face corners.
58    o pkg/generic_advdiff:
59     - in GAD.h, define as parameters (iMinAdvR,iMaxAdvR,jMinAdvR,jMaxAdvR)
60      loop range indices for computing vertical advection tendency
61      and do the calculation in the interior only (no overlap) ;
62      for now, only implemented for SOM advection (to save CPU time).
63     - add argument "withSigns" to S/R FILL_CS_CORNER_TR_RL (needed for SOM_xy moment)
64    o exch2 adjoint
65      First set of changes:
66      - add exch2 hand-written adjoint templates
67      - exch2 hand-written no longer use TAF-flag 'nownew_arg'
68        This will require cleanup in pkg/autodiff/*.F
69        (changed routines currently kept separate in verif. code/)
70      - Comment all relevant #ifndef ALLOW_AUTODIFF_TAMC
71        that used to hide exch2 or cubed-sphere specific code
72        (commented via 'cph-exch2')
73    o pkg/seaice
74      - Close southern and western boundaries for UICE/VICE when useOBCS=.TRUE.
75    o pkg/bulk_force: fix loading into Qsw of Short-Wave flux; and update
76       output of global_ocean.cs32x15.thsice .
77    
78    checkpoint59e
79    o exch2: new S/R that only use the cube-tracer (center-position) exchange:
80      for B-grid vector (not yet tested) and C-grid vector (<- only used
81      when option W2_USE_R1_ONLY in W2_OPTIONS.h is defined).
82    o starting implementation of Duffy et al. (GRL 1999) salt plume scheme
83      (#ifdef ALLOW_SALT_PLUME)
84    o gather_2d/scatter_2d: removed halo regions
85    o gmredi: add option (GM_taper_scheme='fm07') for Ferrari & McWilliams 2007
86      scheme and the corresponding test case (under front_relax dir). For now,
87      only available with Skew-flux form and not yet tested in realistic set-up.
88      adjoint: store directives updated, but gradient checks deteriorated,
89      so maybe GM/Redi adjoint is now broken.
90    o seaice adjoint
91      * add AREA, HEFF, HSNOW as control variable
92        (should not change lab_sea results)
93      * CTRL_OPTIONS.h needs new flag: CTRL_SET_OLD_MAXCVARS_40
94    o pkg/seaice:
95      * added computation of saltFlux in seaice_growth;
96        For time being, sea ice salinity is assumed constant
97        contribution of snow flooding to freshening of sea ice is neglected.
98        SEAICE_salinity is set in SEAICE_PARM01 of data.seaice and it
99        defaults to 0.0 in order to maintain backward compatibility.
100        Typical values for SEAICE_salinity are 4 to 10 g/kg.
101      * replaced dRf(1) with dRf(kSurface)*hFacC(kSurface) in seaice_growth.F
102      * added SEAICE_availHeatFrac, which specifies fraction of surface level
103        heat content used to melt or grow ice
104      * commented out cap of HICE: it helps keep ice thinner
105      * reintroduced cap of HEFF via MAX_HEFF and SEAICE_CAP_HEFF option
106      * applied OBCS T/S mask to HEFFM sea ice mask
107    
108    checkpoint59d
109    o standard name: {PKG}_DIAGNOSTICS_STATE to fill diagnostics array
110     for {PKG} state variables, and called from DO_STATEVARS_DIAGS.
111     (keep {PKG}_DIAGNOSTICS_FILL for non-state variables diagnostics)
112    o pkg/gmredi (gmredi_readparms.F): add some missing "_d 0"
113     and change default value of parameter "GM_Small_Number";
114     update output of exp: lab_sea (x2), cfc_example, global_ocean.90x40x15,
115       global_ocean.cs32x15 (x4), global_ocean_ebm, global_with_exf,  
116       tutorial_global_oce_biogeo, tutorial_global_oce_latlon
117    o pkg/ecco: cost function when applying pkg/smooth to controls
118    o pkg/ctrl: add forcingPrecond run time parameter
119    o pkg/seaice:
120     - replace ZMIN=4.e8 with ZMIN=0. in dynsolver.F as in C-grid code
121     - fix bug in metric terms of u-equation in LSR solver (implicit part),
122       changes verification/lab_sea
123     - rearrange implicit part of u-equation in LSR solver to make it easier to
124       read, understand, and debug. This causes changes at the truncation level.
125     - fix (serious) bug in the boundary conditions (sign error in the implicit
126       part) of the LSR solver. Changes all LSR results.
127     - fixed problem with HSNOW initialization to avoid thick snow when AREA
128       is initilized with small values - does not change lab_sea results.
129     - added HsnowFile initialization capability
130    o pkg/smooth: addition to model/src and pkg/ctrl so allow
131     initialization of pkg/smooth and application to control vector
132    o pkg/seaice: fix another bug in the LSR no-slip boundary conditons
133    o dependencies: pkg/profiles requires pkg/cal
134    o pkg/profiles:
135     - added option ALLOW_PROFILES_GENERICGRID
136         -> pkg/profiles can thus be used with any grid (e.g. cs32x15) assuming
137         that interpolation information (grid points and coefficients) is provided
138         within the netcdf input files.
139         -> sample matlab scripts can be found in MITgcm_contrib/gael
140         that allow you to prepare netcdf input files.
141     - also modified: cleaner include statements, cleaner error print statements,
142       cleaner stops when error, and more tests of the netcdf input files consistency.
143    o additional test (in global_ocean.cs32x15) using seaice+thsice pkgs.
144    o pkg/seaice:
145     - move seaice-diagnostics from seaice_do_diags to do_statevars_diags; this
146       requires a new routine: seaice_diagnostics_fill.F
147     - make sure that seaice does not move if not forced (pressure replacement
148       method, Hibler and Ip, 1995), changes results
149     - and new damping criterion for EVP solver according to Hunke, JCP, 2001
150     - SEAICE_evpDampC = > 0. turns it on (615. is the recommended value).
151       It is turned off by default (=-1.), because it changes the results.
152     - make it possible to read AREA from a file, too.
153    
154    checkpoint59c
155    o add S/R and diagnostics for oceanic mixed-layer depth
156    o move GMRedi call after all vertical mixing schemes (including KPP)
157    o pkg/thsice:
158     - ensure iceMask > iceMaskMin : this problem appeared after May-04 modifs
159      (melt only laterally if thin ice): update output of global_ocean.cs32x15.thsice
160  o pkg/obcs:  o pkg/obcs:
161   - bug fix for balance code   - bug fix for balance code
162  o pkg/seaice:  o pkg/seaice:
163    - allow values of SEAICE_elaticParm > 1    - allow values of SEAICE_elasticParm > 1
164    - make lsr boundary conditions free slip (by default)    - add new parameter SEAICE_evpTauRelax as an alternative
165        to SEAICE_elasticParm
166      - make lsr boundary conditions free slip (by default), changes result
167    - add code for no slip boundary conditions for lsr    - add code for no slip boundary conditions for lsr
168    - set minimum of zeta to zero (and not 4e8) (changes results)    - set minimum of zeta to zero (and not 4e8) (changes results)
169      - add a cap on AREA after advecting AREA if seaice_growth is not called
170  o change calculation of Visbeck K:  o change calculation of Visbeck K:
171    - no longer depend on tapering scheme; instead, compute slope (limited    - no longer depend on tapering scheme; instead, compute slope (limited
172      by GM_maxSlope). this is equivalent to what was comuted before with      by GM_maxSlope). this is equivalent to what was comuted before with
173      clipping or linear tappering.      clipping or linear tappering.
174    - fix vertical averaging (wrong by 1 level)    - fix vertical averaging (wrong by 1/2 level)
175    - leave the old version (but will not be maintained) within    - leave the old version (but will not be maintained) within
176      #ifdef OLD_VISBECK_CALC / #endif      #ifdef OLD_VISBECK_CALC / #endif
177      - update output of exp. ideal_2D_oce
178  o change error catch in calc_r_star to improve vectorization  o change error catch in calc_r_star to improve vectorization
179  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
180    add #define ALLOW_RUNOFF in SEAICE_OPTIONS.h (when not using exf).    add #define ALLOW_RUNOFF in SEAICE_OPTIONS.h (when not using exf).
181    o adjoint:
182      Re-organized adjoint checkpointing according to Matt Mazloff
183      (but with modifs/completions/cleanups)
184      Storing is now bundled into large arrays to optimized I/O
185      (and second step in cleanup of the_main_loop)
186    
187  checkpoint59b  checkpoint59b
188  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 74  o pkg/exf: some cleaning-up: Line 236  o pkg/exf: some cleaning-up:
236  o pkg/thsice:  o pkg/thsice:
237   fix few little problems, in thsice_calc_thickn.F:   fix few little problems, in thsice_calc_thickn.F:
238    - growth vertically (and not laterally) if iceFrac == iceMaskMax    - growth vertically (and not laterally) if iceFrac == iceMaskMax
239    - melt laterally only if hIce < hThinIce (as the comments say)    - melt only laterally if hIce < hThinIce (as the comments say)
240    and in thsice_extend.F:    and in thsice_extend.F:
241    - allow to form ice even when iceFrac == iceMaskMax (by increasing thickness)    - allow to form ice even when iceFrac == iceMaskMax (by increasing thickness)
242    - 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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