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revision 1.1733 by jmc, Thu Sep 6 23:26:18 2012 UTC revision 1.1760 by mlosch, Tue Nov 6 12:31:30 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/seaice/seaice_calc_l/rhs.F: replace maskW/S by maskInW/S; this fixes
8      a serious convergence problem when open boundaries are involved
9    o pkg/ggl90: fix computation of control volumes for the case of
10      ALLOW_GGL90_HORIZDIFF (probably not used very often): move control volumes
11      up half a grid cell from C-centered to W-centered (pointed out by C. Eden)
12    o pkg/seaice: simplify seaice_evp by avoiding use of extra fields u/vIceC
13    o pkg/autodiff
14      - Add inAdMode switch for SEAICEuseDYNAMICS:
15        SEAICEuseDYNAMICSinAdMode
16        (extend logic in ADAUTODIFF_INADMODE_SET)
17    o pkg/seaice
18      - Step 1 of merging ice-thickness distribution (ITD) code from
19        MITgcm_contrib/torge/itd/ (author: Torge Martin)
20        The code implements concept laid out in Thorndike et al. (1975);
21        code is enabled via CPP flag SEAICE_ITD
22        nITD (in SEAICE_SIZE.h) defines number of ice thickness categories;
23        code is not complete yet!!
24      - SEAICE_SIZE.h now included in almost all seaice routines
25    o verification (using seaice):
26      - switch back seaice-dynamics (+ lower SOLV_MAX_ITERS) in ADM exp.
27        global_ocean.cs32x15.seaice ; update results.
28      - compile B-grid dynamics in FW test exp 1D_ocean_ice_column ;
29      - compile C-grid dynamics with #define SEAICE_ALLOW_JFNK in FW test exp
30        offline_exf_seaice (previously compiling B-grid).
31    o pkg/exf:
32      - fix some STOP conditions in exf_check.F (from Aug 28, modifs did not allow
33        to specify neither just 1 comp of wind or wind-stress, nor no surface momentum
34        forcing): just replace CPP option ALLOW_ATM_WIND with run-time param useAtmWind.
35    o pkg/layers (adjust changes from Sept 19):
36      - do snap-shot output and fill diagnostics from inside iLa loop (layers_calc.F)
37        this allows to remove "layers_maxNum" dimension from all layers arrays.
38    o pkg/layers (adjust changes from Sept 19):
39      - remove ALLOW_LAYERS_OUTPUT ; fix snap-shot and time-ave output ;
40      - snap-shot extended to all type of layers (not just the 1rst type);
41      - remove layers variables when corresponding CPP option is undef.
42    o pkg/layers:
43      - rename pkg/layers variable and add new output (layer exist & un-weighted
44        velocity in layer)
45    o pkg/seaice:
46      - simplify (?) ocean-drag coefficent computations by using
47        the same routine in all three solvers (saves some code lines)
48      - remove global fields DRAGA and DRAGS from C-grid code and
49        declare them locally in lsr.F (the only place where they are
50        still used)
51      - update AD output of lab_sea.evp (very sensitive anyway).
52    o pkg/seaice: add Jacobian-free Newton Krylov solver for ice dynamics
53      (Lemieux et al. 2010, 2012). Turn on with the usual SEAICE_ALLOW_JFNK
54      and SEAICEuseJFNK=.true. A few things to note:
55      - involves a FGMRES, that is parallel but very inefficient,
56        because of many scalar products (global sums) in the Gram-Schmidt
57        orthogonalization method. Needs to be replaced. Original code
58        from J.-F. Lemieux
59      - preconditioner for FGMRES is a stripped down version of LSOR
60      - SOLV_MAX_ITERS is now used for LSOR as a solver and as a
61        preconditioner. For the preconditioner, the default is set to 10.
62      - Jacobian times vector is computed with finite differences
63      - marginally related to JFNK-solver: add a smooth regularization for
64        zeta with tanh that will improve convergence (Lemieux and Tremblay,
65        2009) for any implicit solver (not implemented for EVP because EVP
66        does not need this regularization in the first place). Define
67        SEAICE_ZETA_SMOOTHREG in SEAICE_OPTIONS.h to use.
68    o eesupp/src:
69      - check in genmake2 that intrinsic S/R flush is available.
70      - add S/R to flush IO unit (if intrinsic S/R flush is available)
71      - flush standard & error msg unit before MPI termination
72      - if debugMode, flush IO unit after printing msg
73    o pkg/ctrl:
74      - ctrl_unpack.F, ALLOW_GENARR3D_CONTROL code: fix missing argument in call
75        to ctrl_set_unpack_xyz.
76    
77    checkpoint64 (2012/10/09)
78    o pkg/shelfice
79      - in mom_fluxform.F, mom_vecinv.F:
80        CALL SHELFICE_V_DRAG(bi,bj,k,vFld,KE,KappaRU,vF,myThid)
81        Bug fix KappaRU -> KappaRV
82        does not change verification/isomip but may change other setups
83        (presumably constant KappaRU=KappaRV)
84      - fix diagnostics SHIU/Vdrag (thanks to Tom Millgate)
85    o pkg/obcs:
86      - fixed some indexing bugs in obcs_seaice_sponge.F
87      - added obcs relaxation subroutines for HSALT and HSNOW
88      - changes verification/seaice_obcs/results/obcs_seaice_sponge.F
89    o pkg/seaice:
90      - add "multicategory" parameterization for snow in analogy to ice,
91        default is off for now.
92    o pkg/obcs:
93      - added obcs_seaice_sponge.F for obcs relaxation of seaice variables;
94        see verification/seaice_obcs/input.seaiceSponge for example application.
95      - remove local commom bloc "OBCS_GLOBAL" in obcs_readparms.F and do all the OB
96        index setting by master-thread. This fix multi-threads Pb in previous modifs.
97    o pkg/layers :
98      - add diagnostics to pkg/layers
99      - move the meat of pkg/layers from layers_calc.F to layers_fluxcalc.F
100        (from R.Tulloch). Layers_calc.F now calls layers_fluxcalc.F accordingly.
101    o pkg/generic_advdiff/gad_implicit_r.F :
102      - fix ADVr diagnostics in case of both implicit vertical advection and diffusion.
103    o pkg/seaice/seaice_growth.F:
104      - fix SItflux diagnostics in virtual salt flux + balanceEmpmr case.
105    o pkg/obcs:
106      - change default setting of OBCS_UVICE_OLD from defined to undef;
107      - use new parameter OB_indexNone for null index value (instead of hard-coded 0)
108        in all pkg/obcs code and in other pkgs; remove k loop in obcs_check_depths.F;
109      - pass OB_indexNone as (new) argument to S/R CTRL_MASK_SET_[X,Y]Z;
110      - change OB null index value (OB_indexNone) to -99 ; this fix the problem
111        with Southern & Western OB at a tile edge (at least in a simple set-up).
112    o pkg/obcs:
113      - change settings of OB index in case OB coincides with tile edge (shared by
114        2 tiles), so that common OB location is registered by both tiles (instead of
115        only 1). However, for Southern and Western OB, index value = 0 is not
116        recognized as valid OB index (=default null value) and needs to be fixed.
117      - modify accordingly OBCS_BALANCE_FLOW and OBCS_MONITOR (avoid double counting)
118      - new parameter "OB_indexNone" for null index value (for now, still zero)
119        to replace hard-coded null index value of zero.
120    o pkg/exch2:
121      - improve W2_USE_E2_SAFEMODE (faster) and W2_E2_DEBUG_ON:
122        always check buffer-size (but outside the loop); move checking for valid
123        index from W2_USE_E2_SAFEMODE to W2_E2_DEBUG_ON; in W2_E2_DEBUG_ON,
124        print each tile and point connection only if |W2_printMsg|>= 2 and 3.
125    o pkg/ctrl (pack & unpack):
126      - in ctrl_pack.F & ctrl_unpack.F, use the same local file-name variable
127        (locally defined) for different variables (+ remove the variable-specific
128        file name in CTRL_GENARR.h). For now, only implemented for GENARR2/3D_CONTROL
129        (to be extended to other local file names in ctrl.h).
130    o pkg/flt:
131      - add a FLT_Iter0 option (similar to PTRACERS_Iter0).
132    o pkg/mdsio:
133      - fix missing STOP in mdsio_readvec_loc.F (case ioUnit=0) when file is missing
134    o tools/genmake2:
135      - add similar dependences for target EXE_AD & EXE_FTL as we have for EXECUTABLE
136        (added by Alistair in version 1.51 for building without make depend);
137      - remove Header files list (H_SRC_FILES) from the dependence of targets
138         ad_input_code.f & ftl_input_code.f (not clear why it was added in the first
139        place in version 1.23): this save going through staf when unrelated header
140        file has been modified.
141       Note: for an intermediate target (e.g., ad_input_code.f or adtaf) without
142        "make depend" step, still need to do "make links" before "make adtaf".
143  o eesupp/src (+ few pkg src files) & genmake2:  o eesupp/src (+ few pkg src files) & genmake2:
144    - finish to remove ALWAYS_USE_MPI in source code that TAF does not see;    - finish to remove ALWAYS_USE_MPI in source code that TAF does not see;
145    - no longer set ALWAYS_USE_MPI in Makefile (was done by genmake2).    - no longer set ALWAYS_USE_MPI in Makefile (was done by genmake2).
146    - improve genmake2 checking for ALLOW_${PKG} in CPP_OPTIONS.h files (distingues    - improve genmake2 checking for ALLOW_${PKG} in CPP_OPTIONS.h files (distinguish
147       upper/lower case ; account for space between "#" and undef/define)       upper/lower case ; account for space between "#" and undef/define)
148  o pkg/flt (with exch2):  o pkg/flt (with exch2):
149    - cleaning: fix so that it compiles; move remaining MPI calls out of flt_exch2.F;    - cleaning: fix so that it compiles; move remaining MPI calls out of flt_exch2.F;
150    - simplify threads syncronisation; fix (many issues) multi-threaded with MPI.    - simplify threads synchronisation; fix (many issues) multi-threaded with MPI.
151    
152  checkpoint63s (2012/09/05)  checkpoint63s (2012/09/05)
153  o pkg/ecco:  o pkg/ecco:
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