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revision 1.1724 by jmc, Sat Aug 25 00:07:09 2012 UTC revision 1.1746 by mlosch, Fri Oct 5 15:19:00 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/shelfice
8      in mom_fluxform.F, mom_vecinv.F:
9      CALL SHELFICE_V_DRAG(bi,bj,k,vFld,KE,KappaRU,vF,myThid)
10      Bug fix KappaRU -> KappaRV
11      does not change verification/isomip but may change other setups
12      (presumably constant KappaRU=KappaRV)
13      - fix diagnostics SHIU/Vdrag (thanks to Tom Millgate)
14    o pkg/obcs:
15      - fixed some indexing bugs in obcs_seaice_sponge.F
16      - added obcs relaxation subroutines for HSALT and HSNOW
17      - changes verification/seaice_obcs/results/obcs_seaice_sponge.F
18    o pkg/seaice:
19      - add "multicategory" parameterization for snow in analogy to ice,
20        default is off for now.
21    o pkg/obcs:
22      - added obcs_seaice_sponge.F for obcs relaxation of seaice variables;
23        see verification/seaice_obcs/input.seaiceSponge for example application.
24      - remove local commom bloc "OBCS_GLOBAL" in obcs_readparms.F and do all the OB
25        index setting by master-thread. This fix multi-threads Pb in previous modifs.
26    o pkg/layers :
27      - add diagnostics to pkg/layers
28      - move the meat of pkg/layers from layers_calc.F to layers_fluxcalc.F
29        (from R.Tulloch). Layers_calc.F now calls layers_fluxcalc.F accordingly.
30    o pkg/generic_advdiff/gad_implicit_r.F :
31      - fix ADVr diagnostics in case of both implicit vertical advection and diffusion.
32    o pkg/seaice/seaice_growth.F:
33      - fix SItflux diagnostics in virtual salt flux + balanceEmpmr case.
34    o pkg/obcs:
35      - change default setting of OBCS_UVICE_OLD from defined to undef;
36      - use new parameter OB_indexNone for null index value (instead of hard-coded 0)
37        in all pkg/obcs code and in other pkgs; remove k loop in obcs_check_depths.F;
38      - pass OB_indexNone as (new) argument to S/R CTRL_MASK_SET_[X,Y]Z;
39      - change OB null index value (OB_indexNone) to -99 ; this fix the problem
40        with Southern & Western OB at a tile edge (at least in a simple set-up).
41    o pkg/obcs:
42      - change settings of OB index in case OB coincides with tile edge (shared by
43        2 tiles), so that common OB location is registered by both tiles (instead of
44        only 1). However, for Southern and Western OB, index value = 0 is not
45        recognized as valid OB index (=default null value) and needs to be fixed.
46      - modify accordingly OBCS_BALANCE_FLOW and OBCS_MONITOR (avoid double counting)
47      - new parameter "OB_indexNone" for null index value (for now, still zero)
48        to replace hard-coded null index value of zero.
49    o pkg/exch2:
50      - improve W2_USE_E2_SAFEMODE (faster) and W2_E2_DEBUG_ON:
51        always check buffer-size (but outside the loop); move checking for valid
52        index from W2_USE_E2_SAFEMODE to W2_E2_DEBUG_ON; in W2_E2_DEBUG_ON,
53        print each tile and point connection only if |W2_printMsg|>= 2 and 3.
54    o pkg/ctrl (pack & unpack):
55      - in ctrl_pack.F & ctrl_unpack.F, use the same local file-name variable
56        (locally defined) for different variables (+ remove the variable-specific
57        file name in CTRL_GENARR.h). For now, only implemented for GENARR2/3D_CONTROL
58        (to be extended to other local file names in ctrl.h).
59    o pkg/flt:
60      - add a FLT_Iter0 option (similar to PTRACERS_Iter0).
61    o pkg/mdsio:
62      - fix missing STOP in mdsio_readvec_loc.F (case ioUnit=0) when file is missing
63    o tools/genmake2:
64      - add similar dependences for target EXE_AD & EXE_FTL as we have for EXECUTABLE
65        (added by Alistair in version 1.51 for building without make depend);
66      - remove Header files list (H_SRC_FILES) from the dependence of targets
67         ad_input_code.f & ftl_input_code.f (not clear why it was added in the first
68        place in version 1.23): this save going through staf when unrelated header
69        file has been modified.
70       Note: for an intermediate target (e.g., ad_input_code.f or adtaf) without
71        "make depend" step, still need to do "make links" before "make adtaf".
72    o eesupp/src (+ few pkg src files) & genmake2:
73      - finish to remove ALWAYS_USE_MPI in source code that TAF does not see;
74      - no longer set ALWAYS_USE_MPI in Makefile (was done by genmake2).
75      - improve genmake2 checking for ALLOW_${PKG} in CPP_OPTIONS.h files (distinguish
76         upper/lower case ; account for space between "#" and undef/define)
77    o pkg/flt (with exch2):
78      - cleaning: fix so that it compiles; move remaining MPI calls out of flt_exch2.F;
79      - simplify threads synchronisation; fix (many issues) multi-threaded with MPI.
80    
81    checkpoint63s (2012/09/05)
82    o pkg/ecco:
83      - remove #ifdef ALLOW_SMOOTH_CORREL3D brackets.
84      - add more relevant #ifdef ALLOW_SMOOTH ones.
85      - sort out useAtmWind, useSMOOTH, ctrlSmoothCorrel2D.
86    o pkg/ctrl:
87      - CTRL_OPTIONS.h : document CPPs related to smoothing; ALLOW_SMOOTH_CORREL2D/3D,
88        ALLOW_CTRL_SMOOTH, ALLOW_SMOOTH_CTRL2D, ALLOW_SMOOTH_CTRL3D.
89      - ctrl.h : document run time params doInitXX, doMainPack, doMainUnpack, doPackDiag,
90        doSinglePrecTapelev (audodiff param!), ctrlSmoothCorrel2D (new) and
91        ctrlSmoothCorrel3D (new).
92        The added ctrlSmoothCorrel2D/3D replace the old ALLOW_SMOOTH_CORREL2D/3D CPP.
93      - ctrl_readparms.F : initialise ctrlSmoothCorrel2D/3D and read from namelist.
94      - ctrl_init.F ctrl_pack.F ctrl_unpack.F : switch off ustress/vstress
95        controls when useAtmWind, and vice versa.
96      - ctrl_map_ini_ecco.F : UVEL0, VVEL0, edtaux, edtauy cannot be smoothed as tracers.
97      - ctrl_get_gen.F : replace #ifdef ALLOW_SMOOTH_CORREL2D with
98          #ifdef ALLOW_SMOOTH, IF ctrlSmoothCorrel2D, IF useSMOOTH.
99      - ctrl_map_ini_gen.F : replace #ifdef ALLOW_SMOOTH_CORREL3D with
100          #ifdef ALLOW_SMOOTH, IF ctrlSmoothCorrel3D, IF useSMOOTH.
101      - ctrl_set_pack_xy[z].F, ctrl_set_unpack_xy[z].F:
102        replace ALLOW_SMOOTH_CORREL2D/3D brackets with ctrlSmoothCorrel2D/3D.
103    o pkg/smooth:
104      - remove un-necessary includes.
105      - remove ALLOW_SMOOTH*D and ALLOW_SMOOTH_CORREL*D brakets.
106        Those CPP options were never defined, and not necessary.
107    o model/src:
108      - fix CPP brackets in ini_mixing.F (GM_background_K belongs to gmredi).
109      - standard treatment of useSMOOTH.
110    o pkg/autodiff:
111      - add LOGICAL useGGL90inAdMode, useGGL90inFwdMode, useSALT_PLUMEinAdMode,
112        useSALT_PLUMEInFwdMode allowing to switch off ggl90 and salt_plume adjoint.
113    o pkg/exch2:
114      - add "if usingMPI" where it was missing (in exch2_rx?_cube*.template)
115        + start to remove ALWAYS_USE_MPI in source code that TAF does not see.
116      - make new S/R W2_MAP_PROCS out of w2_eeboot.F to setup exch2 CommonFlag
117        and tiles to process mapping.
118      - re-arrange 3 header files (W2_EXCH2_PARAMS.h, _BUFFER.h & _TOPOLOGY.h)
119        moving /EXCH2_FILLVAL_RX/ & /W2_EXCH2_COMMFLAG/ to W2_EXCH2_TOPOLOGY.h;
120        rename "exch2_tProc" to "W2_tileProc" and move seting of e2FillValue_RX
121        from w2_eeboot.F to w2_readparms.F.
122    o eesupp/src:
123      - set exchNeedsMemsync & exchUsesBarrier according to "usingMPI" (instead of
124        ALWAYS_USE_MPI) + moved from ini_communication_patterns.F to eeset_parms.F;
125        also move setting of exchCollectStatistics from exch_init.F to eeset_parms.F
126      - in eedie.F and all_proc_die.F, always call MPI_FINALIZE when ALLOW_USE_MPI
127        is defined (remove condition on usingMPI) to match cases where MPI_INIT
128        has been called.
129      - fix bug I put in previous modif of exch_sm_3d_rx.template (not much used);
130      - change default (non-MPI) value of myPid (from 1 to 0) to match MPI settings
131        (so that on 1 proc, get same myPid independently of usingMPI)
132      - add a stop if multi-procs but usingMPI=F ; stop also if usingMPI=T and
133        useCubedSphereExchange with EXCH-1 (safer).
134      - add "if usingMPI" where it was missing (+ start to remove ALWAYS_USE_MPI).
135    o pkg/ggl90:
136      - fix bug in filling corner mask array "mskCor" (FILL_CS_CORNER_TR_RL call)
137        used in ALLOW_GGL90_SMOOTH code.
138    o pkg/flt:
139      - fix typo in FLT_WITHOUT_Y_PERIODICITY (the effect was to ignore stopping
140        floats at the Southern end of the domain).
141    o eesupp/inc:
142      - add a list of CPP-options which can be set by Makefile (DEF_IN_MAKEFILE.h);
143        but not used (and not to be used) anywhere, just for documentation.
144    o pkg/autodiff, exf, ptracers & seaice (AD & TL output):
145      - comment out the very nasty "writeBinaryPrec = writeStatePrec" line, since:
146        a) can damage previously written records in any other multi-record files.
147        b) if needed, can easily do it cleanly, by calling S/R WRITE_REC_3D_RL/S.
148    o tools/genmake2:
149      - define variable MAKE within Makefile and use it in place of 'make';
150      - update AD_CONFIG.h (if needed) before building any of the executable
151        (forward, adjoint or tangent-lin); this involves a 2nd invocation of make;
152        and add the usual #ifndef/#define AD_CONFIG_H in AD_CONFIG.h;
153      - always print usual warning comment 'this file is automatically generated'
154        from script convert_cpp_cmd2defines (+ remove this warning from genmake2).
155    o pkg/cheapaml:
156      - updated to correspond to the code used in accepted paper (Nico Wienders).
157    o pkg/exf:
158        added run time switch useAtmWind to replace ALLOW_ATM_WIND cpp switch.
159        ALLOW_ATM_WIND now just sets the useAtmWind default (see exf_readparms.F)
160        and force defines ALLOW_BULKFORMULAE (EXF_OPTIONS.h).
161    o pkg/exf, autodiff, ctrl, ecco and seaice:
162        remove ALLOW_ATM_WIND brackets, or replace them with useAtmWind ones.
163    o pkg/ctrl, ecco:
164        allow to compile both ALLOW_U/VSTRESS_CONTROL and ALLOW_U/VWIND_CONTROL.
165        Depending on useAtmWind, one is inactive, and the other is active (see
166        exf_getffields.F/exf_getsurfacefluxes.F).
167  o tools/genmake2:  o tools/genmake2:
168    - improve error msg when failing in 2nd test of check_for_broken_Ff    - improve error msg when failing in 2nd test of check_for_broken_Ff
169    - fix option '-makefile' short-name (-mf according to genmake2 -help)    - fix option '-makefile' short-name (-mf according to genmake2 -help)

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