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revision 1.1688 by gforget, Fri Jul 13 02:38:11 2012 UTC revision 1.1711 by jmc, Thu Aug 9 20:36:11 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/exf:
8      - use EXF_OPTIONS.h to set pkg/exf options except if done in ECCO_CPPOPTIONS.h
9        (previously, ALLOW_AUTODIFF_TAMC was controling this switch).
10    o verification/*/code_ad:
11      mimimal cleaning of AD experiments ECCO_CPPOPTIONS.h option-file:
12      - reccord when this file is included (define ECCO_CPPOPTIONS_H)
13      - remove the most obvious obsolete features (e.g., #define ALLOW_COST not
14        allowed since Oct 2003 in any option-file except in PACKAGES_CONFIG.h)
15    o pkg/seaice :
16      - added possibility to change ice strength/PRESS0 relationship to
17        HEFF, according to the following run time parameters
18        SEAICEpresPow0 :: HEFF exponent for ice strength below SEAICEpresH0 (integer, >0)
19        SEAICEpresPow1 :: HEFF exponent for ice strength above SEAICEpresH0 (integer, >0)
20        SEAICEpresH0   :: HEFF threshold for ice strength            (m)
21    o pkg/ggl90 :
22      - added run time flag mxlSurfFlag to include the code that ensure
23        mixing between first and second level (previously included as a comment)
24    o verification/1D_ocean_ice_column/input_ad/data.autodiff :
25      - add test of newly added dumpAdByRec=T option where
26        we write all records to one file per variable.
27    o verification/global_ocean.cs32x15/code_ad/CPP_OPTIONS.h :
28      - switch to #define ALLOW_BALANCE_RELAX and ALLOW_BALANCE_FLUXES
29        to check that this code is ok with taf and compiles in adjoint.
30    o pkg/autodiff :
31      - added run time param dumpAdByRec : ad dump format switch.
32        If true then write all records to one file per variable.
33        Else write one file per record (remains the default).
34      - revise seaice_ad_dump.F and exf_adjoint_snapshots_ad.F accordingly.
35    o pkg/seaice:
36     - Added SEAICEuseTILT run time switch : if set to
37       false then omit the tilt term in seaice dynamics.
38     - Fix free drift calculation.
39    o pkg/shelfice:
40      When initializing SHELFICEDragQuadratic, set default to be
41      consistent with shiCdrag in case SHELFICEuseGammaFrict is used,
42      but retain option to set it independently
43      (inconsistenty spotted by Veronique Dansereau)
44    o eesupp/inc:
45      - in EEPARAMS.h, add real-type constant for some frequently used simple number
46         (0,1,2,1/2), with name explicitly referring to RS/RL type.
47    o model/src:
48      - move balancing of relaxation terms to new S/R balance_relax.F.
49    o pkg/autodiff:
50      re-write active I/O high-level (control) S/R:
51      - rename  S/R ACTIVE_READ/WRITE_RL to ACTIVE_READ/WRITE_3D_RL
52      - add 1 more argument (useCurrentDir) to replace the "_LOC" 2nd set of S/R.
53      - use standard pkg/mdsio I/O routines (MDS_READ/WRITE_SEC_XZ/YZ  and
54        MDS_READ/WRITE_FIELD); change loops to multi-threads.
55      - update and merge active_file_control_slice.flow into active_file_control.flow
56      - update the calls in lower level S/R (active_file.F, active_file_g.F and
57        active_file_ad.F) keeping the argument list and function unchanged.
58      - also update lower-level "_LOC" version (call same S/R with "useCurrentDir
59        =.TRUE.") and remove high-level (control) _loc version (not called anymore).
60      - new low-level active I/O routines, one for each type (RL/RS), for active var
61        of various (XY,XZ,YZ) shape and level number (arguments: arrShape, myNr);
62        fix ctrl_init_wet.F & ecco_cost_weights.F by calling the new S/R with the
63        right type.
64    o autodiff and RS=real*4:
65      - call the right type (_RS instead of _RL) of S/R in few output S/R (pkg/exf
66        ad-monitor and snapshots); disable arrType='RS' in mdsio_gl*.F ;
67      - change argument type of 3-D mask argument to _RS to match type in the call
68        (in seaice_cost*.F, ctrl_*_gen.F and *ctrl_bound.F); to be continued.
69    o pkg/thsice:
70      - re-anable balanceEmPmR when useSEAICE=T with useThSIce=T.
71      - option to correct ocean fresh-water flux for imbalance of Atmos+Land
72        fresh-water flux: uniform correction or proportional to local precip.
73    o pkg/ctrl:
74      - new header file CTRL_SIZE.h for parameters maxCtrlArr2D, maxCtrlArr3D
75      - redefine CPP option ALLOW_BOTTOMDRAG_CONTROL to
76                            ALLOW_BOTTOMDRAG_CONTROL_NONGENERIC
77      - verification/hs94.1x64x5/ tests ALLOW_GENARR{2D,3D}_CONTROL
78    
79    checkpoint63q (2012/07/30)
80    o pkg/autodiff:
81      note about monitor and snap-shot of ad-variables:
82      a) need to apply ADEXCH before monitor or output of ad-vars to include
83       overlap contributions (was done for adjDump but missing for monitor).
84      b) since ADEXCH implies adding overlap values to interior array, machine
85       truncation error is expected when adding an ADEXCH call in the middle of
86       the time-stepping (although mathematically identical).
87      modifs:
88      - fix some incorrect type (RL/RS, UV/scalar) in ADEXCH calls and ad-vars
89        declaration (adEddyPsiX,adEddyPsiY in adcommon.h).
90      - add new run-time params (dumpAdVarExch & mon_AdVarExch) to select how  to
91        apply ADEXCH before monitor or snap-shot of ad-variables:
92           =0 : no ADEXCH ; =1 : do ADEXCH ; =2 : apply ADEXCH on a local copy.
93      - implement new method (copy+adexch) for snap-shot and monitor of main model
94        ad-vars (initially not used by default -> output unchanged).
95      - change default (set to 2) to use new method and update few output_adm.txt
96        with accurate ad-monitor (global_ocean.90x40x15, tutorial_global_oce_biogeo
97        and both tutorial_tracer_adjsens tests).
98      - switch 2 global_ocean.cs32x15 AD-tests to AB-2 (seaice_dynmix & thsice)
99        and turn off momDissip_In_AB in the 2 other (needed for stable AB-3).
100    o pkg/ctrl:
101      enable the use of a variable number (maxCtrlArr2D, maxCtrlArr3D) of
102      generic control variables via
103      #define ALLOW_GENARR2D_CONTROL and/or #define ALLOW_GENARR3D_CONTROL
104      Only required customization should be S/R ctrl_map_ini_genarr.F
105      (routine in repository contains example)
106    o pkg/exf:
107      - fix and refine checking of surface-relaxation setting when using EXF
108    o verification (adjoint exp):
109      - reduce length of simulation by half for experiment global_ocean.cs32x15
110        (std, seaice & seaice_dynmix) and exp tutorial_dic_adjoffline; update output.
111    o pkg/mom_common (mom_u/v_bottomdrag), pkg/shelfice (shelfice_u/v_drag)
112      - replace if statements KE.ne.0 with KE.gt.0 to avoid sqrt of negative numbers
113        of KE that can occur with aggressive optimization
114      + put quadratic bottom drag calculation in separated loops (only done if
115        using bottomDragQuadratic)
116    o model/src: CG2D_NSA
117      - clean-up:  stop if cg2dNormaliseRHS=T and AUTODIFF
118         and replace GLOBAL_SUM calls with GLOBAL_SUM_TILE.
119      - in test-exp that uses CG2D_NSA (bottom_ctrl & tutorial_tracer_adjsens),
120         change cg2d residual target to be expressed in Wunits (=> do not normalise
121         RHS ; this fix global_max Pb with TAF); update output.
122    o verification/tutorial_tracer_adjsens:
123       improve parameter consistency (and get rid of warnings):
124       - use deltaTFreeSurf=deltaTtracer (better with NonLin FreeSurf);
125       - switch Temp Adv Scheme from 81 to 80 (no limiter since theta < 0 is physical)
126       - use staggerTimeStep (for stability) in som81; use default rotation period.
127    o pkg/exch2:
128      - with empty facet: fix compact-format (W2_mapIO=1) definition (was previously
129        reset to 0 = 1 long line in X)
130    o pkg/mdsio:
131      - fix reading of dimensions from meta file for large-size domain
132    o model/src:
133      - fix saltIsActiveTr setting for IdealGas eosType (eosType is 6 character long);
134      - to refine CS-grid check, add logical flag "hasWetCSCorners": true if using
135        Cubed-Sphere Exch with CS-corners inside the domain;
136        make new S/R INI_GLOBAL_DOMAIN from code in ini_linear_phisurf.F to calculate
137        globalArea and to set hasWetCSCorners.
138      - add warning if usingCurvilinearGrid and momAdvection in flux-form (missing
139        metric terms); stop if hasWetCSCorners=T and momAdvection in flux-form.
140      - re-activate the stop if useCDscheme and hasWetCSCorners=T (previously if
141        useCDscheme and useCubedSphereExchange).
142  o pkg/seaice/seaice_growth.F :  o pkg/seaice/seaice_growth.F :
143   - compute the SEAICE_DISABLE_HEATCONSFIX term accordingly    - compute the SEAICE_DISABLE_HEATCONSFIX term accordingly
144     for the (.NOT.useRealFreshWaterFlux).OR.(nonlinFreeSurf.EQ.0)      for the (.NOT.useRealFreshWaterFlux).OR.(nonlinFreeSurf.EQ.0)
145     when the previous code was not correct.      when the previous code was not correct.
146   - in all cases diagnoze the boundary condition mismatch to SIaaflux    - in all cases diagnoze the boundary condition mismatch to SIaaflux
147   - in the case of useRealFreshWaterFlux.AND.(nonlinFreeSurf.GT.0) add    - in the case of useRealFreshWaterFlux.AND.(nonlinFreeSurf.GT.0) add
148     that term to QNET (essentially to set the melt/freeze water to 0degC).      that term to QNET (essentially to set the melt/freeze water to 0degC).
149     when SEAICEheatConsFix is true, so that the ocean+ice budget heat is closed.      when SEAICEheatConsFix is true, so that the ocean+ice budget heat is closed.
150  o verification/global_ocean.cs32x15/input.seaice :  o verification/global_ocean.cs32x15/input.seaice :
151   - add SEAICEheatConsFix in data.seaice, ensuring closed ocean+ice heat budget.    - add SEAICEheatConsFix in data.seaice, ensuring closed ocean+ice heat budget.
152   - add diagnostics (commented out) for budget test using my matlab codes (gcmfaces).    - add diagnostics (commented out) for budget test using my matlab codes (gcmfaces).
153   - update results (output.seaice.txt) accordingly.    - update results (output.seaice.txt) accordingly.
154  o verification/lab_sea/input/data.seaice :  o verification/lab_sea/input/data.seaice :
155   - remove SEAICEheatConsFix, which is now be tested    - remove SEAICEheatConsFix, which is now be tested
156     in global_ocean.cs32x15. The presently coded fix      in global_ocean.cs32x15. The presently coded fix
157     is only consistent with real fresh water + nlfs.      is only consistent with real fresh water + nlfs.
158   - update results (output.txt) accordingly.    - update results (output.txt) accordingly.
159  o pkg/salt_plume: added diagnotic for salt tendency (oceSPtnd).  o pkg/salt_plume: added diagnotic for salt tendency (oceSPtnd).
160  o AD_CONFIG.h file:  o AD_CONFIG.h file:
161   - in genmake2: remove "#undef ALLOW_ECCO_OPTIMIZATION" from AD_CONFIG.h;    - in genmake2: remove "#undef ALLOW_ECCO_OPTIMIZATION" from AD_CONFIG.h;
162   - remove #include "AD_CONFIG.h" from all included OPTIONS files and    - remove #include "AD_CONFIG.h" from all included OPTIONS files and
163     add it explicitly in each fortran src file where it is needed.      add it explicitly in each fortran src file where it is needed.
164     motivation: header file AD_CONFIG.h is generated/modified after "make depend"      motivation: header file AD_CONFIG.h is generated/modified after "make depend"
165     thus introducing potentially wrong dependency; therefore, better to include      thus introducing potentially wrong dependency; therefore, better to include
166     it only where it's really needed, and after any other included OPTIONS file      it only where it's really needed, and after any other included OPTIONS file
167     (less tempting to bring conditional includes according to ALLOW_ADJOINT_RUN      (less tempting to bring conditional includes according to ALLOW_ADJOINT_RUN
168     or ALLOW_TANGENTLINEAR_RUN).      or ALLOW_TANGENTLINEAR_RUN).
169    
170  checkpoint63p (2012/07/06)  checkpoint63p (2012/07/06)
171  o pkg/autodiff:  o pkg/autodiff:
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