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revision 1.1957 by gforget, Tue Jan 14 22:37:15 2014 UTC revision 1.1982 by jmc, Sat Apr 26 20:45:43 2014 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/ctrl & model/inc:
8      - move additional anomaly fields of control vars (related to options:
9         ALLOW_KAPGM_CONTROL, ALLOW_KAPREDI_CONTROL and ALLOW_BOTTOMDRAG_CONTROL)
10        from DYNVARS.h into new header file: CTRL_FIELDS.h
11    o pkg/seaice: some small modifications to the ridging code
12      - make fw2ObyRidge a global variable and add the freshwater flux to
13        seaice_growth
14      - pass actual thickness from seaice_prepare_ridging, so that it is
15        computed only in one place and compute it in the same way as in
16        seaice_growth
17      - initialise more fields in seaice_do_ridging that where cause floating
18        point exceptions over land
19    o pkg/seaice: preparations for ridging code and first real ridging code
20      - move most of "PART 1" of S/R seaice_growth into a new and separate
21        S/R seaice_reg_ridge that will both regularize the state variable after
22        advection call the actual ridging routine;
23      - requires to make 5 fields global fields: d_HEFFbyNEG,d_HSNWbyNEG,
24        d_AREAbyRLX,d_HEFFbyRLX,saltFluxAdjust;
25      - remove ridging code from seaice_advdiff
26      - clean up remaining part 1 of seaice_growth in an attempt to make it
27        more readable (this is probably subjective)
28      - call seaice_itd_redist once in the initialisation phase to have the initial
29        conditions in the correct category
30      - finally: add new ridging routine for ITD code
31    
32    checkpoint64v (2014/04/11)
33    o pkg/ecco:
34      - add runtime parameters mdt[start,end]date[1,2]
35      - rename variable "tpmean" as "mdt" and "topexmeanfile" as "mdtdatfile"
36    o pkg/seaice:
37      - make deltaC a global variable, so that it can be used in ridging code
38      - first step towards ridging: introduce new routines that compute
39        ice strength based on ridging parameters
40      - add diagnostic for HSNOWITD
41      - add opnWtrFrac as a global variable (required for ridging scheme)
42    o pkg/salt_plume + pkg/seaice/seaice_growth.F
43      - add SALT_PLUME_IN_LEADS flag to activate pkg/salt_plume only when ice
44        AREA exceeds a threshold (code contributed by I.Fenty in 2011)
45    o verification/hs94.1x64x5:
46      - leave ALLOW_AUTODIFF_TAMC undefined in code_oad/AUTODIFF_OPTIONS.h
47      - do not use ECCO_CPPOPTIONS.h anymore for TAF & OpenAD Adjoint tests.
48    o autodiff:
49      - Start to include explicitly AUTODIFF_OPTIONS.h, COST_OPTIONS.h,
50        and CTRL_OPTIONS.h in src files (to enable to skip the ECCO_CPPOPTIONS.h)
51        For now, only in pkgs used in verification/hs94.1x64x5.
52      - Replace ALLOW_AUTODIFF_TAMC by ALLOW_AUTODIFF (except for tape/storage
53        which are specific to TAF/TAMC).
54      - Replace ALLOW_AUTODIFF_OPENAD by ALLOW_OPENAD:
55        since ALLOW_OPENAD is defined in PACKAGES_CONFIG.h (any time pkg/openad
56        is compiled), this simplifies/reduces which *_OPTIONS.h file to include.
57      - OpenAD: change Makefile to generate the appropriate AD_CONFIG.h when
58        building mitgcmuv_ad (make adAll).
59    o pkg/ecco:
60      - cost_gencost_seaicev4.F:
61         reformulate proxy cost as function of sst and local param SEAICE_freeze
62         change cost names from siv4-[sst,vol] to siv4-[deconc,exconc]
63      - add stop statement if old names siv4-[sst,vol] are used
64      - add snapshots + cost reports for atmospheric longwave
65      - remove factor 0.1 in front of wtau[u,v]
66      - replace never used flag ALLOW_TMI_COST_CONTRIBUTION with
67         ALLOW_TMI_SST_COST_CONTRIBUTION
68    o pkg/atm_phys:
69      - add some diagnostics for Short-wave and for convection S/R.
70    o pkg/seaice/seaice_growth:
71      - fix a bug in the lateral melt parameterization for SEAICE_ITD
72        in seaice_growth; tempFrz needs to be computed inside the i/j-loop
73      - rearrange loop order for better vector code in the same code block
74      - rewrite the floeDiameter formula to have fewer divisions
75      -  (miraculously) none of this changes the results of seaice_itd
76    o pkg/smooth:
77      - move param smooth2Ddiffnbt to pkg/ecco
78    o pkg/salt_plume:
79      - salt_plume_frac.F:
80         clean up local param names
81         reformulate (1-frac) to frac; original 1-frac was based on swfrac code
82    o pkg/rw:
83      - add RS version of S/R READ_MFLDS_LEV.
84    o pkg/streamice:
85      - fix the restart test by writing/reading pickup_streamice files.
86    o pkg/seaice:
87      - refine checks for jfnk-related parameters
88      - comment out if statement with SEAICEuseIMEX parameter as long as there
89        is no IMEX code to avoid confusion and surprises
90    
91    checkpoint64u (2014/03/07)
92    o verification/MLAdjust:
93      - rename secondary test suffix:
94         1.leith  -> A4FlxF  + switch to flux-form & add side-drag
95         0.leithD -> AhFlxF  + switch to flux-form
96         0.smag   -> AhVrDv  (use Vorticity-Div. visc form) + add side-drag
97         0.leith  -> AhStTn  (use Strain-Tension visc form) + add side-drag
98    o pkg/mom_vecinv:
99      - remove unused arguments from S/R MOM_VI_HDISSIP & MOM_HDISSIP (as it used
100        to be before mom_calc_visc.F)
101      - skip the call to MOM_CALC_TENSION & MOM_CALC_STRAIN if not needed.
102      - add 2nd copy of vort3 & strain that knows about lateral BC (free/no slip):
103        this is simpler for the adjoint and for diagnostics.
104    o model/src + pkg/momentum:
105      - add input files for  2-D additional Western and Southern cell-edge wall
106         (e.g., to add "thin-wall" where it is =1).
107      - fix sideDrag option for thin-walls with Non-Lin Free-Surf
108        using 2nd hFacZ that is computed from initial (fix domain) hFac
109      - known limitations of thin wall implementation: not yet coded for sigma
110        coords; not working with CD-scheme neither.
111    o pkg/seaice:
112      - rename recently introduced parameters from (wrong name) AB to
113        BDF (backward difference time discretisation)
114      - retire runtime parameters SEAICEuseAB2, SEAICE_abEps
115    o tools/adjoint_options:
116      - remove setting of "OPENAD=true" (now set by command line "genmake2 -oad")
117    
118    checkpoint64t (2014/02/01)
119    o pkg/ecco
120      - add compile flag ALLOW_GENCOST_TIMEVARY_WEIGHT in ECCO_OPTIONS.h and
121        runtime logical flag gencost_timevaryweight to read daily sea-ice sigma
122      - replace hard-coded record number and period which only work for monthly
123        with read-in runtime param that works for other periods (month,day,year)
124    o pkg/thsice
125      - corrected store directive fixes thsice adjoint gradient checks
126    o genmake2 & testreport:
127      - add genmake2 option "-oad" to generate a Makefile for OpenAD built and
128        in this case, use tools/adjoint_options/adjoint_oad as default AD optfile.
129        Update testreport accordingly. No need to set "export OPENAD=true"
130        in adjoint_options/adjoint_oad anymore (will be removed later).
131    o pkg/shelfice:
132      - put T & S shelfice forcing into model surfaceForcing_T,_S (for now,
133        only if SHELFICEboundaryLayer=F); Change model/src/external_forcing.F
134        so that surface forcing applies to k=kSurf if using pkg/shelfice.
135    o pkg/ctrl, pkg/grdchk, pkg/ecco:
136      - Changes to make GENARR more modular (i.e. invisible if not used)
137  o model/src/temp_integrate.F and salt_integrate.F  o model/src/temp_integrate.F and salt_integrate.F
138   - re-include store directives that were removed on Dec 27th.    - re-include store directives that were removed on Dec 27th.
139  o model/src/external_forcing_surf.F  o model/src/external_forcing_surf.F
140   - add storage directives for EmPmR and PmEpR to avoid recomputation of seaice_model    - add storage directives for EmPmR and PmEpR to avoid recomputation of
141     in the adjoint that is problematic when seaice_model is turned off in the adjoint.      seaice_model in the adjoint that is problematic when seaice_model is
142     The resolved issue dated back to july when EXTERNAL_FORCING_SURF call was moved.      turned off in the adjoint. The resolved issue dated back to July when
143     Update global_ocean.cs32x15/results/output_adm.seaice_dynmix.txt accordingly.      EXTERNAL_FORCING_SURF call was moved.
144        Update global_ocean.cs32x15/*/output_adm.seaice_dynmix.txt accordingly.
145  o pkg/exf/exf_check.F  o pkg/exf/exf_check.F
146   - fix a small bug again (originally found by Wentao Liu, now found again)    - fix a small bug again (originally found by Wentao Liu, now found again)
147   - streamline error output    - streamline error output
148  o pkg/streamice and aim_v23:  o pkg/streamice and aim_v23:
149    replace a few "_EXCH_XY_RL (" with "_EXCH_XY_RL(", so that    - replace a few "_EXCH_XY_RL (" with "_EXCH_XY_RL(", so that
150    Apple's /usr/bin/cpp knows what to do:      Apple's /usr/bin/cpp knows what to do:
151    Apple LLVM version 5.0 (clang-500.2.79) (based on LLVM 3.3svn)      Apple LLVM version 5.0 (clang-500.2.79) (based on LLVM 3.3svn)
152    Target: x86_64-apple-darwin13.0.0      Target: x86_64-apple-darwin13.0.0
153    
154  checkpoint64s (2014/01/05)  checkpoint64s (2014/01/05)
155  o tools/adjoint_options:  o tools/adjoint_options:
# Line 150  o verification: Line 280  o verification:
280  o pkg/cost:  o pkg/cost:
281    - define a "final cost function" for each tile, and use GLOBAL_SUM_TILE_RL    - define a "final cost function" for each tile, and use GLOBAL_SUM_TILE_RL
282      (instead of _GLOBAL_SUM_RL) to get the final cost from all procs & threads:      (instead of _GLOBAL_SUM_RL) to get the final cost from all procs & threads:
283      o this fixes global-sum value if multi-threads (since GLOBAL_SUM_TILE_RL      o this fixes global-sum value if multi-threads (since GLOBAL_SUM_RL
284        cannot be applied to var in common block).        cannot be applied to var in common block).
285      o allows to get results independent of tile-per-proc setting (if using      o allows to get results independent of tile-per-proc setting (if using
286        slower GLOBAL_SUM_SEND_RECV option).        slower GLOBAL_SUM_SEND_RECV option).
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