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revision 1.1639 by jmc, Fri Mar 30 18:48:32 2012 UTC revision 1.1682 by jmc, Thu Jul 5 19:38:02 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/autodiff:
8      - rename S/R INI_AUTODIFF to AUTODIFF_INIT_VARIA ;
9      - create new header file "AUTODIFF_PARAMS.h" for pkg/autodiff parameters
10        which are now read from new parameter file "data.autodiff" (inAdExact
11        previously in "data", use{KPP/GMRedi/SEAICE}inAdMode previously in data.pkg)
12      - add file "data.autodiff" in all verification/*/input_ad/ directories.
13      - add run-time parameter to turn On/Off SEAICEuseFREEDRIFT in adjoint/forward
14        mode (used in global_ocean.cs32x15.seaice_dynmix test exp.)
15    o verification/tutorial_tracer_adjsens/
16      - add extra sub-verification which uses "SOM" advection scheme
17        (2nd Order-Moment Advection Scheme, Prather Limiter) with
18          #define GAD_ALLOW_TS_SOM_ADV in GAD_OPTIONS.h
19        and in data:
20          multiDimAdvection=.TRUE.,
21          tempAdvScheme=81,
22          saltAdvScheme=81,
23    
24    checkpoint63o (2012/06/29)
25    o vertical mixing schemes:
26      - remove unused S/R CALC_BUOYANCY (left from branch-atmos merging)
27      - replace computation of density (in Function STATE1, opps_calc.F) by a call
28        to S/R FIND_RHO_SCALAR
29      - pass sigmaR to S/R PP81_CALC, MY82_CALC (but not yet used) and to GGL90_CALC
30        and use it for N^2 calculation in ggl90_calc.F (save 2 density computations);
31        affects output (vermix.ggl90) at truncation level.
32    o testreport:
33      - change adjustment of SIZE.h for mpi+mth testing: preserve enough tiles
34        (nSx,nSy) for the number of threads (from eedata.mth)
35    o model/src:
36      - remove 2nd set of calls at the top of initialise_varia.F (Adjoint part)
37        related to Non_Lin Free-Surf or Bottom-Control (but not longer necessary).
38    o verification/tutorial_tracer_adjsens/
39      - compile with ALLOW_CG2D_NSA
40      - run with nonlinFreeSurf=3
41      - update reference output_adm.txt
42    o tools/genmake2:
43      - add "-DHAVE_NETCDF" to the DEFINES list when NetCDF is available ;
44        refine usePROFILES switching off (only when NetCDF is not available).
45    o verification (atmospheric set-up):
46      - change eosType='IDEALGAS' to eosType='IDEALG' to match variable declaration
47    o pkg/profiles : refine profiles and files handling.
48    o model/src and pkg/ecco : introduce run-time switch usePROFILES.
49    o model/src/the_main_loop.F, forward_step.F and pkg/exf/EXF_OPTIONS.h :
50      - changes to use model/src/the_main_loop.F rather than the ecco version
51        in ecco type adjoint runs.
52    o model/src:
53      - move computation of recip of grid distance & area from INI_MASKS_ETC to INI_GRID
54      - move setting of h0Fac[C,W,S] from INI_LINEAR_PHISURF to INI_MASKS_ETC
55      - update_masks_etc.F: rename SMOOTH*_R4,R8 function to the corresponding type (RS,RL)
56    o model/src:
57      - fix S/R UPDATE_CG2D for ALLOW_DEPTH_CONTROL case (was empty before);
58        update output of test experiment bottom_ctrl_5x5.
59    o pkg/generic_advdiff:
60      - implement vertical bi-harmonic diffusion (for now, only for T & S and
61        only explicitly).
62    o verification/bottom_ctrl_5x5/
63      update reference output (results changed quite some time ago,
64      not sure when; but new reference results look ok in terms of grdchk)
65    o verification/1D_ocean_ice_column/
66      For verification purposes, the exact adjoint rather than an approx.
67      should be used (e.g., to comare against F.D. or TLM).
68      removed autodiff_inadmode*_ad.F routines in code_ad/
69      Update results/ accordingly.
70    o pkg/cal:
71      - change cal_getdate.F so that output date is function of input time only
72        (less ambiguous, not mixed up with input iteration number).
73      - fix calendarDumps for non-zero phase-lag (S/R CAL_TIME2DUMP).
74    o pkg/diagnostics:
75      - implement calendarDumps also for stats-diags
76      - implement calendarDumps also for snap-shot output (negative freq)
77      - for now, ignores calendarDumps if non-zero phase-lag.
78    
79    checkpoint63n (2012/06/04)
80    o model/src:
81      - recompute rSurfW & S to ensure consistent column thickness (needed for rStar)
82        between Sum_k(hFac*drF) and rSurf-rLow, for now only when using pkg/shelfice;
83      - use h0FacC, W & S to compute hFac_surfC, W & S in calc_surf_dr.F (more
84        similar to calc_r_star.F); update results of experiment internal_wave and
85        tutorial_global_oce_in_p (affected @ truncation level).
86    o pkg/shelfice:
87      - add parameterisation of advective-diffusive flux into the ice shelf
88        according to Holland and Jenkins (1999), eq.22-33, as suggested by Jan De Ryd
89      - simply eps3/3a computation
90    o eesupp:
91     - add new CPP option (DISCONNECTED_TILES) to disconnect tiles (no exchange
92       between tiles, just fill-in edges assuming locally periodic subdomain) and
93       add corresponding exchange subroutines (EXCH0);
94     - new CG-solver version (_EX0) for disconnected-tiles special case.
95    o model/src (CG-solvers):
96     - modify Single-Reduction version (CG2D_SR) in case cg2dMaxIters is reached
97       (similar final residual output and max-Iter number as with standard version);
98     - allows to store and use lowest-residual solution (standard & _SR versions);
99     - cleaning up (remove old, commented out code, LETS_MAKE_JAM ...).
100     - by default, also compile CG2D_SR version (define ALLOW_SRCG in CPP_OPTIONS.h)
101    o eesup/src:
102     - global_vec_sum.F cleaning: add a BARRIER ; update comments ; remove ndef
103       ALWAYS_USE_MPI (no longer needed after fixing usingMPI settings - March 2012)
104    o pkg/salt_plume added to lab_sea/input_ad.noseaicedyn
105    
106    checkpoint63m (2012/04/27)
107    o pkg/shelfice:
108     - account for partical cells in surface level below ice-shelf for hydrostatic
109       pressure calculion (set uniformFreeSurfLev to F); update isomip experiments.
110    o ad test experiments:
111     - update and rename to "ad_optfile.local" local AD-optfile specific to a
112       particular adjoint verification experiment (in verification/*/code_ad/)
113    o pkg/seaice & pkg/exf:
114     - Part two of ECCO-CLIVAR code merges.
115       Completes merge of seaice area relax. code.
116       Requires unified CPP option EXF_ALLOW_SEAICE_RELAX
117       to be set in EXF_OPTIONS.h since this pkg controls its I/O
118       (and avoids second CPP option in SEAICE_OPTIONS.h)
119     - change default value of costIceStart & costIceEnd to a valid date.
120     - add snowPrecip to HSNOW in seaice_growth
121    o pkg/ptracers:
122     - move ptracers summary and setup check into separated S/R ; add a check for
123       valid PTRACERS_Iter0 value (error+stop or just warning).
124    o pkg/cal (+ pkg/ecco):
125     - avoid calling a S/R with 2 times the same arg (FWD: unless both are only used
126       as input; and for AD, unless both are not differentiable (e.g., k index)).
127    o model/src:
128     - define internal flag "uniformFreeSurfLev" (=T when free-surface level-index
129       is everywhere k=1) to speed-up some calculations (by pass kSurf reference);
130       temporary set to usingZCoords value (to be changed to F when using shelfice).
131     - hydrostatic pressure: implement partial cell near the surface also for
132       Z-coordinates (for the case where uniformFreeSurfLev=F); replace test on
133       usingZCoords with test on uniformFreeSurfLev where needed (in NonHyd code).
134    o pkg/ctrl/ctrl_init.F:
135     - add a formal parameter to s/r ctrl_init_rec to print
136       xx_$(ctrl_valiable)_file for easier debugging
137     - move call of cal_* routines into the if-block where they are really
138       needed so that xx_$(ctrl_variable)_period can be 0 or -12 without having
139       to specify a startdate
140    o pkg/seaice:
141     - update comments in SEAICE_OPTIONS.h (+ similar update of lab_sea/code and
142       global_ocean.cs32x15/code versions).
143     - turn on seaice Multi-category (in data.seaice, SEAICE_multDim=7) for
144       verification experiment global_ocean.cs32x15.seaice and update results.
145    o pkg/exf:
146     - new S/R EXF_GETFIELD_START to return starting-time of a forcing field
147       (according to useExfYearlyFields).
148    o pkg/cal:
149     - move calendar setting & summary (previously in cal_readparams.F) into new
150       S/R CAL_INIT_FIXED to be called later in the initialisation process, once
151       length of the simulation is set (after SET_PARMS call); This is an attempt
152       to fix Pb when, e.g.: pkg/longstep, modifies the length of the run.
153     - For safety: keep a record of pkg/cal parameter settings status
154               to allow to STOP if one pkg/cal S/R is called too early.
155     - add a stop in all basic pkg/cal subroutines if called before setting is done.
156     - modify cal_getdate.F: stop when nothing was returned;
157       if called with myIter=-1, simply retrun modelBaseDate (1,2 = startDate_1,_2);
158       this allows to remove "cal.h" from seaice_read_parms.F & init_mnc_vars.F.
159    
160    checkpoint63l (2012/04/04)
161    o pkg/bbl:
162      - fix call to FIND_RHO_2D in bbl_calc_rho.F (case multi-tiles per proc);
163        update global_with_exf output.yearly.txt file.
164    o pkg/cal:
165      - start to clean-up cal_set.F ; fix for the case where baseTime is non-zero.
166      - remove 2 unsused and very short (1 line only) functions ;
167      - remove unsused subroutines from AD-Diff list.
168    o model/src:
169      - start to implement clean wait to stop in initialization S/R (config_check.F,
170         packages_check.F, ini_parms.F and pkg/obcs/obcs_check.F + pkg/mypackage)
171    o folowing PRINT_MESSAGE changes:
172      - remove reminder multiple print to the same file (STDOUT) when multi-threads.
173    o pkg/bbl:
174      - modification so it can work with z*
175      - replace deltaT with dTtracerLev(k) for asynchronous time stepping
176      - global_with_exf/input.yearly verification; changes output.yearly.txt
177  o eesupp/src:  o eesupp/src:
178    - PRINT_MESSAGE: use OpenMP critical instruction (similar to PRINT_ERROR);    - PRINT_MESSAGE: use OpenMP critical instruction (similar to PRINT_ERROR);
179      writing to unit 0 (if unit=errorMessageUnit) extended to the case myThid=1      writing to unit 0 (if unit=errorMessageUnit) extended to the case myThid=1
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