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revision 1.1948 by jmc, Sun Dec 8 19:51:21 2013 UTC revision 1.1980 by mlosch, Wed Apr 23 12:42:19 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/seaice: preparations for ridging code and first real ridging code
8      - move most of "PART 1" of S/R seaice_growth into a new and separate
9        S/R seaice_reg_ridge that will both regularize the state variable after
10        advection call the actual ridging routine;
11      - requires to make 5 fields global fields: d_HEFFbyNEG,d_HSNWbyNEG,
12        d_AREAbyRLX,d_HEFFbyRLX,saltFluxAdjust;
13      - remove ridging code from seaice_advdiff
14      - clean up remaining part 1 of seaice_growth in an attempt to make it
15        more readable (this is probably subjective)
16      - call seaice_itd_redist once in the initialisation phase to have the initial
17        conditions in the correct category
18      - finally: add new ridging routine for ITD code
19    
20    checkpoint64v (2014/04/11)
21    o pkg/ecco:
22      - add runtime parameters mdt[start,end]date[1,2]
23      - rename variable "tpmean" as "mdt" and "topexmeanfile" as "mdtdatfile"
24    o pkg/seaice:
25      - make deltaC a global variable, so that it can be used in ridging code
26      - first step towards ridging: introduce new routines that compute
27        ice strength based on ridging parameters
28      - add diagnostic for HSNOWITD
29      - add opnWtrFrac as a global variable (required for ridging scheme)
30    o pkg/salt_plume + pkg/seaice/seaice_growth.F
31      - add SALT_PLUME_IN_LEADS flag to activate pkg/salt_plume only when ice
32        AREA exceeds a threshold (code contributed by I.Fenty in 2011)
33    o verification/hs94.1x64x5:
34      - leave ALLOW_AUTODIFF_TAMC undefined in code_oad/AUTODIFF_OPTIONS.h
35      - do not use ECCO_CPPOPTIONS.h anymore for TAF & OpenAD Adjoint tests.
36    o autodiff:
37      - Start to include explicitly AUTODIFF_OPTIONS.h, COST_OPTIONS.h,
38        and CTRL_OPTIONS.h in src files (to enable to skip the ECCO_CPPOPTIONS.h)
39        For now, only in pkgs used in verification/hs94.1x64x5.
40      - Replace ALLOW_AUTODIFF_TAMC by ALLOW_AUTODIFF (except for tape/storage
41        which are specific to TAF/TAMC).
42      - Replace ALLOW_AUTODIFF_OPENAD by ALLOW_OPENAD:
43        since ALLOW_OPENAD is defined in PACKAGES_CONFIG.h (any time pkg/openad
44        is compiled), this simplifies/reduces which *_OPTIONS.h file to include.
45      - OpenAD: change Makefile to generate the appropriate AD_CONFIG.h when
46        building mitgcmuv_ad (make adAll).
47    o pkg/ecco:
48      - cost_gencost_seaicev4.F:
49         reformulate proxy cost as function of sst and local param SEAICE_freeze
50         change cost names from siv4-[sst,vol] to siv4-[deconc,exconc]
51      - add stop statement if old names siv4-[sst,vol] are used
52      - add snapshots + cost reports for atmospheric longwave
53      - remove factor 0.1 in front of wtau[u,v]
54      - replace never used flag ALLOW_TMI_COST_CONTRIBUTION with
55         ALLOW_TMI_SST_COST_CONTRIBUTION
56    o pkg/atm_phys:
57      - add some diagnostics for Short-wave and for convection S/R.
58    o pkg/seaice/seaice_growth:
59      - fix a bug in the lateral melt parameterization for SEAICE_ITD
60        in seaice_growth; tempFrz needs to be computed inside the i/j-loop
61      - rearrange loop order for better vector code in the same code block
62      - rewrite the floeDiameter formula to have fewer divisions
63      -  (miraculously) none of this changes the results of seaice_itd
64    o pkg/smooth:
65      - move param smooth2Ddiffnbt to pkg/ecco
66    o pkg/salt_plume:
67      - salt_plume_frac.F:
68         clean up local param names
69         reformulate (1-frac) to frac; original 1-frac was based on swfrac code
70    o pkg/rw:
71      - add RS version of S/R READ_MFLDS_LEV.
72    o pkg/streamice:
73      - fix the restart test by writing/reading pickup_streamice files.
74    o pkg/seaice:
75      - refine checks for jfnk-related parameters
76      - comment out if statement with SEAICEuseIMEX parameter as long as there
77        is no IMEX code to avoid confusion and surprises
78    
79    checkpoint64u (2014/03/07)
80    o verification/MLAdjust:
81      - rename secondary test suffix:
82         1.leith  -> A4FlxF  + switch to flux-form & add side-drag
83         0.leithD -> AhFlxF  + switch to flux-form
84         0.smag   -> AhVrDv  (use Vorticity-Div. visc form) + add side-drag
85         0.leith  -> AhStTn  (use Strain-Tension visc form) + add side-drag
86    o pkg/mom_vecinv:
87      - remove unused arguments from S/R MOM_VI_HDISSIP & MOM_HDISSIP (as it used
88        to be before mom_calc_visc.F)
89      - skip the call to MOM_CALC_TENSION & MOM_CALC_STRAIN if not needed.
90      - add 2nd copy of vort3 & strain that knows about lateral BC (free/no slip):
91        this is simpler for the adjoint and for diagnostics.
92    o model/src + pkg/momentum:
93      - add input files for  2-D additional Western and Southern cell-edge wall
94         (e.g., to add "thin-wall" where it is =1).
95      - fix sideDrag option for thin-walls with Non-Lin Free-Surf
96        using 2nd hFacZ that is computed from initial (fix domain) hFac
97      - known limitations of thin wall implementation: not yet coded for sigma
98        coords; not working with CD-scheme neither.
99    o pkg/seaice:
100      - rename recently introduced parameters from (wrong name) AB to
101        BDF (backward difference time discretisation)
102      - retire runtime parameters SEAICEuseAB2, SEAICE_abEps
103    o tools/adjoint_options:
104      - remove setting of "OPENAD=true" (now set by command line "genmake2 -oad")
105    
106    checkpoint64t (2014/02/01)
107    o pkg/ecco
108      - add compile flag ALLOW_GENCOST_TIMEVARY_WEIGHT in ECCO_OPTIONS.h and
109        runtime logical flag gencost_timevaryweight to read daily sea-ice sigma
110      - replace hard-coded record number and period which only work for monthly
111        with read-in runtime param that works for other periods (month,day,year)
112    o pkg/thsice
113      - corrected store directive fixes thsice adjoint gradient checks
114    o genmake2 & testreport:
115      - add genmake2 option "-oad" to generate a Makefile for OpenAD built and
116        in this case, use tools/adjoint_options/adjoint_oad as default AD optfile.
117        Update testreport accordingly. No need to set "export OPENAD=true"
118        in adjoint_options/adjoint_oad anymore (will be removed later).
119    o pkg/shelfice:
120      - put T & S shelfice forcing into model surfaceForcing_T,_S (for now,
121        only if SHELFICEboundaryLayer=F); Change model/src/external_forcing.F
122        so that surface forcing applies to k=kSurf if using pkg/shelfice.
123    o pkg/ctrl, pkg/grdchk, pkg/ecco:
124      - Changes to make GENARR more modular (i.e. invisible if not used)
125    o model/src/temp_integrate.F and salt_integrate.F
126      - re-include store directives that were removed on Dec 27th.
127    o model/src/external_forcing_surf.F
128      - add storage directives for EmPmR and PmEpR to avoid recomputation of
129        seaice_model in the adjoint that is problematic when seaice_model is
130        turned off in the adjoint. The resolved issue dated back to July when
131        EXTERNAL_FORCING_SURF call was moved.
132        Update global_ocean.cs32x15/*/output_adm.seaice_dynmix.txt accordingly.
133    o pkg/exf/exf_check.F
134      - fix a small bug again (originally found by Wentao Liu, now found again)
135      - streamline error output
136    o pkg/streamice and aim_v23:
137      - replace a few "_EXCH_XY_RL (" with "_EXCH_XY_RL(", so that
138        Apple's /usr/bin/cpp knows what to do:
139        Apple LLVM version 5.0 (clang-500.2.79) (based on LLVM 3.3svn)
140        Target: x86_64-apple-darwin13.0.0
141    
142    checkpoint64s (2014/01/05)
143    o tools/adjoint_options:
144      - switch to fastopt.net TAF server (instead of default fastopt.de) for
145        AD optfiles adjoint_diva & adjoint_f95 (similar to adjoint_default).
146    o model/src:
147      - remove some unnecessary TAF storage directives in forward_step.F and
148        in dynamics.F (note: not always removed by TAF, e.g., double storage
149        of kappaRU,kappaRV in former version of dynamics.F).
150    o model/src & pkg/ptracers:
151      - call directly GAD_IMPLICIT_R & IMPLDIFF + DWNSLP_APPLY from temp_integrate.F
152        salt_integrate.F and ptracers_integrate.F (instead of from thermodynamics.F)
153        and remove ptracers_dwnslp_apply.F & ptracers_implicit.F
154      - call MATRIX_STORE_TENDENCY_EXP for each tracer (in ptracers_integrate.F)
155      - add fZon & fMer as output argument of S/R GAD_CALC_RHS.
156      - update TAF AD-output of experiments global_ocean.90x40x15 (13 for AD-grad).
157    o useSingleCpuInput separates single-CPU input from single-CPU output;
158        for now only implemented for in exf_interp_read.F
159    o verification/advect_xy:
160      - fix missing EXCH call in local version of ini_salt.F and update output.
161    o momentum diagnostics:
162      - fix which deltaT is used in Total-Tendency diagnostics.
163      - fix typo in diagnostics for momentum tendency from AB.
164    o pkg/seaice/seaice_lsr.F: fix an initialisation bug for the
165        SEAICE_VECTORIZE_LSR_ZEBRA option that lead to NaNs on a NEC-SX8
166    
167  checkpoint64r (2013/12/08)  checkpoint64r (2013/12/08)
168  o verification/*/results:  o verification/*/results:
169    - Update reference output of experiments that were passing with just 13 digits    - Update reference output of experiments that were passing with just 13 digits
# Line 108  o verification: Line 268  o verification:
268  o pkg/cost:  o pkg/cost:
269    - 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
270      (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:
271      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
272        cannot be applied to var in common block).        cannot be applied to var in common block).
273      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
274        slower GLOBAL_SUM_SEND_RECV option).        slower GLOBAL_SUM_SEND_RECV option).
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