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revision 1.1950 by dimitri, Thu Dec 19 01:06:09 2013 UTC revision 1.1981 by mlosch, Thu Apr 24 09:23:49 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 useSingleCpuInput separates single-CPU input from single-CPU output  o pkg/seaice: some small modifications to the ridging code
8  o pkg/seaice/seaice_lsr.F: fix an initialisation bug for the    - make fw2ObyRidge a global variable and add the freshwater flux to
9    SEAICE_VECTORIZE_LSR_ZEBRA option that lead to NaNs on a NEC-SX8      seaice_growth
10      - pass actual thickness from seaice_prepare_ridging, so that it is
11        computed only in one place and compute it in the same way as in
12        seaice_growth
13      - initialise more fields in seaice_do_ridging that where cause floating
14        point exceptions over land
15    o pkg/seaice: preparations for ridging code and first real ridging code
16      - move most of "PART 1" of S/R seaice_growth into a new and separate
17        S/R seaice_reg_ridge that will both regularize the state variable after
18        advection call the actual ridging routine;
19      - requires to make 5 fields global fields: d_HEFFbyNEG,d_HSNWbyNEG,
20        d_AREAbyRLX,d_HEFFbyRLX,saltFluxAdjust;
21      - remove ridging code from seaice_advdiff
22      - clean up remaining part 1 of seaice_growth in an attempt to make it
23        more readable (this is probably subjective)
24      - call seaice_itd_redist once in the initialisation phase to have the initial
25        conditions in the correct category
26      - finally: add new ridging routine for ITD code
27    
28    checkpoint64v (2014/04/11)
29    o pkg/ecco:
30      - add runtime parameters mdt[start,end]date[1,2]
31      - rename variable "tpmean" as "mdt" and "topexmeanfile" as "mdtdatfile"
32    o pkg/seaice:
33      - make deltaC a global variable, so that it can be used in ridging code
34      - first step towards ridging: introduce new routines that compute
35        ice strength based on ridging parameters
36      - add diagnostic for HSNOWITD
37      - add opnWtrFrac as a global variable (required for ridging scheme)
38    o pkg/salt_plume + pkg/seaice/seaice_growth.F
39      - add SALT_PLUME_IN_LEADS flag to activate pkg/salt_plume only when ice
40        AREA exceeds a threshold (code contributed by I.Fenty in 2011)
41    o verification/hs94.1x64x5:
42      - leave ALLOW_AUTODIFF_TAMC undefined in code_oad/AUTODIFF_OPTIONS.h
43      - do not use ECCO_CPPOPTIONS.h anymore for TAF & OpenAD Adjoint tests.
44    o autodiff:
45      - Start to include explicitly AUTODIFF_OPTIONS.h, COST_OPTIONS.h,
46        and CTRL_OPTIONS.h in src files (to enable to skip the ECCO_CPPOPTIONS.h)
47        For now, only in pkgs used in verification/hs94.1x64x5.
48      - Replace ALLOW_AUTODIFF_TAMC by ALLOW_AUTODIFF (except for tape/storage
49        which are specific to TAF/TAMC).
50      - Replace ALLOW_AUTODIFF_OPENAD by ALLOW_OPENAD:
51        since ALLOW_OPENAD is defined in PACKAGES_CONFIG.h (any time pkg/openad
52        is compiled), this simplifies/reduces which *_OPTIONS.h file to include.
53      - OpenAD: change Makefile to generate the appropriate AD_CONFIG.h when
54        building mitgcmuv_ad (make adAll).
55    o pkg/ecco:
56      - cost_gencost_seaicev4.F:
57         reformulate proxy cost as function of sst and local param SEAICE_freeze
58         change cost names from siv4-[sst,vol] to siv4-[deconc,exconc]
59      - add stop statement if old names siv4-[sst,vol] are used
60      - add snapshots + cost reports for atmospheric longwave
61      - remove factor 0.1 in front of wtau[u,v]
62      - replace never used flag ALLOW_TMI_COST_CONTRIBUTION with
63         ALLOW_TMI_SST_COST_CONTRIBUTION
64    o pkg/atm_phys:
65      - add some diagnostics for Short-wave and for convection S/R.
66    o pkg/seaice/seaice_growth:
67      - fix a bug in the lateral melt parameterization for SEAICE_ITD
68        in seaice_growth; tempFrz needs to be computed inside the i/j-loop
69      - rearrange loop order for better vector code in the same code block
70      - rewrite the floeDiameter formula to have fewer divisions
71      -  (miraculously) none of this changes the results of seaice_itd
72    o pkg/smooth:
73      - move param smooth2Ddiffnbt to pkg/ecco
74    o pkg/salt_plume:
75      - salt_plume_frac.F:
76         clean up local param names
77         reformulate (1-frac) to frac; original 1-frac was based on swfrac code
78    o pkg/rw:
79      - add RS version of S/R READ_MFLDS_LEV.
80    o pkg/streamice:
81      - fix the restart test by writing/reading pickup_streamice files.
82    o pkg/seaice:
83      - refine checks for jfnk-related parameters
84      - comment out if statement with SEAICEuseIMEX parameter as long as there
85        is no IMEX code to avoid confusion and surprises
86    
87    checkpoint64u (2014/03/07)
88    o verification/MLAdjust:
89      - rename secondary test suffix:
90         1.leith  -> A4FlxF  + switch to flux-form & add side-drag
91         0.leithD -> AhFlxF  + switch to flux-form
92         0.smag   -> AhVrDv  (use Vorticity-Div. visc form) + add side-drag
93         0.leith  -> AhStTn  (use Strain-Tension visc form) + add side-drag
94    o pkg/mom_vecinv:
95      - remove unused arguments from S/R MOM_VI_HDISSIP & MOM_HDISSIP (as it used
96        to be before mom_calc_visc.F)
97      - skip the call to MOM_CALC_TENSION & MOM_CALC_STRAIN if not needed.
98      - add 2nd copy of vort3 & strain that knows about lateral BC (free/no slip):
99        this is simpler for the adjoint and for diagnostics.
100    o model/src + pkg/momentum:
101      - add input files for  2-D additional Western and Southern cell-edge wall
102         (e.g., to add "thin-wall" where it is =1).
103      - fix sideDrag option for thin-walls with Non-Lin Free-Surf
104        using 2nd hFacZ that is computed from initial (fix domain) hFac
105      - known limitations of thin wall implementation: not yet coded for sigma
106        coords; not working with CD-scheme neither.
107    o pkg/seaice:
108      - rename recently introduced parameters from (wrong name) AB to
109        BDF (backward difference time discretisation)
110      - retire runtime parameters SEAICEuseAB2, SEAICE_abEps
111    o tools/adjoint_options:
112      - remove setting of "OPENAD=true" (now set by command line "genmake2 -oad")
113    
114    checkpoint64t (2014/02/01)
115    o pkg/ecco
116      - add compile flag ALLOW_GENCOST_TIMEVARY_WEIGHT in ECCO_OPTIONS.h and
117        runtime logical flag gencost_timevaryweight to read daily sea-ice sigma
118      - replace hard-coded record number and period which only work for monthly
119        with read-in runtime param that works for other periods (month,day,year)
120    o pkg/thsice
121      - corrected store directive fixes thsice adjoint gradient checks
122    o genmake2 & testreport:
123      - add genmake2 option "-oad" to generate a Makefile for OpenAD built and
124        in this case, use tools/adjoint_options/adjoint_oad as default AD optfile.
125        Update testreport accordingly. No need to set "export OPENAD=true"
126        in adjoint_options/adjoint_oad anymore (will be removed later).
127    o pkg/shelfice:
128      - put T & S shelfice forcing into model surfaceForcing_T,_S (for now,
129        only if SHELFICEboundaryLayer=F); Change model/src/external_forcing.F
130        so that surface forcing applies to k=kSurf if using pkg/shelfice.
131    o pkg/ctrl, pkg/grdchk, pkg/ecco:
132      - Changes to make GENARR more modular (i.e. invisible if not used)
133    o model/src/temp_integrate.F and salt_integrate.F
134      - re-include store directives that were removed on Dec 27th.
135    o model/src/external_forcing_surf.F
136      - add storage directives for EmPmR and PmEpR to avoid recomputation of
137        seaice_model in the adjoint that is problematic when seaice_model is
138        turned off in the adjoint. The resolved issue dated back to July when
139        EXTERNAL_FORCING_SURF call was moved.
140        Update global_ocean.cs32x15/*/output_adm.seaice_dynmix.txt accordingly.
141    o pkg/exf/exf_check.F
142      - fix a small bug again (originally found by Wentao Liu, now found again)
143      - streamline error output
144    o pkg/streamice and aim_v23:
145      - replace a few "_EXCH_XY_RL (" with "_EXCH_XY_RL(", so that
146        Apple's /usr/bin/cpp knows what to do:
147        Apple LLVM version 5.0 (clang-500.2.79) (based on LLVM 3.3svn)
148        Target: x86_64-apple-darwin13.0.0
149    
150    checkpoint64s (2014/01/05)
151    o tools/adjoint_options:
152      - switch to fastopt.net TAF server (instead of default fastopt.de) for
153        AD optfiles adjoint_diva & adjoint_f95 (similar to adjoint_default).
154    o model/src:
155      - remove some unnecessary TAF storage directives in forward_step.F and
156        in dynamics.F (note: not always removed by TAF, e.g., double storage
157        of kappaRU,kappaRV in former version of dynamics.F).
158    o model/src & pkg/ptracers:
159      - call directly GAD_IMPLICIT_R & IMPLDIFF + DWNSLP_APPLY from temp_integrate.F
160        salt_integrate.F and ptracers_integrate.F (instead of from thermodynamics.F)
161        and remove ptracers_dwnslp_apply.F & ptracers_implicit.F
162      - call MATRIX_STORE_TENDENCY_EXP for each tracer (in ptracers_integrate.F)
163      - add fZon & fMer as output argument of S/R GAD_CALC_RHS.
164      - update TAF AD-output of experiments global_ocean.90x40x15 (13 for AD-grad).
165    o useSingleCpuInput separates single-CPU input from single-CPU output;
166        for now only implemented for in exf_interp_read.F
167    o verification/advect_xy:
168      - fix missing EXCH call in local version of ini_salt.F and update output.
169    o momentum diagnostics:
170      - fix which deltaT is used in Total-Tendency diagnostics.
171      - fix typo in diagnostics for momentum tendency from AB.
172    o pkg/seaice/seaice_lsr.F: fix an initialisation bug for the
173        SEAICE_VECTORIZE_LSR_ZEBRA option that lead to NaNs on a NEC-SX8
174    
175  checkpoint64r (2013/12/08)  checkpoint64r (2013/12/08)
176  o verification/*/results:  o verification/*/results:
# Line 112  o verification: Line 276  o verification:
276  o pkg/cost:  o pkg/cost:
277    - 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
278      (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:
279      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
280        cannot be applied to var in common block).        cannot be applied to var in common block).
281      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
282        slower GLOBAL_SUM_SEND_RECV option).        slower GLOBAL_SUM_SEND_RECV option).
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