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revision 1.1392 by mlosch, Thu Mar 10 09:35:14 2011 UTC revision 1.1418 by jmc, Thu Apr 28 23:26:39 2011 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/obcs:
8      - remove calls to OBCS_COPY_TRACER after EXCH for T,S & pTracer:
9        no longer needed with maskInC,W,S in pkg/generic_advdiff.
10    o pkg/seaice:
11      - retired SEAICE_SALINITY and SEAICE_salinity in favor of
12        SEAICE_VARIABLE_SALINITY and SIsalFRAC, respectively.
13      - fixed bug in the initialization of sea ice salinity variable HSALT
14        in seaice_init_varia.F  (removed dependence on ICE2WATR)
15    o fizhi-cs test exp.:
16       switch reference output convention for these 2 non-standard test-exp,
17        from: pgi  6.1-5 on faulks (FC.6, -of linux_ia32_pgf77+authors_fc5)
18          to: ifort 11.1 on baudelaire (FC.13, -of linux_amd64_ifort11)
19       reason: faulks might get retired soon and pkg/fizhi has still Pb with gfortran
20    o model/inc:
21      - change type of PmEpR array (from _RS to _RL) to fix restart (with "-use_r4")
22        of exp. global_ocean.90x40x15 (Suncronous time-stepping + Real-FW + NonLin-FS)
23    o pkg/seaice:
24      - fix calculation of saltFlux and saltPlumeFlux when using SEAICE_SALINITY
25    o verification/lab_sea, 1D_ocean_ice_column, seaice_obcs, global_ocean.cs32x15
26      - updated output*.txt files due to bug fixes in salt, saltPlumeFlux,
27        and initial HSALT
28    
29    checkpoint62w (2011/04/26)
30    o pkg/mom_fluxform:
31      - fix calculation of del2u & del2v (no-slip BC) when using Non-Lin Free-Surf.
32      - use parameter "sideDragFactor" in no-slip BC side-drag part.
33      - update output of exp. global_ocean.90x40x15
34    o pkg/mom_vecinv:
35      mask del2u & del2v (no effect on results, but cleaner & closer to mom_fluxform)
36    o update seaice exp.:
37      use more consistent parameter values (remove "backward compatability only":
38       ICE2WATR, SEAICE_lhSublim, SEAICE_cpAir, SEAICE_rhoAir + set rhoConstFresh)
39      related to thermodynamics seaice. Update output (fwd+AD) of exp.:
40       1D_ocean_ice_column (x2), lab_sea (x8), ioffline_exf_seaice (x2) & seaice_obcs
41    o update test-exp global_ocean.90x40x15:
42      o use default CD_CODE_OPTIONS file (Adams-Bashforth on CD Mom & Coriolis).
43      o increase Overlap size from 2 to 3 (to allow to test bi-harmonic Visc.)
44      o new pickup-files from a 100.yr run with pkg/down_slope (input.dwnslp params)
45      o turn on zStar & viscA4 in standard set-up (dir input/)
46        and update output files: output.txt & output.dwnslp.txt
47    o new AD-test experiment: obcs_ctrl
48      (From Matt MITgcm_Contrib/SOSE/BoxAdj) to test OBCS as control vector.
49    o pkg/dic:
50      fix two bugs in handling water vapour pressure in carbonate chemistry
51      and air-sea fluxes. Found by Val Bennington and Galen McKinley
52      (add DIC Option = WATERVAP_BUG to recover old results)
53      update output of tutorial_global_oce_biogeo (fwd+AD) & tutorial_dic_adjoffline
54    o adding allowInteriorFreezing option to check for water below freezing point
55      at depth and bring the negative heat anomaly to the surface level
56    o pkgs _fields_load:
57      - extend GET_PERIODIC_INTERVAL to deal with non-periodic case (from pkg/rbcs)
58      - use new S/R GET_PERIODIC_INTERVAL in pkgs:
59        bulk_force, cheapaml, cfc, dic, obcs (+ ctrl/ctrl_get_gen_rec), offline and
60        rbcs to get interpolation weights and time reccord number.
61      - fix multi-threading in aim_fields_load.F
62      - apply EXCH to temp arrays [0,1] after reading in dic_fields_load.F
63    o external_fields_load:
64      new S/R GET_PERIODIC_INTERVAL to calculate which time-record (and linear
65       interpolation weights) to use in a periodic time-series ; do not divide by
66       time-step to convert to integer:
67       - this fixes case where externForcingPeriod is not multiple of time-step
68          (Thanks to Christopher L. Wolfe)
69       - this fixes case where externForcingPeriod is an odd multiple of time-step
70         (was wrong by half of time-step); update results of tutorial_global_oce_in_p.
71      store index of time-record which is currently loaded:
72       - works without any assumption on sequence of calls to EXTERNAL_FIELDS_LOAD ;
73       - needed for the adjoint but not yet used because of extensive recomputations;
74         (to be fixed soon)
75    
76    checkpoint62v (2011/04/02)
77    o verification/1D_ocean_ice_column added to test Ian Fenty's
78      pkg/seaice_growth.F modifications for improving sea ice code differentiability
79    o update output of exp4, internal_wave, seaice_obcs, tutorial_plume_on_slope
80      (new velocity statistics after changing maskInW & maskInS definition)
81    o pkg/generic_advdiff with OBCS:
82      use maksInW & maskInS in advective flux and in biharmonic diffusion calculation:
83      equivalent to assumption of no tracer gradient outside the OB region.
84      This will affect the results if using obcs+biharmonic diffusion.
85      update output_adm.txt of experiment bottom_ctrl_5x5 (not expected since no obc)
86    o pkg/obcs:
87      change definition of maskInW & maskInS: leave OB edges inside (maskIn=1)
88      (e.g., maskInW(OB_Ie)=1 ) so that velocity normal-component at OB is still
89      in Interior region. No impact on solution but affects Velocity monitor stats.
90    o pkg/ptracers (adjoint)
91      New option AUTODIFF_PTRACERS_SPLIT_FILES for writing separate
92      tape file for each tracer
93    o model/inc/src and pkg/autodiff: add parameters that allow to turn
94      of parts of the adjoint code at run time. For now, there are only
95      useKPPinAdMode, useGMrediInAdMode, and useSEAICEinAdMode. These
96      parameters are set in data.pkg.
97      This is the lazy coward's version of doing this, but still useful for
98      debugging. In order to do it right, everything needs to be moved to
99      pkg/autodiff.
100    o pkg/autodiff: fix global_sum_tile_ad.F by resetting adsumPhi at
101      the end; this fixes the adjoint balancing code for open boundaries.
102    o pkg/ctrl:
103      - change behavior of xx_${varname}period to be analogous to exf-conventions:
104        xx_${varname}period =   0.,  means time-independent control part
105        xx_${varname}period = -12., means one-year-periodic monthly control part
106      - introduce helper routine ctrl_init_rec (part of ctrl_init.F) to
107        clean up ctrl_init a little, remove unused variables
108      - ctrl_init: fixed the handling of the start/endrec for obcs-variables
109      - move "call cal_GetMonthsRec" from s/r ctrl_get_gen to s/r ctrl_get_gen_rec
110    
111    checkpoint62u (2011/03/15)
112    o model/src:
113      - for the adjoint, change NonLin-FreeSurf initialisation sequence: fill-in
114        h0Fac from INITIALISE_FIXED and reset hFac to h0Fac in INITIALISE_VARIA ;
115      - in initialise_varia.F (except for ALLOW_DEPTH_CONTROL) remove 2nd call to
116        INI_DEPTHS, INI_MASKS_ETC & INI_LINEAR_PHISURF.
117    o pkg/ctrl/obcs/ecco:
118      - remove obsolete, unused, and partially broken code:
119        ctrl_obcsvol/ctrl_obcsbal/ctrl_volflux and code within
120        ALLOW_CTRL_OBCS_BALANCE
121      - put a stop statement into ecco/cost_obcsvol.F, but also add
122        cost_obcsvol to ecco_ad_diff.list
123    o pkg/ecco: fix counting cost function contributions for obcs (code
124      by Matt M.) and diffkr for diagnostics
125    o pkg/ecco, pkg/ctrl, pkg/grdchk:
126      add cost penalty terms for initial uvel, vvel, eta controls
127      and I/O for prior error files
128    o pkg/mdsio:
129       move mds_check4file.F from eesupp/src to mdsio_check4file.F ; add option
130       (new argument) to check for tiled file in mdsioLocalDir : this fix the
131       restart from pickup_som , pickup_dic (& dic_co2atm) with mdsioLocalDir.
132  o pkg/ctrl:  o pkg/ctrl:
133   - ctrl_obcsbal.F, ctrl_obcsvol.F: replace last calls of ctrl_getrec by   - ctrl_obcsbal.F, ctrl_obcsvol.F: replace last calls of ctrl_getrec by
134     ctrl_get_gen_rec, put a stop statement into ctrl_getrec. Remove     ctrl_get_gen_rec, put a stop statement into ctrl_getrec. Remove
# Line 11  o pkg/ctrl: Line 136  o pkg/ctrl:
136   - ctrl_get_gen_rec.F: catch the case of xx_genperiod=0.   - ctrl_get_gen_rec.F: catch the case of xx_genperiod=0.
137  o pkg/ecco  o pkg/ecco
138   - enable adjoint of Stevens OB   - enable adjoint of Stevens OB
139  o pkg/ctrl/ecco/grdchk:  o pkg/ctrl/ecco/grdchk:
140    - remove global declaration of tmpfldx/yz and tmpfldx/yz2.    - remove global declaration of tmpfldx/yz and tmpfldx/yz2.
141      Fortunately, we do not have any tests for the numerous cpp-flagged      Fortunately, we do not have any tests for the numerous cpp-flagged
142      option of "obcs as control parameters" so we will never know      option of "obcs as control parameters" so we will never know
143      if this is an improvement (but at least now things compile).      if this is an improvement (but at least now things compile).
144    - remove an obsolete initialization from ecco_cost_init_barfiles.F    - remove an obsolete initialization from ecco_cost_init_barfiles.F
145    - fix some problems within never used ifdefs to make the code compile    - fix some problems within never used ifdefs to make the code compile
146  o pkg/obcs:  o pkg/obcs:
147   - Refine Interior mask definition to work with more complex OB (e.g.   - Refine Interior mask definition to work with more complex OB (e.g.
148     if OB_Ie < OB_Iw); In case default setting is not sufficient, allows to     if OB_Ie < OB_Iw); In case default setting is not sufficient, allows to
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