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revision 1.1381 by dimitri, Wed Feb 23 21:12:45 2011 UTC revision 1.1417 by ifenty, Thu Apr 28 18:44:09 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/seaice:
8      - retired SEAICE_SALINITY and SEAICE_salinity in favor of
9        SEAICE_VARIABLE_SALINITY and SIsalFRAC, respectively.
10      - fixed bug in the initialization of sea ice salinity variable HSALT
11        in seaice_init_varia.F  (removed dependence on ICE2WATR)
12    o fizhi-cs test exp.:
13       switch reference output convention for these 2 non-standard test-exp,
14        from: pgi  6.1-5 on faulks (FC.6, -of linux_ia32_pgf77+authors_fc5)
15          to: ifort 11.1 on baudelaire (FC.13, -of linux_amd64_ifort11)
16       reason: faulks might get retired soon and pkg/fizhi has still Pb with gfortran
17    o model/inc:
18      - change type of PmEpR array (from _RS to _RL) to fix restart (with "-use_r4")
19        of exp. global_ocean.90x40x15 (Suncronous time-stepping + Real-FW + NonLin-FS)
20    o pkg/seaice:
21      - fix calculation of saltFlux and saltPlumeFlux when using SEAICE_SALINITY
22    o verification/lab_sea, 1D_ocean_ice_column, seaice_obcs, global_ocean.cs32x15
23      - updated output*.txt files due to bug fixes in salt, saltPlumeFlux,
24        and initial HSALT
25    
26    checkpoint62w (2011/04/26)
27    o pkg/mom_fluxform:
28      - fix calculation of del2u & del2v (no-slip BC) when using Non-Lin Free-Surf.
29      - use parameter "sideDragFactor" in no-slip BC side-drag part.
30      - update output of exp. global_ocean.90x40x15
31    o pkg/mom_vecinv:
32      mask del2u & del2v (no effect on results, but cleaner & closer to mom_fluxform)
33    o update seaice exp.:
34      use more consistent parameter values (remove "backward compatability only":
35       ICE2WATR, SEAICE_lhSublim, SEAICE_cpAir, SEAICE_rhoAir + set rhoConstFresh)
36      related to thermodynamics seaice. Update output (fwd+AD) of exp.:
37       1D_ocean_ice_column (x2), lab_sea (x8), ioffline_exf_seaice (x2) & seaice_obcs
38    o update test-exp global_ocean.90x40x15:
39      o use default CD_CODE_OPTIONS file (Adams-Bashforth on CD Mom & Coriolis).
40      o increase Overlap size from 2 to 3 (to allow to test bi-harmonic Visc.)
41      o new pickup-files from a 100.yr run with pkg/down_slope (input.dwnslp params)
42      o turn on zStar & viscA4 in standard set-up (dir input/)
43        and update output files: output.txt & output.dwnslp.txt
44    o new AD-test experiment: obcs_ctrl
45      (From Matt MITgcm_Contrib/SOSE/BoxAdj) to test OBCS as control vector.
46    o pkg/dic:
47      fix two bugs in handling water vapour pressure in carbonate chemistry
48      and air-sea fluxes. Found by Val Bennington and Galen McKinley
49      (add DIC Option = WATERVAP_BUG to recover old results)
50      update output of tutorial_global_oce_biogeo (fwd+AD) & tutorial_dic_adjoffline
51    o adding allowInteriorFreezing option to check for water below freezing point
52      at depth and bring the negative heat anomaly to the surface level
53    o pkgs _fields_load:
54      - extend GET_PERIODIC_INTERVAL to deal with non-periodic case (from pkg/rbcs)
55      - use new S/R GET_PERIODIC_INTERVAL in pkgs:
56        bulk_force, cheapaml, cfc, dic, obcs (+ ctrl/ctrl_get_gen_rec), offline and
57        rbcs to get interpolation weights and time reccord number.
58      - fix multi-threading in aim_fields_load.F
59      - apply EXCH to temp arrays [0,1] after reading in dic_fields_load.F
60    o external_fields_load:
61      new S/R GET_PERIODIC_INTERVAL to calculate which time-record (and linear
62       interpolation weights) to use in a periodic time-series ; do not divide by
63       time-step to convert to integer:
64       - this fixes case where externForcingPeriod is not multiple of time-step
65          (Thanks to Christopher L. Wolfe)
66       - this fixes case where externForcingPeriod is an odd multiple of time-step
67         (was wrong by half of time-step); update results of tutorial_global_oce_in_p.
68      store index of time-record which is currently loaded:
69       - works without any assumption on sequence of calls to EXTERNAL_FIELDS_LOAD ;
70       - needed for the adjoint but not yet used because of extensive recomputations;
71         (to be fixed soon)
72    
73    checkpoint62v (2011/04/02)
74    o verification/1D_ocean_ice_column added to test Ian Fenty's
75      pkg/seaice_growth.F modifications for improving sea ice code differentiability
76    o update output of exp4, internal_wave, seaice_obcs, tutorial_plume_on_slope
77      (new velocity statistics after changing maskInW & maskInS definition)
78    o pkg/generic_advdiff with OBCS:
79      use maksInW & maskInS in advective flux and in biharmonic diffusion calculation:
80      equivalent to assumption of no tracer gradient outside the OB region.
81      This will affect the results if using obcs+biharmonic diffusion.
82      update output_adm.txt of experiment bottom_ctrl_5x5 (not expected since no obc)
83    o pkg/obcs:
84      change definition of maskInW & maskInS: leave OB edges inside (maskIn=1)
85      (e.g., maskInW(OB_Ie)=1 ) so that velocity normal-component at OB is still
86      in Interior region. No impact on solution but affects Velocity monitor stats.
87    o pkg/ptracers (adjoint)
88      New option AUTODIFF_PTRACERS_SPLIT_FILES for writing separate
89      tape file for each tracer
90    o model/inc/src and pkg/autodiff: add parameters that allow to turn
91      of parts of the adjoint code at run time. For now, there are only
92      useKPPinAdMode, useGMrediInAdMode, and useSEAICEinAdMode. These
93      parameters are set in data.pkg.
94      This is the lazy coward's version of doing this, but still useful for
95      debugging. In order to do it right, everything needs to be moved to
96      pkg/autodiff.
97    o pkg/autodiff: fix global_sum_tile_ad.F by resetting adsumPhi at
98      the end; this fixes the adjoint balancing code for open boundaries.
99    o pkg/ctrl:
100      - change behavior of xx_${varname}period to be analogous to exf-conventions:
101        xx_${varname}period =   0.,  means time-independent control part
102        xx_${varname}period = -12., means one-year-periodic monthly control part
103      - introduce helper routine ctrl_init_rec (part of ctrl_init.F) to
104        clean up ctrl_init a little, remove unused variables
105      - ctrl_init: fixed the handling of the start/endrec for obcs-variables
106      - move "call cal_GetMonthsRec" from s/r ctrl_get_gen to s/r ctrl_get_gen_rec
107    
108    checkpoint62u (2011/03/15)
109    o model/src:
110      - for the adjoint, change NonLin-FreeSurf initialisation sequence: fill-in
111        h0Fac from INITIALISE_FIXED and reset hFac to h0Fac in INITIALISE_VARIA ;
112      - in initialise_varia.F (except for ALLOW_DEPTH_CONTROL) remove 2nd call to
113        INI_DEPTHS, INI_MASKS_ETC & INI_LINEAR_PHISURF.
114    o pkg/ctrl/obcs/ecco:
115      - remove obsolete, unused, and partially broken code:
116        ctrl_obcsvol/ctrl_obcsbal/ctrl_volflux and code within
117        ALLOW_CTRL_OBCS_BALANCE
118      - put a stop statement into ecco/cost_obcsvol.F, but also add
119        cost_obcsvol to ecco_ad_diff.list
120    o pkg/ecco: fix counting cost function contributions for obcs (code
121      by Matt M.) and diffkr for diagnostics
122    o pkg/ecco, pkg/ctrl, pkg/grdchk:
123      add cost penalty terms for initial uvel, vvel, eta controls
124      and I/O for prior error files
125    o pkg/mdsio:
126       move mds_check4file.F from eesupp/src to mdsio_check4file.F ; add option
127       (new argument) to check for tiled file in mdsioLocalDir : this fix the
128       restart from pickup_som , pickup_dic (& dic_co2atm) with mdsioLocalDir.
129    o pkg/ctrl:
130     - ctrl_obcsbal.F, ctrl_obcsvol.F: replace last calls of ctrl_getrec by
131       ctrl_get_gen_rec, put a stop statement into ctrl_getrec. Remove
132       unused and superfluous variables
133     - ctrl_get_gen_rec.F: catch the case of xx_genperiod=0.
134    o pkg/ecco
135     - enable adjoint of Stevens OB
136    o pkg/ctrl/ecco/grdchk:
137      - remove global declaration of tmpfldx/yz and tmpfldx/yz2.
138        Fortunately, we do not have any tests for the numerous cpp-flagged
139        option of "obcs as control parameters" so we will never know
140        if this is an improvement (but at least now things compile).
141      - remove an obsolete initialization from ecco_cost_init_barfiles.F
142      - fix some problems within never used ifdefs to make the code compile
143    o pkg/obcs:
144     - Refine Interior mask definition to work with more complex OB (e.g.
145       if OB_Ie < OB_Iw); In case default setting is not sufficient, allows to
146       read in Interior mask from file. Check if Interior mask is consistent
147       with OB list of indices.
148    o pkg/seaice
149     - beginning code for a seaice tracer package,
150       but currently only used for seaice age: SEAICE_AGE
151       SEAICE_num = 4
152       iTracer = 1: area-weighted ice age
153               = 2: volume-weighted ice age
154               = 3, 4: template for one-year vs. multi-year ice
155       data.seaice has new namelist SEAICE_PARM03 for arrays related to
156       SEAICE_num
157    
158    checkpoint62t (2011/03/05)
159    o pkg/obcs:
160     - obcs_apply_uv.F: change to a 2 steps method, first tangential component;
161       then normal component. This ensures that the normal component is set
162       correctly even when it conficts with tangential setting from an other OB.
163       Affects results of test-experiment seaice_obcs: update the output.txt
164    o pkg/obcs:
165     - add code to monitor statistics of dynamical fields at OB.
166     - take OBCS_BALANCE code out of obcs_calc.F into new S/R OBCS_BALANCE_FLOW :
167       - fix to OBCS_BALANCE code (right hFac ; deal with simple OB intersection).
168       - change default: balance the Net inflow through all OB (instead of balancing
169         each OB separately); keep the old method if setting OBC_balanceFacX < 0.
170     - switch on useOBCSbalance in dome experiment: only correct Western OB outflow
171       to match Nortern OB inflow (OBCS_balanceFacN=0).
172    o pkg/seaice:
173     - redefined actual sea ice age to be ICEAGE/HEFF ifdef SEAICE_AGE_VOL
174  o pkg/seaice (seaice_growth v 1.113):  o pkg/seaice (seaice_growth v 1.113):
175   - reverting seaice_growth to v 1.111 in order to have code with exact bit   - reverting seaice_growth to v 1.111 in order to have code with exact bit
176     compatibility with MITgcm_contrib/ifenty/Fenty_seaice_thermo_code_merge     compatibility with MITgcm_contrib/ifenty/Fenty_seaice_thermo_code_merge
# Line 13  o model/src: Line 180  o model/src:
180   - add new param to scale curvilinear grid distance and area when using   - add new param to scale curvilinear grid distance and area when using
181     a different sphere radius from the grid-files.     a different sphere radius from the grid-files.
182   - test/check multi-threads EXCH applied to local variable (cg2d_x)   - test/check multi-threads EXCH applied to local variable (cg2d_x)
183    o adjoint:
184     - enable adjoint of Stevens OB
185     - add dummy_in_dynamics to enable extraction of ADJrhoinsitu
186       (a bit delicate because of potentially modified adj. common block structure;
187       current switch is ALLOW_AUTODIFF_MONITOR_DIAG, could be changed later)
188    
189  checkpoint62s (2011/02/15)  checkpoint62s (2011/02/15)
190  o pkg/seaice (seaice_growth v 1.112):  o pkg/seaice (seaice_growth v 1.112):
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