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revision 1.2213 by mlosch, Thu Dec 17 11:39:20 2015 UTC revision 1.2241 by jmc, Mon Apr 4 21:31:33 2016 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: fix bug in tridiagonal solvers for SEAICE_OLx/y>0, this affects  o model/src:
8    the JFNK solver (offline.dyn_jfnk) and global_ocean.cs32x15.seaice    - new parameters "top_Pres" & "seaLev_Z" (replacing Ro_SeaLevel and recently
9    -> updated      added phi0Ref) to set vertical axis origin and phiRef origin;
10  o pkg/seaice:      keep Ro_SeaLevel for backward compatibility (with a warning).
11    - fix a bug in computing areaS in (J-J -> J-1) that affects runs     According to coordinate and fluid type:
12        OCN in Z: top_Pres(Ref) (=rhoConst*PhiRef(1)), seaLev_Z (=rF(1), @ the top)
13        ATM in Z: top_Pres(Ref) (=rhoConst*PhiRef(1)), seaLev_Z (=rF(Nr+1) @ bottom)
14        OCN in P: top_Pres (=rF(Nr+1)), seaLev_Z (= PhiRef(Nr+1)/g, @ the top)
15        ATM in P: top_Pres (=rF(Nr+1)), seaLev_Z (= PhiRef(1)/g, @ the bottom)
16    o pkg/seaice/seaice_evp.F
17      - simplify computation of deltaZ and zetaZ to simple averaging following
18        Bouillon et al. (2013). This removes a lot of code, but also changes
19        verification experiment lab_sea.hb87 -> updated
20    
21    checkpoint65u (2016/03/14)
22    o pkg/generic_advdiff:
23      - from Darren: add PPM and PQM advection schemes (number 40-42 and 50-52)
24        with 2 types of limiter (see: Engwirda & Kelley, submit. to JCP);
25        Note (from Darren): unlimited PPM/PQM scheme (40 & 50) are just for
26        testing and not for actual use.
27    o model/src:
28      - add parameter "phi0Ref" to specify reference [pressure/geo] potential at
29        origin r = rF(1);
30      - add options (parameter selectP_inEOS_Zc) to select which pressure to use
31        in EOS for height coordinate: enable to include NH Pressure or to use
32        more accurate pressure vertical profile; options not linked to EOS type
33        (as previously, e.g., JMD95P/JMD95Z) but set default according to EOS type;
34      - start to implement variable gravity (along vertical): for now, only with
35        z-coords (not even z*).
36      - add Ideal Gas equation of state for height coordinate.
37      - update OpenAD output (affected at machine truncation level) of exp:
38        global_ocean.90x40x15, OpenAD (std) and tutorial_global_oce_biogeo.
39    o pkg/exf:
40      - add ALLOW_EXF_OUTPUT_INTERP cpp switch to output the result
41        of exf interpolation (before any rescaling, rotation or interpolation
42        to velocity point) for each field that gets loaded from file. This option
43        identically mimics the input file organization (e.g. record numbers in year
44        by year input files) besides the change in horizontal grid.
45      - add rotateStressOnAgrid run-time switch so that wind stress fields
46        can be provided on the A-grid in zonal/meridional direction and
47        rotated on the fly. This only applies to the case when the exf
48        interpolation is off and rotateStressOnAgrid is false by default.
49    o model/src:
50      - rename internal parameter "useDynP_inEos_Zc" to "storePhiHyd4Phys" (since
51        it's also used with pkg/atm_phys) and add few more parameters (but still
52        inactive, src code yet to come)
53    
54    checkpoint65t (2016/02/10)
55    o pkg/atm_phys:
56      - from Ruth Geen: add optical depth dependence on CO2 concentration.
57    o model/src:
58      - fix vertical inter/extra-polation of density factor rhoFacF (for anelastic)
59        for the case setCenterDr=T (delRc set from "data"); add output of rhoFacC&F.
60        Update output of exp. deep_anelastic (changes at truncation level).
61    o tools:
62      - add a hack in "remove_comments_sed" (used only with TAF) for recent
63        version of OpenMPI (shipped with FC.23): comment out the new header
64        file "mpif-sizeof.h" which causes problems to TAF.
65    o pkg/seaice:
66      - change the termination criterion so that maxits (SEAICElinearIterMax)
67        has an effect
68      - unify iteration parameters for implicit solvers (JFNK and Picard)
69        SEAICEnonLinIterMax replaces SEAICEnewtonIterMax/NPSEUDOTIMESTEPS
70        SEAICElinearIterMax replaces SEAICEkrylovIterMax/SOLV_MAX_ITER
71        SEAICEpreLinIterMax replaces SOLV_MAX_ITER in preconditioner
72        SEAICEpreNL_IterMax replaces NPSEUDOTIMESTEPS in preconditioner
73        SEAICEnonLinTol     replaces JFNKgamma_nonlin
74      - remove S/R SEAICE_FGMRES_DRIVER and put content into S/R SEAICE_JFKN
75      - add new Picard-Krylov solver, compile with SEAICE_ALLOW_KRYLOV and
76        use with SEAICEuseKrylov
77    o pkg/seaice/seaice_lsr.F
78        fix small bug: replace zetaZ by zetaZloc in S/R seaice_lsr_rhsu/v; only
79        relevant if SEAICEuseStrImpCpl=T, and even then it does not seem to have
80        an effect.
81    o pkg/seaice: add two new parameters
82      - SEAICEuseLSR to simplify the logic in seaice_dynsolver (this
83        parameter is not in any namelist)
84      - SEAICEusrPicardAsPrecon to allow s/r seaice_lsr to be used as
85        a preconditioner for the non-linear Newton iteration of the JFNK
86        solver
87    o pkg/seaice/seaice_lsr.F: replace 1./SEAICE_deltaTdyn with recip_deltaT,
88      affects some experiments at truncation level:
89      - global_ocean.cs32x15.icedyn (11 digits),
90      - global_ocean.cs32x15.seaice (11 digits),
91      - seaice_itd (12 digits), seaice_itd.lipscomb07 (12 digits) -> update
92      - also update global_ocean.cs32x15 adjoint and tangent-linear results
93    o pkg/salt_plume & pkg/thsice:
94      - for coupled  set-up with pkg/thsice in ATM and pkg/salt_plume in OCN,
95        connect salt_plume flux to ATM-OCN coupling pkgs interface:
96       a) in ATM: also cumulate salt-plume flux in S/R THSICE_SALT_PLUME (for
97         export to coupler interface) even without compiling pkg/salt_plume ;
98       b) in OCN: apply coupler salt-plume flux to pkg/salt_plume field
99         (saltPlumeFlux) just before exch call, in S/R SALT_PLUME_DO_EXCH.
100    o pkg/dic:
101      - use the updated seaice fraction (from seaice pkgs) for DIC forcing
102        instead of the previous time-step value ; done in new S/R DIC_FIELDS_UPDATE
103        called from the top of dic_biotic_forcing.F (instead of in DIC_FIELDS_LOAD);
104      - move also update with values from ATM-OCN Coupler in the same new S/R
105        (previously done in ocn_apply_import.F).
106    o tools/adjoint_options:
107      - specify explicitly "-f77" or "-f90" in default ad-optfile since TAF (default)
108        has been changed on Jan 14, 2016.
109    o pkg/ggl90:
110      - add alternative discretisation of vertical shear (off by default), to
111        compute the mean (@ grid-cell center) of vertical shear compon instead of
112        vertical shear of mean flow (@ grid-cell center).
113      - add correct parenthesis in ALLOW_GGL90_SMOOTH code to get the same truncated
114        results on adjacent faces of cubed-sphere grids; this fix the restart.
115    o pkg/atm_compon_interf:
116      - skip time-ave over cpl_atmSendFrq of Sea-Level Pressure (atmSLPr) and just
117        pass last value, stored directly before export to CPL ;
118        Note: this affects results of Coupled set-up where OCN uses useImportSLP=T
119      - remove atmSLPr from pickup files (no longer needed for restart)
120    
121    checkpoint65s (2016/01/13)
122    o eesupp & genmake2:
123       - first check for Function ETIME and, if it fails, then check for subroutine
124         ETIME and consistent output; use the appropriate version in timers.F
125    o model/src:
126      - to check restart test, add option to apply EXCH to U,V earlier, just before
127        integr_continuity; turned off by default.
128    o pkg/dic:
129      - remove CPP option USE_ATMOSCO2 (not needed)
130    o tools/tst_2+2:
131      - try to ignore difference between +0 and -0 in binary file, causing test
132        to fail for no good reason.
133    o eesupp & genmake2:
134      - put back modif from Jinxuan Zhu - change etime fct call to S/R call -
135        but also check (in genmake2) that test runs and returns meaningful results.
136    o coupler pkgs:
137      Finish implementation of optionally-exchanged variable switches (started on
138       Nov 12) with addition of few more exchanged fields, including 2-way exchange
139       of pkg/thsice vars to allow to use seaice dynamics (from pkg/seaice) & seaice
140       advection in OCN component; this requires sequential coupling.
141      coupler (pkg/atm_ocn_coupler):
142      - add argument msgUnit and iter number to CPL_SEND/RECV_ATM/OCN_FIELDS
143        routines (useful for debug).
144      - only export/import optionally exchanged fields (RunOff, seaice, Salt-Plume
145         flux, DIC fields) if corresponding switch is ON.
146      - add option to export RunOff to OCN (to use for DIC river input)
147      - add 2-way thSIce vars exchange; check for consistent cpl_sequential setting.
148      components (pkg/atm_ & ocn_compon_interf):
149      - to save memory space in ATM & OCN comp: add some #ifdef ALLOW_${PKG} around
150        optionally exchanged fields; add a check & stop in cpl_readparms.F.
151        ATMCPL.h: ALLOW_LAND for RunOff, ALLOW_THSICE for seaice, ALLOW_AIM for CO2;
152        OCNCPL.h: ALLOW_SALT_PLUME, ALLOW_DIC for DIC, ALLOW_THSICE for 2-W thsice.
153      - rename:   fracIce     -> sIceFrac_cpl (<- match coupler var name)
154        + in ATM: fracIceTime -> sIceFracTime ; seaIceTime -> sIceMassTime.
155      - add 2-way thSIce vars exchange ; add Salt-Plume flux ; add RunOff in OCN.
156      - hold in common block coupler optionally-exchanged variable switch
157        and set default "useImportXXX" accordingly; + check & stop if inconsistent.
158      - add diagnostics for all imported fields from coupler (in both OCN & ATM);
159        this is intended to replace the OCN cplFldtave.* output files (not updated
160        to contain new additional exchanged fields).
161    o pkg/dic:
162      - fix an other bug (also from 2014/08/30) in dic_atmos.F, in dic_int1=3 code.
163    o pkg/thsice:
164      - when coupled to ATM (useCoupler) with thSIce_skipThermo=T, skip reading
165        and writing of thsice pickup files.
166    o pkg/atm_compon_interf:
167      - move all field individual export-call out of cpl_export_import_data.F
168        into new S/R ATM_EXPORT_FIELDS
169    o pkg/atm_compon_interf:
170      - store state variables (for now, only thSIce fields) just before beeing
171        exported (in cpl_export_import_data.F, like on ocean side) instead of from
172        atm_store_my_data.F like all exported fluxes.
173      - new version of pickup_cpl: write field names into meta file and read meta
174        file to find field postion in pickup. Also only write/read fields meeded for
175        restart (same logic as main pickup file ; also using pickupStrictlyMatch)
176    o pkg/dic:
177      - fix bug (added on 2014/08/30) in dic_atmos.F for the case dic_int1= 2 or 3.
178    o pkg/seaice: add new parameter SEAICEpressReplFac to choose between
179        pressure replacement method (=1., default) or original Hibler (1979) (=0.)
180        value can be from domain [0,1] to average between the two methods
181    o pkg/atm_phys:
182      - allow to provide 2-d map of albedo and mixed-layer depth from files (but
183        hold fixed in time).
184    
185    checkpoint65r (2015/12/21)
186    o pkg/seaice:
187        fix bug in tridiagonal solvers for SEAICE_OLx/y>0, this affects the JFNK
188        solver (offline.dyn_jfnk) and global_ocean.cs32x15.seaice -> updated
189    o pkg/seaice:
190      - fix a bug in computing areaS in (J-J -> J-1) that affects runs
191      when SEAICEscaleSurfStress=.TRUE.,      when SEAICEscaleSurfStress=.TRUE.,
192    - apply areaW and areaS in S/R seaice_calc_lhs    - apply areaW and areaS in S/R seaice_calc_lhs
193  o pkg/atm_phys:  o pkg/atm_phys:
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