/[MITgcm]/MITgcm/doc/tag-index
ViewVC logotype

Diff of /MITgcm/doc/tag-index

Parent Directory Parent Directory | Revision Log Revision Log | View Revision Graph Revision Graph | View Patch Patch

revision 1.2144 by mlosch, Tue Apr 7 15:43:21 2015 UTC revision 1.2263 by jahn, Tue Aug 23 18:30:43 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/ptracers: add Bruno Deremble's code to complete the linear surface
8      correction for tracer conservation
9      - enabled for individual ptracers by PTRACERS_linFSConserve(iTr)=.TRUE.
10    
11    checkpoint65y (2016/07/29)
12    o pkg/debug (stats):
13      - change GLOBAL_SUM to GLOBAL_SUM_TILE (result independent of tile to
14        proc/thread mapping);
15      - fix Min & Max for case where 1 thread has only empty tiles;
16      - use RL variable to count number of wet grid points (with big domain,
17        can be too large to fit into integer*4).
18    o pkg/monitor:
19      - use RL variable to count number of wet grid points (but used only for del2)
20      - add new routine to compute Advective CFL within tracer time-stepping with
21        writing delayed until next monitor output.
22    o pkg/obcs:
23      - fix bug in OBCS_BALANCE_FLOW (OBCS_balanceFacN misspelled OBCS_balanceFacW)
24    o pkg/dic & seaice:
25      - fix compilation of ocean component for coupled atm+ocn model with
26        seaice dynamics & dic.
27    
28    checkpoint65x (2016/06/11)
29    o add a license text file in main MITgcm tree.
30    o added pkg/bling:
31      - intermediate complexity biogeochemical model
32      - see bling_description.txt for details
33      - verification experiment is global_oce_biogeo_bling (for now, in
34        Contrib/verification_other/); tested daily on baudelaire with gfortran.
35      - add entry point in pkg/gchem for new pkg "bling".
36    o pkg/seaice: fix tensile stength computation
37      - replace global field tensileStrength by tensileStrFac
38      - tensileStrFac can be computed once in S/R seaice_init_varia
39      - fortunately that does not affect any verification results
40    
41    checkpoint65w (2016/05/12)
42    o pkg/ctrl/ctrl.h: fix a comma in common block list, so that code compiles
43         with ECCO_CTRL_DEPRECATED defined
44    o verification/global_ocean.cs32x15:
45      - change secondary test "viscA4" to also test "selectP_inEOS_Zc=3"
46        with "selectNHfreeSurf=1".
47    o model/src (non-hydrostatic free-surface):
48      - More "natural" expression of NH free-surface term (case selectNHfreeSurf=1):
49        was: tmpSurf/(1+tmpSurf); changed to: 1/(1+Gamma) with Gamma=1/tmpSurf.
50      - Calculate surface vertical velocity after 2-D solver adjustment (accounts
51        for EmPmR if RealFreshWaterFlux); used in RHS (cg3d_b) if exactConserv
52        and used to compute dPhiNH (in post_cg3d.F) if selectNHfreeSurf=1.
53        This fixes EmPmR contribution when selectNHfreeSurf=1 & RealFreshWaterFlux.
54      - Update output (changes at machine truncation level) of verification exp:
55        exp4 (11 digits for cg2d), global_ocean.cs32x15.viscA4 (11.d),
56        short_surf_wave (13.d) and tutorial_deep_convection.smag3d (12.d).
57    o pkg/seaice: ITD code
58      - fix picking up from a single category model by initialising
59        heff/area/hsnowITD = 0. in seaice_itd_pickup.F
60      - split a long warning message in seaice_check_pickup.F into two lines,
61        because NEC SX-ACE cannot deal with the long line.
62    o model/src:
63      - fix missing dPhiNH in pressure_for_eos.F (case: selectP_inEOS_Zc=3)
64    o pkg/seaice:
65      - add missing checks for SEAICE_ALLOW_KRYLOV and SEAICE_ALLOW_BOTTOMDRAG
66    o pkg/seaice:
67      - add basal stress as parameterisation for grounding ice
68        following Lemieux et al. (2015)
69      - turn on by setting new parameter SEAICEbasalDragK2 to a value
70        larger than 0. Lemieux et al. (2015) recommend 15.
71      - The adjoint complains with extra recomputations so there is also a
72        new cpp-flag SEAICE_ALLOW_BOTTOMDRAG that is undefined by default in
73        order to postpone the problem
74      - compile the new code in lab_sea
75    o verification/halfpipe_streamice:
76      - update both TAF and OpenAD adm output (machine truncation differences)
77    
78    checkpoint65v (2016/04/08)
79    o verification/advect_xz:
80      - increase overlap size from 3 to 4 and add new secondary test for PQM
81        advection scheme (with mono & wino limiter).
82      - change main exp. to test PPM (with weno limiter) adv.scheme on Temp.
83    o model/src:
84      - new parameters "top_Pres" & "seaLev_Z" (replacing Ro_SeaLevel and recently
85        added phi0Ref) to set vertical axis origin and phiRef origin;
86        keep Ro_SeaLevel for backward compatibility (with a warning).
87       According to coordinate and fluid type:
88        OCN in Z: top_Pres(Ref) (=rhoConst*PhiRef(1)), seaLev_Z (=rF(1), @ the top)
89        ATM in Z: top_Pres(Ref) (=rhoConst*PhiRef(1)), seaLev_Z (=rF(Nr+1) @ bottom)
90        OCN in P: top_Pres (=rF(Nr+1)), seaLev_Z (= PhiRef(Nr+1)/g, @ the top)
91        ATM in P: top_Pres (=rF(Nr+1)), seaLev_Z (= PhiRef(1)/g, @ the bottom)
92      - remove Ro_SeaLevel from ATM experiment parameter files;
93      - in tutorial_global_oce_in_p, remove Ro_SeaLevel and set top_Pres to the
94        complement; update output.txt (changes at machine truncation level).
95    o pkg/seaice/seaice_evp.F
96      - simplify computation of deltaZ and zetaZ to simple averaging following
97        Bouillon et al. (2013). This removes a lot of code, but also changes
98        verification experiment lab_sea.hb87 -> updated
99    
100    checkpoint65u (2016/03/14)
101    o pkg/generic_advdiff:
102      - from Darren: add PPM and PQM advection schemes (number 40-42 and 50-52)
103        with 2 types of limiter (see: Engwirda & Kelley, submit. to JCP);
104        Note (from Darren): unlimited PPM/PQM scheme (40 & 50) are just for
105        testing and not for actual use.
106    o model/src:
107      - add parameter "phi0Ref" to specify reference [pressure/geo] potential at
108        origin r = rF(1);
109      - add options (parameter selectP_inEOS_Zc) to select which pressure to use
110        in EOS for height coordinate: enable to include NH Pressure or to use
111        more accurate pressure vertical profile; options not linked to EOS type
112        (as previously, e.g., JMD95P/JMD95Z) but set default according to EOS type;
113      - start to implement variable gravity (along vertical): for now, only with
114        z-coords (not even z*).
115      - add Ideal Gas equation of state for height coordinate.
116      - update OpenAD output (affected at machine truncation level) of exp:
117        global_ocean.90x40x15, OpenAD (std) and tutorial_global_oce_biogeo.
118    o pkg/exf:
119      - add ALLOW_EXF_OUTPUT_INTERP cpp switch to output the result
120        of exf interpolation (before any rescaling, rotation or interpolation
121        to velocity point) for each field that gets loaded from file. This option
122        identically mimics the input file organization (e.g. record numbers in year
123        by year input files) besides the change in horizontal grid.
124      - add rotateStressOnAgrid run-time switch so that wind stress fields
125        can be provided on the A-grid in zonal/meridional direction and
126        rotated on the fly. This only applies to the case when the exf
127        interpolation is off and rotateStressOnAgrid is false by default.
128    o model/src:
129      - rename internal parameter "useDynP_inEos_Zc" to "storePhiHyd4Phys" (since
130        it's also used with pkg/atm_phys) and add few more parameters (but still
131        inactive, src code yet to come)
132    
133    checkpoint65t (2016/02/10)
134    o pkg/atm_phys:
135      - from Ruth Geen: add optical depth dependence on CO2 concentration.
136    o model/src:
137      - fix vertical inter/extra-polation of density factor rhoFacF (for anelastic)
138        for the case setCenterDr=T (delRc set from "data"); add output of rhoFacC&F.
139        Update output of exp. deep_anelastic (changes at truncation level).
140    o tools:
141      - add a hack in "remove_comments_sed" (used only with TAF) for recent
142        version of OpenMPI (shipped with FC.23): comment out the new header
143        file "mpif-sizeof.h" which causes problems to TAF.
144    o pkg/seaice:
145      - change the termination criterion so that maxits (SEAICElinearIterMax)
146        has an effect
147      - unify iteration parameters for implicit solvers (JFNK and Picard)
148        SEAICEnonLinIterMax replaces SEAICEnewtonIterMax/NPSEUDOTIMESTEPS
149        SEAICElinearIterMax replaces SEAICEkrylovIterMax/SOLV_MAX_ITER
150        SEAICEpreLinIterMax replaces SOLV_MAX_ITER in preconditioner
151        SEAICEpreNL_IterMax replaces NPSEUDOTIMESTEPS in preconditioner
152        SEAICEnonLinTol     replaces JFNKgamma_nonlin
153      - remove S/R SEAICE_FGMRES_DRIVER and put content into S/R SEAICE_JFKN
154      - add new Picard-Krylov solver, compile with SEAICE_ALLOW_KRYLOV and
155        use with SEAICEuseKrylov
156    o pkg/seaice/seaice_lsr.F
157        fix small bug: replace zetaZ by zetaZloc in S/R seaice_lsr_rhsu/v; only
158        relevant if SEAICEuseStrImpCpl=T, and even then it does not seem to have
159        an effect.
160    o pkg/seaice: add two new parameters
161      - SEAICEuseLSR to simplify the logic in seaice_dynsolver (this
162        parameter is not in any namelist)
163      - SEAICEusrPicardAsPrecon to allow s/r seaice_lsr to be used as
164        a preconditioner for the non-linear Newton iteration of the JFNK
165        solver
166    o pkg/seaice/seaice_lsr.F: replace 1./SEAICE_deltaTdyn with recip_deltaT,
167      affects some experiments at truncation level:
168      - global_ocean.cs32x15.icedyn (11 digits),
169      - global_ocean.cs32x15.seaice (11 digits),
170      - seaice_itd (12 digits), seaice_itd.lipscomb07 (12 digits) -> update
171      - also update global_ocean.cs32x15 adjoint and tangent-linear results
172    o pkg/salt_plume & pkg/thsice:
173      - for coupled  set-up with pkg/thsice in ATM and pkg/salt_plume in OCN,
174        connect salt_plume flux to ATM-OCN coupling pkgs interface:
175       a) in ATM: also cumulate salt-plume flux in S/R THSICE_SALT_PLUME (for
176         export to coupler interface) even without compiling pkg/salt_plume ;
177       b) in OCN: apply coupler salt-plume flux to pkg/salt_plume field
178         (saltPlumeFlux) just before exch call, in S/R SALT_PLUME_DO_EXCH.
179    o pkg/dic:
180      - use the updated seaice fraction (from seaice pkgs) for DIC forcing
181        instead of the previous time-step value ; done in new S/R DIC_FIELDS_UPDATE
182        called from the top of dic_biotic_forcing.F (instead of in DIC_FIELDS_LOAD);
183      - move also update with values from ATM-OCN Coupler in the same new S/R
184        (previously done in ocn_apply_import.F).
185    o tools/adjoint_options:
186      - specify explicitly "-f77" or "-f90" in default ad-optfile since TAF (default)
187        has been changed on Jan 14, 2016.
188    o pkg/ggl90:
189      - add alternative discretisation of vertical shear (off by default), to
190        compute the mean (@ grid-cell center) of vertical shear compon instead of
191        vertical shear of mean flow (@ grid-cell center).
192      - add correct parenthesis in ALLOW_GGL90_SMOOTH code to get the same truncated
193        results on adjacent faces of cubed-sphere grids; this fix the restart.
194    o pkg/atm_compon_interf:
195      - skip time-ave over cpl_atmSendFrq of Sea-Level Pressure (atmSLPr) and just
196        pass last value, stored directly before export to CPL ;
197        Note: this affects results of Coupled set-up where OCN uses useImportSLP=T
198      - remove atmSLPr from pickup files (no longer needed for restart)
199    
200    checkpoint65s (2016/01/13)
201    o eesupp & genmake2:
202       - first check for Function ETIME and, if it fails, then check for subroutine
203         ETIME and consistent output; use the appropriate version in timers.F
204    o model/src:
205      - to check restart test, add option to apply EXCH to U,V earlier, just before
206        integr_continuity; turned off by default.
207    o pkg/dic:
208      - remove CPP option USE_ATMOSCO2 (not needed)
209    o tools/tst_2+2:
210      - try to ignore difference between +0 and -0 in binary file, causing test
211        to fail for no good reason.
212    o eesupp & genmake2:
213      - put back modif from Jinxuan Zhu - change etime fct call to S/R call -
214        but also check (in genmake2) that test runs and returns meaningful results.
215    o coupler pkgs:
216      Finish implementation of optionally-exchanged variable switches (started on
217       Nov 12) with addition of few more exchanged fields, including 2-way exchange
218       of pkg/thsice vars to allow to use seaice dynamics (from pkg/seaice) & seaice
219       advection in OCN component; this requires sequential coupling.
220      coupler (pkg/atm_ocn_coupler):
221      - add argument msgUnit and iter number to CPL_SEND/RECV_ATM/OCN_FIELDS
222        routines (useful for debug).
223      - only export/import optionally exchanged fields (RunOff, seaice, Salt-Plume
224         flux, DIC fields) if corresponding switch is ON.
225      - add option to export RunOff to OCN (to use for DIC river input)
226      - add 2-way thSIce vars exchange; check for consistent cpl_sequential setting.
227      components (pkg/atm_ & ocn_compon_interf):
228      - to save memory space in ATM & OCN comp: add some #ifdef ALLOW_${PKG} around
229        optionally exchanged fields; add a check & stop in cpl_readparms.F.
230        ATMCPL.h: ALLOW_LAND for RunOff, ALLOW_THSICE for seaice, ALLOW_AIM for CO2;
231        OCNCPL.h: ALLOW_SALT_PLUME, ALLOW_DIC for DIC, ALLOW_THSICE for 2-W thsice.
232      - rename:   fracIce     -> sIceFrac_cpl (<- match coupler var name)
233        + in ATM: fracIceTime -> sIceFracTime ; seaIceTime -> sIceMassTime.
234      - add 2-way thSIce vars exchange ; add Salt-Plume flux ; add RunOff in OCN.
235      - hold in common block coupler optionally-exchanged variable switch
236        and set default "useImportXXX" accordingly; + check & stop if inconsistent.
237      - add diagnostics for all imported fields from coupler (in both OCN & ATM);
238        this is intended to replace the OCN cplFldtave.* output files (not updated
239        to contain new additional exchanged fields).
240    o pkg/dic:
241      - fix an other bug (also from 2014/08/30) in dic_atmos.F, in dic_int1=3 code.
242    o pkg/thsice:
243      - when coupled to ATM (useCoupler) with thSIce_skipThermo=T, skip reading
244        and writing of thsice pickup files.
245    o pkg/atm_compon_interf:
246      - move all field individual export-call out of cpl_export_import_data.F
247        into new S/R ATM_EXPORT_FIELDS
248    o pkg/atm_compon_interf:
249      - store state variables (for now, only thSIce fields) just before beeing
250        exported (in cpl_export_import_data.F, like on ocean side) instead of from
251        atm_store_my_data.F like all exported fluxes.
252      - new version of pickup_cpl: write field names into meta file and read meta
253        file to find field postion in pickup. Also only write/read fields meeded for
254        restart (same logic as main pickup file ; also using pickupStrictlyMatch)
255    o pkg/dic:
256      - fix bug (added on 2014/08/30) in dic_atmos.F for the case dic_int1= 2 or 3.
257    o pkg/seaice: add new parameter SEAICEpressReplFac to choose between
258        pressure replacement method (=1., default) or original Hibler (1979) (=0.)
259        value can be from domain [0,1] to average between the two methods
260    o pkg/atm_phys:
261      - allow to provide 2-d map of albedo and mixed-layer depth from files (but
262        hold fixed in time).
263    
264    checkpoint65r (2015/12/21)
265    o pkg/seaice:
266        fix bug in tridiagonal solvers for SEAICE_OLx/y>0, this affects the JFNK
267        solver (offline.dyn_jfnk) and global_ocean.cs32x15.seaice -> updated
268    o pkg/seaice:
269      - fix a bug in computing areaS in (J-J -> J-1) that affects runs
270        when SEAICEscaleSurfStress=.TRUE.,
271      - apply areaW and areaS in S/R seaice_calc_lhs
272    o pkg/atm_phys:
273      - add diagnostics for 3-D, Nr+1 levels diagnostics of radiative fluxes
274        (shortwave & longwave, net & downward) and diagnostics of temp. tendency
275        for individual contribution (convection, LSC cond, radiation)
276      - add Ruth Geen etal, GRL 2016, radiation options (see paper supp.
277        information); activated with: solar_exponent=0. and wv_exponent=-1.
278    o pkg/ggl90:
279      - within IDEMIX add upper limit for horizontal group velocity to
280        avoid instability problems in the explicit horizontal diffusion term for
281        long time steps or high resolution
282    o pkg/diagnostics:
283      - simplify setting of local-array size in diagstats_output.F: uses "numLevels"
284        (from DIAGNOSTICS_SIZE.h) to allow to write out more than Nr levels.
285    o testreport:
286      - remove "-v" (verbose option) in default mpirun command.
287    o pkg/seaice/seaice_growth:
288      - catch potential division by zero in ITD code, does not change
289        verification results
290    o pkg/ecco:
291      - retire old codes to the Attic. The calls to retired functions are
292        left in a commented form in case they ever need to be re-activated.
293      - ecco_check.F: issue warning if any old CPP option is
294        defined that corresponds to retired codes -- then stop.
295    o pkg/atm_compon_interf:
296      - change seaice fraction (use for OCN dic surf.flux) stored and sent to
297        coupler: use last time-step value instead of average over cplSendFrq_iter
298        time-step, similar to what is done for seaIceMass.
299        This will affect results (pkg/dic) of coupled ATM-OCN+dic set-up.
300    o eesupp & genmake2:
301      - from Jinxuan Zhu: change etime fct call to S/R call (fix gfortran ETIME);
302        <= remove until a fix is found for some ifort version on ia32 machine.
303    o pkg/seaice/seaice_evp:
304      - refine residual computation
305    
306    checkpoint65q (2015/11/18)
307    o pkg/seaice/seaice_evp:
308      - fix residual computations so that they no longer affect the actual
309        simulation code
310      - fix seaice_readparams to be able to actually set new parameters
311        SEAICEaEVPcStar and SEAICEaEVPalphaMin, also fix logic a little
312    o model/src:
313      - fix wrong truncation (single prec) from "FLOAT" function in expressions
314        like: deltaT*FLOAT(myIter) when myIter is large:
315         a) replaced by DFLOAT (if not seen by TAF);
316         b) remove "FLOAT" and use implicit type conversion (if seen by TAF).
317    o pkg/aim_v23:
318      - write/read the expected CO2 pickups (from S/R AIM_DO_CO2): fix reading
319        when pickupSuff is set ; do write rolling pickups + at the end of the run.
320    o pkg/atm_ocn_coupler + ocn_compon_interf:
321      - in prep for using pkg/seaice Dyn in coupled set-up, implement sequential
322        coupling option-1: ATM -(cpl)-> OCN and then OCN -(cpl)-> ATM ;
323        add corresponding call in DO_OCEANIC_PHYS.
324    o coupler pkgs:
325      Start a new way to set-up optionally-exchanged variables (previously, only
326       there for exchange_DIC): switch on/off from 1 place, at run-time, in coupler
327       data.cpl (new) instead of at compile time in ATMIDS.h & OCNIDS.h ;
328       send switch to ATM & OCN compon before reading their own "data.cpl" (so that
329       compononent param default can be set accordingly).
330      Note: this new switch (cpl_exchange_[xxx]) is not a per variable switch
331       but rather applies to a group a fields (going both ways like for DIC)
332       and corresponds to an option of coupling config.
333      coupler (pkg/atm_ocn_coupler):
334      - change parameter file from "data" to "data.cpl" (in cpl_read_params.F),
335        and read namelist directly (without eessup S/R calls) instead of
336        in the very un-flexible old way, 1 param per line, in fixed order;
337      - add error-counter to track errors (e.g., missing "data.cpl") and to stop
338        cleanly in CPL_CHECK_CPLCONFIG
339      - add new coupling-exchange selectors (some not yet active) including
340        cpl_exchange_DIC (to set to 3 to replace atmCpl_exchange_DIC=T in ATMIDS.h
341                                             and ocnCpl_exchange_DIC=T in OCNIDS.h);
342      - add 2 new S/R (CPL_SEND_ATM/OCN_CPLPARMS) to send coupler-params to each
343        component ; called directly from coupler.F, after comp. registrations;
344      - rename few variable-ID names (in ATMIDS.h & OCNIDS.h):
345         atm/ocnSeaIceName --> atm/ocnSIceMassName ; atm/ocnFCO2Name ->
346          -> atm/ocnCO2FluxName ; atm/ocnWSpdName --> atm/ocnWindSpdName
347      components (pkg/atm_ & ocn_compon_interf):
348      - add ATM/OCN_CPL_OPTIONS.h in component pkgs and include the corresponding
349        CPP header file in all pkg source files.
350      - move checking of comp. configs out of cpl_exch_configs.F into new S/R
351        ATM/OCN_CHECK_CPLCONFIG;
352      - add error-counter to track errors (e.g., in "data.cpl") and to stop
353        cleanly in ATM/OCN_CHECK_CPLCONFIG;
354      - add new S/R CPL_IMPORT_CPLPARMS to import coupling-exchange selectors
355        from coupler ; called from initialise_fixed.F, after PACKAGES_BOOT and
356        before PACKAGES_READPARMS;
357      verification/cpl_aim+ocn/:
358      - update ATMIDS.h & OCNIDS.h (in shared_code) and use new parameter file
359        "data.cpl" for coupler (in input_cpl).
360    o eesupp/inc:
361      - change the MPI-global-sum default (in CPP_EEOPTIONS.h) to:
362        #define GLOBAL_SUM_ORDER_TILES (only affects MPI built of global_sum_tile.F)
363        to always cumulate tile local-sum in the same order (still uses
364        MPI_Allreduce like standard code).
365      - in verification experiment code, remove local CPP_EEOPTIONS.h_mpi files
366        that are now identical to standard version (in eesupp/inc).
367    o pkg/shelfice:
368      - add SHELFICETransCoeffTFile for initializing spatially varying
369        heat and salt transfer coefficients
370    o pkg/atm_compon_interf & ocn_compon_interf:
371      - combine into 1 (new) S/R CPL_EXPORT_IMPORT_DATA the two previous
372        S/R CPL_EXPORT_MY_DATA & CPL_IMPORT_EXTERNAL_DATA
373      - move bi,bj loops inside S/R OCN_STORE_MY_DATA
374    o pkg/atm_ocn_coupler:
375      - initialise to zero ATMVARS.h & OCNVARS.h arrays.
376    o pkg/rbcs:
377      - select RBCS-mask for Temp & Salt the same way as for pTracer ; this allows
378        to compile with maskLEN=1 when all tracers use the same RBCS-mask.
379      - add a short report (to STDOUT) about RBCS-mask settings.
380    
381    checkpoint65p (2015/10/23)
382    o pkg/seaice/seaice_evp.F: fix store directives and key computations, since
383        there is no adjoint test for EVP, we don't know what it does to the adjoint
384        solution, but at least there are no more recomputation warnings left
385    o pkg/seaice/seaice_evp.F: slight modification of averaging so that EVP stands
386        a chance of giving the same results as a fully converged VP (JFNK) solver
387    o tools/adjoint_options/adjoint_diva:
388      - fix bug (typo) in Tang-Linear FLAGS setting for MPI + DIVA
389    o pkg/streamice:
390      - spotted bug in streamice_driving_stress using dyG where should have been dxG
391    o pkg/exf:
392      - remove STOP statement that prevented to use wind or (wind-)stress
393        interpolation for constant-in-time forcing fields (wind/stress period = 0).
394    o pkg/seaice:
395      - replace SEAICE_EVP_USE_ADAPTATION by run time parameters, requires
396        5 additionals 2D fields and 6 new store directives
397      - change logic in seaice_readparms.F: EVP code can now be turned on in
398        various ways, setting SEAICE_deltaTev is no longer required,
399        alternatively set SEAICE_evpAlpha/Beta, SEAICEuseEVPstar, SEAICEuseEVPrev,
400        or SEAICEaEVPcoeff
401    o pkg/shelfice/shelfice_thermodynamics.F
402      - redefining uLoc/vLoc to u/v, instead of 2u/v
403    o pkg/seaice/seaice_evp.F: introduce "adaptive EVP" by Madlen Kimmritz
404      - this is an intermediate state of a truely converging EVP that has
405        the potential of outperforming implicit VP methods, I do not recommend
406        using it yet.
407      - for now, "adaptive EVP" is turned on by setting SEAICE_EVP_USE_ADAPTATION
408        and all parameters are hardwired
409      - for convergence it still requires very smooth regularisations, that means,
410        if SEAICE_DELTA_SMOOTHREG is defined, deltaCreg=deltaC+deltaMin, which is
411        different from the VP case with deltaCreg=sqrt(deltaC**2+deltaMin**2); also
412        specific averaging appears to be required, still subject to tuning
413      - still needs cleaning and I need to turn parameter into runtime parameters
414      - add code to compute and print residuals of iteration, compile with
415        defining ALLOW_SEAICE_EVP_RESIDUAL to enable it
416    o pkg/seaice/seaice_evp.F: fix a bug (factor of four in front of e12Csq)
417      that entered with r1.54 on Sep04, 2015, -> update results
418    
419    checkpoint65o (2015/09/14)
420    o pkg/mom_vecinv & mom_common:
421      - add deep-atmosphere geometry factor in mom_calc_visc.F + in routines
422        called from there.
423      - add anelastic and deep-atmosphere geometry factor in pkg/mom_vecinv ; this
424        allows to use Vector-Invariant form in deep atmos and anelastic formulation
425    o pkg/seaice: introduce fast ice parameterisation following Itkin et al. (2015)
426      and Koenig-Beatty+Holland (2012)
427      - two new parameters SEAICE_tensilFac and SEAICE_tensilDepth
428      - global 2D field tensileStrength, computed in seaice_calc_ice_strength
429      - requires an extra input argument for S/R seaice_calc_viscosities
430      - tensileStrength's depth dependence is different from Itkin et al. (2015)
431        (to be changed and played with, for now exponential)
432    o pkg/seaice: introduce new parameter SEAICEscaleSurfStress (default = .FALSE.)
433      - if TRUE scale ice-ocean and ice-atmosphere stress acting on sea ice
434        by AREA according to Connelly et al. (2004), JPO.
435      - For EVP and the LSR solver, the implicit part of the drag term is
436        the only non-zero term in the denominator when there is no ice (which
437        prevented running the model with zero ice-ocean drag). If
438        SEAICEscaleSurfStress = .TRUE., this results in a division by zero
439        (or zero main diagonals BU/BV) which need to be caught. A practical
440        consequence is that for open water, the momentum equation reduce
441        to trivially 0 = 0 + 0 (for EVP). For LSR, BU/BV are reset to 1, if
442        they happen to be zero, often leading to a non-zero solution over
443        open water.
444    o pkg/seaice: revise EVP code (seaice_evp.F) in preparation for a more
445        efficient EVP method.
446      - introduce area-weighted averages for e12 (analogously to
447        seaice_calc_viscosities.F); this totally changes lab_sea.hb87 (2 digits
448        remain, but also changing the order of terms in the previous average
449        changed the results as much) -> update experiment
450      - add SEAICE_DELTA_SMOOTHREG code
451      - disentangle computation of zetaC/deltaC and zetaZ/deltaZ, also for
452        TEM-code
453      - adjust loop bounds so that only required fields are computed
454      - add new averaging code for zetaZ/deltaZ (again similar to
455        seaice_calc_viscosities.F), inactive by default for now (will change
456        results again), but will replace old code eventually
457    o eesupp/src:
458      - add an other alternative for multi-proc GLOBAL_SUM (in global_sum_tile.F)
459        to always cumulate tile local-sum in the same order
460        (option #define GLOBAL_SUM_ORDER_TILES in CPP_EEOPTIONS.h).
461        Still uses MPI_Allreduce (like standard code) but on array of tiles
462        and should be faster than GLOBAL_SUM_SEND_RECV code.
463      - switch almost all verification experiments that use GLOBAL_SUM_SEND_RECV
464        (defined in CPP_EEOPTIONS.h_mpi) to GLOBAL_SUM_ORDER_TILES instead.
465      - add CPP_EEOPTIONS.h_mpi with GLOBAL_SUM_ORDER_TILES defined in 14 more exp.:
466         aim.5l_cs, cheapAML_box, deep_anelastic, dome, fizhi-cs-32x32x40,
467         fizhi-cs-aqualev20, fizhi-gridalt-hs, global_ocean_ebm, matrix_example,
468         natl_box, solid-body.cs-32x32x1, tutorial_advection_in_gyre,
469         tutorial_baroclinic_gyre and tutorial_held_suarez_cs.
470    
471    checkpoint65n (2015/07/29)
472    o pkg/thsice:
473      - add a warning when used with pkg/aim but without updating SST
474        (stepFwd_oceMxL=F & useCoupler=F & tauRelax_MxL<>-1 ).
475    o pkg/offline:
476      - change where Offline-Fields are loaded, from load_fields_driver.F to
477        directly within FORWARD_STEP, just after updating iter number and time;
478      - move setting of GM and KPP diffusivity out of OFFLINE_FIELDS_LOAD into new
479        S/R OFFLINE_GET_DIFFUS that is called towards the end of DO_OCEANIC_PHYS;
480       These changes allow:
481        a) to recover exactly on-line results using deltaToffline=deltaTClock,
482        tested (using offlineIter0= nIter0 -1 and offlineTimeOffset= -deltaT/2)
483        both with Lin & Non-Lin Free-Surf, both with staggerTimeStep & synchronous
484        time-step, both with GM & KPP files and with recomputing these fields;
485        b) no needs to switch on staggerTimeStep anymore;
486        c) simplify rescaling of offline horiz. velocity with Non-Lin Free-Surf.
487      - update output of experiment tutorial_dic_adjoffline (only 3 digits left).
488    o pkg/offline:
489      - change (rarely used) offset-iteration parameter to an offset time (in s):
490        can easily recover previous offset-iter effect by setting offset-time
491        (offlineTimeOffset) to offset-iter x deltaToffline;
492      - do not turn-off Temp & Salinity surface relaxation when using KPP (used
493        in KPP as part of surface buoyancy forcing) in offline run.
494      - fix ptracers KPP non-local term in the case where KPP is re-computed.
495    o OpenAD
496      - Adding preliminary ggl90 test to OpenAD verification.
497        Config. with ggl90 currently diverges after 64 time steps
498        so will need more work to become more stable
499      - Adding preliminary kpp test to OpenAD verification.
500        required small tweakes in kpp_routines.F
501      - Merge and update from Krishna Narayanan's contrib area:
502        * Add one variable for preliminary OpenAD DIVA
503        * Add replacement time-stepping for OpenAD DIVA
504        * genmake2 flag -diva (but only for OpenAD; preliminary)
505        * required modifs for OAD_support
506        successful preliminary test for tutorial_global_oce_biogeo/
507    o pkg/seaice:
508      - initialise deltaC in seaice_lsr, cosmetic changes in seaice_lsr
509      - add cpp-flag SEAICE_DELTA_SMOOTHREG for option of regularising
510        delta with a smooth function in s/r seaice_calc_viscosity
511        (no effect on EVP)
512      - rename local suffix "sqr" into "sq" for more consistent variable names
513    o pkg/seaice:
514        add new parameter SEAICE_deltaMin that is used ***only***
515        for regularizing Delta (and nothing else, like the parameter
516        which is also used for all sorts of things SEAICE_EPS).
517        Defaults to SEAICE_EPS for backward compatibility only.
518    o pkg/seaice: replace erroneously storing e12Csqr on the wrong tape with
519        the wrong key by inialising it before use -> fixes a recomputation
520        problem but does not fix the gradient
521    o pkg/layers:
522      - move resetting of flux arrays to outside the iLa loop
523        (this caused layers_diapycnal to not work with more than one layer coord.)
524      - fix bug in calculation of layers_recip_delta in layers_init_fixed.F
525    o pkg/layers:
526      - remove from common block 3D layers fields (used to diagnose transport
527        in tracer coords) and declare them as local arrays in layers_calc.F
528    o pkg/seaice:
529      - Rename SEAICE_VECTORIZE_LSR_ZEBRA to SEAICE_LSR_ZEBRA and define it
530        in lab_sea forward experiment (changes results -> updated)
531      - update adjoint experiment lab_sea after cleaning up seaice_lsr_tridiagu/v
532    o pkg/seaice: modify seaice_lsr.F in order to improve the gradient
533       computations; for SEAICE_VECTORIZE_LSR
534      - move the loops over which the tridiagonal solvers (seaice_lsr_tridiagu/v)
535        sweep to the outside,
536      - remove store directives and add "CADJ loop sequential" directives
537        in analogy to model/src/solve_tridiagonal.F
538      - replace many "#ifdef SEAICE_VECTORIZE_LSR_ZEBRA" by variable loop
539        boundaries to yield more readable code. This has also the charming side
540        effect that your can use SEAICE_VECTORIZE_LSR_ZEBRA without
541        SEAICE_VECTORIZE_LSR (i.e. adjoint without recomputations in
542        seaice_lsr_tridiagu/v now requires either of these flags, vectorization
543        still requires SEAICE_VECTORIZE_LSR with SEAICE_VECTORIZE_LSR_ZEBRA as
544        an additional option)
545       The tridiagonal solvers are now completely analoguous to solve_tridiagonal.F
546       but the adjoint gradients (which are affected by this change) still explode.
547    o coupler (atm & ocn _compon_interf):
548      - avoid using Exch2 IO mapping if not suitable.
549    
550    checkpoint65m (2015/06/15)
551    o pkg/layers:
552      - clean-up old parameters setting (from Sep 2012):
553        + remove old parameters setting from common block (declared locally);
554        + stop if any old parameter is mixed with new parameters;
555        + check for valid or consistent parameter setting (e.g., layers_name)
556      - check that layers_bounds for Pot.Density are in the right range;
557        this is supposed to catch un-updated setting after recently shifting
558        potential density field "prho" by -1000 (now in "sigma" scale).
559    o pkg/layers:
560      - Added missing call to layers_fill for keeping track of tottend in
561        pkg/diagnostics/diagnostics_fill_state.F
562    o pkg/layers:
563      - added CPP flux LAYERS_FINEGRID_DIAPYCNAL to disable fine-grid binning
564        of diapycnal fluxes
565    o pkg/layers:
566      - reverted changes to interpolation to previous treatment; there
567        was never actually a problem
568    o pkg/layers:
569      - fix interpolation of layers tracers in the presence of partial cells
570      - add lots of new functionality to compute water mass transformation
571        (enabled by CPP flag LAYERS_THERMODYNAMICS)
572      - add new calls from main code (diags_oceanic_surf_flux.F,
573        thermodynamics.F, impldiff.F) and gad to save the necessary fields
574        for layers_thermodynamics calculations
575    o pkg/ptracers:
576      - add capability of stepping a passive tracer forward without advection
577        by setting PTRACERS_advScheme to 0.
578    o pkg/diagnostics:
579      - add few (threads) _BARRIER around any update of "diag_pkgStatus".
580    o pkg/layers:
581      - shift potential density field "prho" by -1000 for density layer averaging so
582        that it corresponds to usual "sigma" definition (i.e., rho(p=const)-1000);
583        Note that density bin boundaries (layers_bounds in data.layers) have
584        to be set accordingly (i.e., shifted, in sigma scale).
585    o pkg/layers:
586      - fix snap-shot output of layer thickness @ V.pt and output of pot.density
587      - fix calculation of layer non-weighted velocity and layer probability
588      - add diagnostics for pot.density used for layer averaging
589    o pkg/seaice:
590      - seaice_calc_viscosity.F: change computation of deltaC**2 to ensure
591        positiveness, modify a few comments and improve variable names,
592      - the changed computation of deltaC affects most seaice-related
593        experiments at the truncation level.
594        seaice_itd.thermo is affected by far the most, with
595        only 7 digits of agreement remaining; update experiments.
596    
597    checkpoint65l (2015/05/04)
598    o pkg/shelfice:
599      - in shelfice_thermodynamics.F, if SHELFICEBoundaryLayer=.true., then set
600        factor drKp1 to zero where it is negative (ie. do not use
601        SHELFICEBoundaryLayer if hFacC>1)
602      - the same for factor drLoc in shelfice_forcing.F
603    o tools/genmake2: move FEXTRAFLAGS from FFLAGS to FOPTIM to avoid a problem
604        with modules in ptracers, when using testreport option "-small_f"
605    o pkg/seaice/seaice_growth.F (in case of SEAICE_ITD)
606      - replace tmpscal1**1.36 by faster exp(1.36*log(tmpscal1))
607  o verification/testreport  o verification/testreport
608    - add new option -small_f    - add new option -small_f
609      with this option testreport first makes the target small_f (*.f files)      with this option testreport first makes the target small_f (*.f files)
610      before running make (all). This is useful for explicit inlining when      before running make (all). This is useful for explicit inlining when
611      all sources need to be full available.      all sources need to be full available.
612    o pkg/exf/exf_interp.F:
613        remove previous changes related to reverse (decreasing) input grids latitude
614    
615  checkpoint65k (2015/04/01)  checkpoint65k (2015/04/01)
616  o pkg/ecco:  o pkg/ecco:
# Line 194  o model/src & mom pkgs: Line 796  o model/src & mom pkgs:
796      just copy level Nr value to level Nr+1.      just copy level Nr value to level Nr+1.
797  o doc:  o doc:
798    - add notes form Abhisek Chakraborty on how to close Heat & Salt budgets.    - add notes form Abhisek Chakraborty on how to close Heat & Salt budgets.
799  o pkg/streamice:  o pkg/shelfice:
800    - shelfice_init_varia.F, shelfice_init_fixed.F, shelfice_readparms.F,    - shelfice_init_varia.F, shelfice_init_fixed.F, shelfice_readparms.F,
801      SHELFICE.h: move array shelficemass to init_varia, initialise      SHELFICE.h: move array shelficemass to init_varia, initialise
802      from array shelficemassinit, which is set in init_fixed and      from array shelficemassinit, which is set in init_fixed and
Legend:
Removed from v.1.2144  
changed lines
  Added in v.1.2263
  ViewVC Help
Powered by ViewVC 1.1.22