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revision 1.1367 by mlosch, Wed Jan 19 13:52:14 2011 UTC revision 1.1518 by mlosch, Mon Oct 24 16:12:39 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 + seaice-dynamics:
8      - new implementation calls OBCS_APPLY_UVICE (in seaice_dynsolver.F) before
9        solving for uIce,vIce and prevent SEAICE_LSR or SEAICE_EVP to modify OB
10        values (consistent with an implicit method).
11      - add option OBCS_UVICE_OLD (in OBCS_OPTIONS.h, defined by default) to
12        return to older implementation (same results as before); note that none of
13        the "experimental" OBCS_SEAICE options are implemented in the new version.
14      - switch test exp. seaice_obcs to use new version (update output).
15    o pkg/seaice:
16      - add few stop (B-grid & CS-exch, B-grid & obcs, AUTODIFF & SEAICE_maskRHS)
17      - add parenthesis in Water-Ice drag calculations (evp & lsr);
18      - in seaice_lsr.F, simplify and fix AA3 setting in case sNx or sNy=1;
19        and fix case SEAICE_waterDrag=0 (but unstable if no or little seaice)
20      - update output of test exp lab_sea that uses evp or lsr (fwd+ad)
21        and global_ocean.cs32x15 (icedyn & seaice fwd+ad).
22    o pkg/layers:
23      - Include potential density as new coordinate (Thanks to David Munday)
24    o pkg/dic:
25      - Remove subroutine CALC_PCO2_APPROX_CO3 from carbon_chem.F and add
26        carbonate computation/output to CALC_PCO2_APPROX
27    o pkg/generic_advdiff
28      - make TAF generate code that vectorizes:
29        gad_dst3fl_adv_*.F, gad_u3c4_impl_r.F
30    o model/src:
31      - improve vectorization also for adjoint code of
32        solve_tridiagonal and solve_pentadiagonal. As this requires up to
33        5 new 3D-fields, this code is only turned on for the combination of
34        ALLOW_AUTODIFF_TAMC and TARGET_NEC_SX. Also remove error message
35        for singular matrix check (only for TARGET_NEC_SX).
36      - remove hard-wiring of CPP-flag ALLOW_SOLVERS_KLOOPINSIDE to
37        ALLOW_AUTODIFF. This flag now needs to be set outside of
38        solve_tri/pentadiagonal.F
39    o pkg/exf:
40      - fix previous modif in exf_readparms.F (revision 1.66: treatment of
41        optional namelist EXF_NML_OBCS).
42      - add many debug-print (to trace down where pkg/cal error msg comes from)
43    o pkg/mom_vecinv/mom_vi_hdissip.F
44      - rearrange loops so that vectorization is improved and in particular
45        the adjoint routine vectorizes. The code is a little longer now, but I
46        think easier to read.
47        Note: CPP-flag MOM_VI_ORIGINAL_VISCA4 is not tested.
48    o pkg/seaice:
49      - allow to specify initial seaice velocity from files (uIceFile,vIceFile)
50    o pkg/exch2:
51      - alternative code (without tile x tile matrix) for cumulated (global) sum;
52        used as default; keep using matrix version in adjustment.cs-32x32x1.
53    o tools/build_options:
54      - after merging some MPI and/or multi-threads specific optfiles so that
55        the modified default optfile support both built (using genmake2 -mpi
56        for the MPI built, using genmake2 -omp for OpenMP built),
57        move now obsolete optfiles to tools/build_options/unsupported/
58       (add copy of email sent to support list in doc/optfiles_changes.txt)
59    
60    checkpoint63c (2011/09/28)
61    o pkg/ebm:
62      - fix ebm_zonalmean.F for several procs in Ydir (nPy > 1); update output of
63        test exp. global_ocean_ebm (affects machine truncation, 12 digits for cg2d)
64    o pkg/seaice (SItracer pickup)
65    * Simple code for pickup of SItracer fields (#define ALLOW_SITRACER)
66      To be done:
67      - thorough testing of missing fields in S/R seaice_read_pickup
68      - thorough matching between generic tracers and specific fields used
69        (e.g. volume-weighted age, area-weighted age, salinity, ...)
70    o pkg/grdchk:
71      - all procs calculate and print finite-difference gradient (for testreport)
72      - change description output used by testreport;
73      - AD testing: also compare and report Finite-difference gradient;
74        => update all output_adm*.txt
75    o test exp. global_ocean_ebm:
76      - switch back useRealFreshWaterFlux (no problem anymore with run-off);
77        and turn on exactConserve; update (fwd) output.
78    o pkg/seaice (LSR):
79      - print to STDOUT number of solver iterations at SEAICE_monFreq interval.
80      - modify solver to deal cleanly with u/v switch at face edges (CS-grid):
81        * identical results with non-CS topology (but save up to half of EXCH calls)
82        * no much changes in cs-32 verification tests since no ice at face edges
83         (differences due to convergence criteria, since nb of iterations changed)
84        * expect some differences on lat-lon-cap grid.
85        update FWD results of global_ocean.cs32x15 test exp. (icedyn & seaice)
86    o pkg/exch2:
87      - add new CPP option to disable Cumul-Sum matrix (to save storage when using
88        many tiles); until alternative coding is added, just add a stop.
89    o pkg/kpp:
90      - move ptracer/salt correction to KPP diffusivity from calc_3d_diffusivity.F
91        to S/R KPP_CALC_DIFF_PTR (+ add tracer-index to argument list).
92    o optfiles:
93      - merged few MPI specific (*+mpi*) and multi-threads specific (*+mth) optfiles
94        into corresponding standard one, which now support different build:
95        (when using "genmake2 -mpi" for MPI built, "genmake2 -omp" for OpenMP built)
96      - add "darwin_amd64_gfortran" optfile (initially from Constantinos, tested by Gael)
97    o pkg/obcs (seaice):
98      - add missing EXCH for uIce,vIce after applying OBCS;
99      - remove S/R EXF_SWAPFFIELDS_X/Y , disable S/R EXF_SET_OBCS_X/Y by adding
100        argument = number of levels to S/R EXF_SWAPFFIELDS_XZ/YZ and S/R
101        EXF_SET_OBCS_XZ/YZ ; update obcs_exf_load.F;
102      - fix EXF_SET_OBCS_XZ/YZ for multi-threaded (assuming loaded arrays are shared)
103      - verification exp. seaice_obcs: split domain in 2 tiles ; add SIZE.h_mpi
104        and eedata.mth for MPI and mutlti-threaded testing.
105    o pkg/flt:
106      - make FLT EXCH working with multi-threads (and MPI + multi-threads);
107      - use buffer for floats IO (trajectories & profiles); size set in FLT_SIZE.h;
108      - fix pickup and trajectories + profiles output with multi-threads;
109      - add parameter to select group of fields to write along trajectory and
110        profile (default unchanged);
111      - only call PORT_RAND* function when flt_noise <> 0;
112      - add multi-threaded test for verification exp. flt_example.
113    o eesupp/src:
114      - fix S/R ALL_PROC_DIE for MPI+multi-threads.
115      - USE_OMP_THREADING: check that number of threads (from eedata) matches
116        actual number (from env.var. setting).
117    o pkg/ebm:
118      - fix multi-threading in ebm_area_t.F ; clean-up EBM.h header file.
119      - add multi-threaded test for verification exp. global_ocean_ebm
120    
121    checkpoint63b (2011/08/29)
122    o pkg/ebm:
123      - fix sign of runoff;
124      - update directly forcing fields (Qnet,EmPmR) to use standard
125        external_forcing_surf.F (remove ebm_forcing_surf.F);
126      - avoid loading forcing fields a 2nd time (1rst time from ini_forcing.F);
127      - set either tauThetaClimRelax (in data) or tauThetaZonRelax (in data.ebm)
128        and apply relaxation towards corresponding SST field (2-D map or ZonAver).
129      - update global_ocean_ebm parameters file data and update output (fwd+ad).
130    o verification/matrix_example:
131      - split domain in 8 tiles (2x4); add SIZE.h_mpi and eedata.mth for
132        MPI and mutlti-threaded testing.
133    o pkg/matrix:
134      - change name of S/R MATRIX_INIT to S/R MATRIX_INIT_VARIA ;
135      - fix for multi-tiles (add bi,bj indices to exp/impMatrixCounter);
136      - fix for multi-threaded (remove DATA statement);
137      - use standard DIFFERENT_MULTIPLE function;
138      - add MATRIX_OPTIONS.h
139    o verification/matrix_example:
140       To allow to split the domain in several tiles, change the domain size
141        from 31x31 to 32x32 by adding 1 row (on Southern side) + 1 column (on
142        Western side) of land points.
143    o (*_)write_pickup:
144      - fix few bugs in mypackage_read/write_pickup.F
145      - in MDS_WR_METAFILES calls, replace "myTime" by a local copy into
146        array of length 1 (was caught by compiler syntax-check).
147    o pkg/diagnostics (velocity potential solver):
148      - fix initialisation of main diagonal matrix (for overlap values)
149    o tools/build_options:
150      - towards single optfile for MPI and non-MPI built: merge few +mpi optfile
151        into previously non MPI one (linux_am64 pgf77,open64,pathf90,ifort11)
152      - linux_amd64_gfortran: merge +mpi_generic version into standard optfile:
153        * move IEEE flags to DEVEL section; take IEEE flags from +mpi_generic ;
154        * FAST case: for now, keep -O3 with ini_masks_etc.F in NOOPTFILES list;
155        and use "-devel" testreport option for standard testing on baudelaire.
156    o pkg/grdchk:
157      - Assume that all gradient-check position are within the same tile
158        corresponding to global indices (iGloTile,jGloTile) and that
159        positions (i,j indices or nbeg) are local to this tile;
160      - set tile local-indices and proc. number according to tile global-indices;
161      - remove grdchkwhichproc from namelist (retired param);
162      - send adjoint gradient to all procs so that all procs print it to STDOUT;
163      - switch on MPI test for global_ocean.90x40x15 AD test experiment.
164    o adding package bbl (Bottom Boundary Layer)
165      description in MITgcm/pkg/bbl/bbl_description.tex
166      example/test experiment in MITgcm_contrib/bbl
167    o adjoint verifications
168      - changed 5 experiments to multi-tiles
169        * global_ocean.90x40x15
170        * obcs_ctrl
171        * offline_exf_seaice
172        * tutorial_dic_adjoffline
173        * tutorial_tracer_adjsens
174        changed reference output for those that crossed tile boundaries
175        (changed choices of gradient check positions)
176      - with same tiling, switch on MPI test for the last 4 (add SIZE.h_mpi)
177      - temporary bug fix in grdchk_loc.F for obcs
178    o genmake2 & testreport
179      - add target "obj" (just for OBJFILES files) to Makefile;
180      - add option to specify FEXTRAFLAGS on command line.
181    o pkg/mypackage:
182      - remove bi,bj arguments from argument list of S/R MYPACKAGE_CALC_RHS
183    
184    checkpoint63a (2011/08/02)
185    o pkg/diagnostics (velocity potential):
186      - fix velocity-potential calculation when using OBCS: balance net inflow
187        at each level (new S/R OBCS_DIAG_BALANCE).
188      - fix some of the problems with OBCS in stream-function calculation.
189    o pkg/exf/exf_readparms.F
190      - make treatment of optional namelists (EXF_NML_04, EXF_NML_SGRUNOFF,
191        EXF_NML_OBCS) more consistent, so that you need not have these lists
192        in data.exf when they are not used.
193    o optim/optim_readdata.F:
194      - add some output about obcs variables that might help debugging
195      - add a check about nvarlength
196    o pkg/ctrl: once again, fix computation of endrec in s/r ctrl_init_rec
197    o pkg/diagnostics (velocity potential):
198      - fix mask for OBCS (still problems in stream-function with OBCS);
199      - add specific parameter (default = main code CG2D params) for solver;
200      - in case of poor convergence, use solution corresponding to lowest residual.
201    o pkg/seaice/seaice_growth.F: small changes that permit vectorizable
202      adjoint code. In general statements like tmpscal=fld(i,j) are problematic
203      and should be avoided where possible.
204    o model/src (rStar):
205      - include r* effect on reference-state (PhiRef) in totPhiHyd
206        (so that it's really the potential anomaly at the cell center);
207        affect solution only if z* with full pressure in EOS.
208      - test-exp global_ocean.90x40x15: reduce viscA4 (was not stable) and
209        update output (because of z* in totPhiHyd and viscA4 changes);
210      - keep the previous diagnostics as "PHIHYDcR" (closer to potential anomaly
211        @ constant r) until interpolation at constant r is implemented.
212    o pkg/diagnostics
213      - fix RCENTER diagnostics in case cell center is not at interface middle
214    o add code for TEOS-10 (www.teos-10.org, McDougall et al. 2011). Use
215      this eos with eosType = 'TEOS10', in data (PARM01). This eos implies
216      that THETA and SALT are "conservative temperature" and "absolute
217      salinity"
218    o pkg/ctrl
219      - fix computation of endrec in s/r ctrl_init_rec
220      - ctrl_pack/unpack_*: remove unused variables and some obsolete code
221    o pkg/seaice/seaice_growth.F
222      - fix recomputation with FENTY_AREA_EXPANSION_CONTRACTION code,
223        remove then obsolete STORE directives
224      - fix STORE directives for tice and tices, so that only the
225        appropriate part of the fields are stored (and not the entire
226        field); update global_ocean.cs32x15.seaice AD output.
227      - cosmetic changes: adjust CPP flags and indentation for better
228        legibilty
229    o pkg/autodiff: add mnc-output of adBottomDragFld (code contributed by
230      Chris Wilson)
231    o pkg/gmredi:
232       Add Sub-Meso Eddies parameterisation from Baylor (for now, disabled with TAF),
233       and test it in verification exp. "front_relax.bvp" (update output.bvp.txt)
234    
235    checkpoint63  (2011/07/11)
236    o pkg/exch2:
237     - rename+move: nTiles in W2_EXCH2_PARAMS.h --> exch2_nTiles in W2_EXCH2_TOPOLOGY.h
238     - exch2 version of Cumul-Sum routine: S/R W2_SET_MAP_CUMSUM set up the
239       (2*nTiles)x(nTiles) Cumul-Sum matrix and Master Proc collects all tiles X,Y
240       increments, calculates Cumul-Sum @ tile origin and sends results to each tile.
241    o pkg/diagnostics:
242     - deal with pairs of post-processed diags which are computed together; in
243       particular, re-order list of diags within 1 file to save 2nd computation.
244     - add S/R to compute velocity stream-function (called after velocity-potential
245       calculation) from divergence free transport -> new diagnostics "PsiVEL".
246     - add parameter to select grid-point location where PsiVEL == 0.
247    o eesupp/src:
248       new S/R to calculate cumulated sum on tiled array, corner grid-cell location
249       (specific S/R needed with exch2 topology - for now, just print an error msg)
250    o pkg/shelfice
251     - Implement friction velocity-dependent transfer coefficients following
252       Holland and Jenkins, JPO, 1999
253       Original code by M. Losch with small modifs.
254       Enable with CPP option SHI_ALLOW_GAMMAFRICT
255       and runtime flag SHELFICEuseGammaFrict
256    o verification lab_sea & global_ocean.cs32x15:
257     - use tools/xmakedepend (instead of cyrus_makedepend, in genmake_local):
258       does not miss some dependencies (but is slower) and also works with many files
259       (default makedepend limitation for AD built).
260     - use cyrus_makedepend in adjustment.128x64x1 (so that it still tested).
261    o pkg/diagnostics:
262     - add run-time parameter "useMissingValue" (def=False) to fill land-point
263        (i.e., where mask=0) with MissingValue ; used only in MNC output file.
264       This replaces CPP-option DIAGNOSTICS_MISSING_VALUE.
265     - Extend the use of "missing_value" setting from data.diagnostics for the case
266       of counter-diagnostics (where fraction-weight is zero). This applies both to
267       MNC and MDS output files.
268    o pkg/seaice/seaice_growth.F:
269      - add 'a priori' cap of latent heat flux based on actual mass considerations
270        when SEAICE_ADD_SUBLIMATION_TO_FWBUDGET is used in conjunction with the
271        non-legacy seaice_solve4temp.
272      - add diagnostic of the residual sublimation freshwater flux (the freshwater
273        flux taken from the ocean if the total actual latent heat fluxes exceed
274        the maximum)
275      - remove the CPP switch around the *_FWbySublim unit change and move diagnostic
276       fill for SIatmQnt, SIfwSubl, SIatmFW to the end of seaice_growth.F.
277      - add diagnostic of the actual sublimation freshwater flux (that is 0. ifndef
278       SEAICE_ADD_SUBLIMATION_TO_FWBUDGET) and of the latent heat flux (evap+sublim).
279      - bug fix : frWtrAtm needs a_FWbySublim ifdef SEAICE_ADD_SUBLIMATION_TO_FWBUDGET.
280      - bug fix : missing part to Martin's r_FWbySublim pathological case fix.
281    o verification 1D_ocean_ice_column:
282       made model domain truly 1x1x23 instead of 5x5x23 with only center cell (3,3,:) wet
283       update results
284    o pkg/diagnostics:
285     - Implement setting of "Post-Processed" diagnostics (corresponding to gdiag(5)='P')
286       which are not filled-up but computed from other diags ; In this case, the mate
287       diag points to the primary (filled-up) diag to used for post processing.
288     - Update Velocity-potential computation using post-processed diag framework.
289     ==> Change the ordering of fields and time-periods in MDS output file
290       when using periodic averaging: now writes one time record with the full set
291       of fields for this time period, then the next time reccord (it used to be
292       one field with the full set of time records then the next field).
293         Note: this is now similar to NetCDF (MNC) output file. <==
294    
295    checkpoint62z (2011/06/21)
296    o adjoint monitor:
297     - Add adjoint monitor output for packages exf, seaice
298       and update relevant testreport output
299    o pkg/seaice:
300     - re-order diags inits so that they appear in order in available_diagnostics.log
301     - added diags: hsnow thermo. rates of change, area preceeding ridiging process,
302       area/heff/hsnow preceeding thermodynamic growth/melt.
303     - modified diag: SIdA; output actual effect, as the description states.
304     - modified description: SIqneti, SIqneto, SIuheff, SIvheff, SIdAb*, HSNOW.
305     - retired redundant diags: SIyneg, SIfice, SIsnwice, SIthdgrh.
306       (SIyneg->SIdHbOCN; SIfice->SIdHbATC; SIsnwice->SIdHbFLO;
307        and SIthdgrh->SIdHbOCN+SIdHbATC+SIdHbATO)
308     - modified diags (2) : switch all SIdA*, SIdH*, SIdS* from delta to rates.
309     - added diagnostics for seaice generic tracers (SItr*).
310     - added SItrUnit and SItrNameLong run time param (for SItr* diags).
311     - in diag names, replaced 'PrTh' abbrev. of 'preceeding thermo' with 'PT'.
312     I. Fenty: 18-Jun-2011:
313     Minor changes to seaice package:
314     1) Retired old variables (A22, SEAICE_lhsublim, areaMax, areaMin, hiceMin) and
315        added some new ones (SEAICE_area_reg, SEAICE_hice_reg, SEAICE_area_floor)
316       - Differentiated "regularization variables" from "floor variables"
317        * areaMin became SEAICE_area_reg (old A22) and SEAICE_area_floor
318        * hiceMin became SEAICE_hice_reg (old hiceMin)
319          (with _reg meaning regularization variable)
320       - SEAICE_lhSublim becomes lhSublim, the sum of SEAICE_lhEvap and SEAICE_lhFusion
321        so as to ensure energy conservation when going between phases
322      - A22 was not used anywhere
323     2) Changed regularization procedure for heffActual and hsnowActual to ensure
324        well-boundedness and smooth adjoint in seaice_growth.F
325     3) Fixed a bug where seaice_solve4temp would not recognize ice-free grid cells
326        because the old regularization always set heffActual >= 0.05 cm
327     4) Changed the model so that the default behavior is to put a small (10^-5) "floor"
328        on AREA when HEFF > 0.
329      - went from requiring ALLOW_PRECLUDE_INFINITESIMAL_AREA to be defined to
330        requiring that DISABLE_AREA_FLOOR *not* be defined
331     Affected verifications:
332      - 1D_ocean_ice_column (output.txt output_adm.txt)
333      - global_ocean.cs32x15 (output.seaice.txt output_adm.seaice.txt)
334    o pkg/diagnostics:
335      - move MNC code from diagnostics_out.F into new diagnostics_mnc_out.F (2 S/R).
336      - rename S/R GETDIAG to DIAGNOSTICS_GET_DIAG and change type of 1rst argument
337        (was _RL, now integer) with option = 0 to retrieve all levels.
338      - add pieces of code to compute velocity potential at each level (new diagnostics
339        PhiVEL, works only when UVELMASS & VVELMASS are also turned on);
340        for now, using same params as CG2D (target-resisual, max Nb of iter ...).
341      - fix few issues with counter diagnostics in diagnostics_setdiag.F &
342        diagstats_setdiag.F (if diagnostic counter is itself a counter diag)
343        and in diagnostics_fract_fill.F (do not need a valid pointer for the
344        diagnostics counter-mate); check that definition of counter-diagnostic
345        includes a valid counter-mate (in diagnostics_set_levels.F).
346    o model/src (rStar):
347      - add rStar scaling factor in diags_phi_hyd.F (similar to calc_grad_phi_hyd.F);
348        affect solution only if z* with full pressure in EOS;
349        update output of test-exp global_ocean.90x40x15.
350    o pkg/seaice:
351      - introduce siEps=1e-5 parameter
352      - use areaMax in AREA update (part 4), consistent with ridging step (part 2.5).
353      - re-organize SEAICE_ADD_SUBLIMATION_TO_FWBUDGET code.
354      - introduce ALLOW_SITRACER and seaice_tracer_phys.F to handle generic seaice tracer.
355        For now it covers, and was tested for, ice salinity and age (attached to HEFF),
356        as well as ice cover age and ridging index (attached to AREA).
357        For now the run time parameters (in data.seaice/SEAICE_PARM03) are
358        SItrName (e.g. 'age') and SItrMate ('HEFF', which is the default, or 'AREA').
359        Up to SItrMaxNum=3 tracers can be used simultaneously.
360    o pkg/salt_plume:
361      -introduce SPsalFRAC run time parameter that sets the fraction of the
362       salt by-product of ice growth (SPsalFRAC*(1-SIsalFRAC)*salt typically)
363       that gets vertically redistributed (fluxed down) by pkg/salt_plume.
364    o model debug options:
365      - Switch reading of debugMode from S/R INI_PARMS (parameter file "data", stored
366        in PARAMS.h) to S/R EESET_PARMS (parameter file "eedata", stored in EEPARAMS.h).
367      - Refine debug-msg printing selection (3 new levels):
368        debugMode  : controls printing of debug messages (sequence of S/R calls).
369        debugLevel : controls printing of algorithm-relevant auxiliary/debug messages
370         debLevZero =  0 ; /* level of disabled aux. msg printing */
371         debLevA =  1 ; /* level of minimum  aux. msg printing */
372         debLevB =  2 ; /* level of low aux. print (report read-file opening)*/
373         debLevC =  3 ; /* level of moderate debug prt (most pkgs debug msg) */
374         debLevD =  4 ; /* level of enhanced debug prt (add DEBUG_STATS prt) */
375         debLevE =  5 ; /* level of extensive debug printing */
376        New debugLevel default: with default debugMode value (=F),
377          = 2 (debLevB) or = 1 (debLevA) in case ALLOW_AUTODIFF is defined.;
378          and if debugMode=T, default debugLevel = 4 (debLevD).
379        Relation with previous settings:
380         debLevB (=2) corresponds to former debLevA (=1)
381         debLevD (=4) corresponds to former debLevB (=2)
382        Note:
383         a) if debugLevel=0, skip WRITE_GRID call when nIter0 > 0 (same as before);
384         b) default debugLevel=1 is convenient in AD runs (avoid many file opening msgs);
385            to recover previous default, set debugLevel=2 (e.g. AD-test hs94.1x64x5)
386      - Add new parameter (printResidualFreq, read from PARM02 namelist) to print
387        detailed CG solvers convergence; off (=0) by default, except if debugLevel=5.
388    o pkg/obcs:
389      - change OBCSfixTopo default from True to False (should not change the results);
390        keep OBCSfixTopo=T in verification-exp. seaice_obcs.
391    o pkg/thsice:
392      - fix bug in thsice_calc_thickn.F (was introduced in version 1.18) in
393        2nd layer seaice sublimation (unlikely to happen)
394      - use Interior mask for OBCS in thsice_advection.F (similar to what is
395        done in gad_advection & seaice_advection).
396    o adjoint:
397      bug fix spotted by Gael Forget:
398      seaice_advection and thsice_advection still had
399      legacy CPP options to avoid CS corner updates for adjoint
400    o pkg/seaice:
401      => Change some of the defaults (2011/05/29):
402         - change SEAICEuseFluxForm default (from False to True)
403         - change DIFF1 default (from 0.004 m/s to 0. m/s)
404         And print warnings if DIFF1 is not set in data.seaice and centered
405          avection scheme is used without any diffusion.
406      also:
407      - fix seaice_diffusion calls in default AdvScheme part of seaice_advdiff.F;
408      - set SEAICEdiffKh[] default in the same way as SEAICEadvSch[]
409      - stop if DIFF1<>0 with SEAICEadvScheme <> 2, if DIFF1<>0 with any
410        other non-zero SEAICEdiffKh[] diffusivity, if SEAICEadvSalt=T with
411        #undef SEAICE_VARIABLE_SALINITY, if SEAICEadvAge=T with #undef SEAICE_AGE.
412      update results of test exp.:
413         lab_sea: output.fd (switch to AdvScheme=33 with diffKh=20)
414             output.hb87, output_adm.evp (SEAICEuseFluxForm=T and diffKh=200)
415             output_adm.noseaicedyn (SEAICEuseFluxForm=T)
416         offline_exf_seaice: output.seaicetd, output_adm (SEAICEuseFluxForm=T)
417         seaice_obcs: output (SEAICEuseFluxForm=T)
418      and prescribe old default for SEAICEuseFluxForm (=F) and DIFF1 (=0.004)
419          for standard fwd & AD lab_sea tests (to keep the same output).
420    o pkg/seaice/seaice_growth.F:
421      - use Ian Fenty's capping formulas for actual ice
422      thickness thoughout EVOLUTION branch.
423      - put treatment pathological case #2) in CPP brackets
424      (ALLOW_AVOID_INFINITESIMAL_AREA, undef by default).
425      - update global_ocean.cs32x15 and 1D_ocean_ice_colum results accordingly.
426    o pkg/seaice:
427      - seaice_diffusion.F : remove the min(DX,DY) factor permanently;
428      pass the Laplacian diffusivity (in m^2/s) diffKh as a parameter;
429      also pass fac as a param, which can be 1. (to update the tendency
430      field) or the time step (to update the field itself).
431      - seaice_advdiff.F: for multidim, call seaice_diffusion with
432      e.g. SEAICEdiffKhHeff and with fac=1; for single-dim, call
433      seaice_diffusion with e.g. SEAICEdiffKhHeff and with fac=time step.
434      - SEAICE_PARAMS.h, seaice_readparms.F, seaice_check.F :
435      hooks to handle SEAICEdiffKhHeff, SEAICEdiffKhArea, etc.
436    o pkg/seaice:
437      diffusion with centered advection scheme (diffus.F & advect.F):
438      - simplify S/R DIFFUS (put deltaT & DIFF1 factor outside, move EXCH outside)
439        to just compute the laplacian of input-field.
440      - unroll k loop (harmonic,biharmonic diff) in advect.F to save 1 exch call.
441      - fix flux-form version in diffus.F to conserve tracer.
442      update output of lab_sea.fd & lab_sea.hb87 (1rst set of modif affects
443       machine truncation) and lab_sea.salt_plume (conservative flux-form modif)
444    
445    checkpoint62y (2011/05/26)
446    o pkg/seaice:
447     - seaice_growth.F : in EVOLUTION branch, always include
448       a_QSWbyATM_cover in qnet (as it should be).
449     - verification/global_ocean.cs32x15 : update results accordingly
450       (output.seaice.txt output_adm.seaice.txt).
451    o pkg/seaice + obcs:
452     - use maskInW & maskInS in multi-dim advection and biharmonic diffusion:
453       equivalent of assuming no tracer gradient outside the OB region.
454       update output of seaice_obcs (uses DIFF1 <>0 => biharmonic diffusion)
455     - remove calls to OBCS_COPY_TRACER after EXCH calls (no longer needed
456       after changes above);
457     - obcs+seaice cleaning: apply seaice-tracer OB values to tracer field
458       only at OB location (instead of over a band of OLx width).
459    o pkg/seaice:
460     - fix wrong indices in old (non Flux-Form) diffusion default S/R diffus.F
461       (dxG(I+1, ...) changed to dxG(I, ...), no impact on Lat-Lon grid)
462    o pkg/obcs:
463      - split header file "OBCS.h" into 4 separated files:
464        OBCS_PARAMS.h, OBCS_GRID.h, OBCS_FIELDS.h & OBCS_SEAICE.h
465       Note: OBCS_PARAMS.h & OBCS_GRID.h can be included without OBCS_OPTIONS.h
466         (contain no conditional statement which depends on OBCS options).
467      - move "useOBCSYearlyFields" from "data.obcs" (hold in OBCS_PARAMS.h)
468        to parameter file "data.exf", namelist EXF_NML_OBCS (in EXF_PARAM.h).
469    o ctrl, cost, grdchk & autodiff pkgs:
470      - make options file more standard (like other {PKG}_OPTIONS.h file but
471        with AD_CONFIG.h); clean-up some of the included header files.
472    o pkg/obcs:
473      - do not mask tracer when applying OB (tracer == 0 could generate problems)
474      - apply tracer OB values to tracer field only at OB location (instead of
475        over a band of OLx width)
476      - clean-up obcs_apply_w.F & obcs_apply_eta.F (since less calls to these S/R)
477      - remove OBCS_MULTIDIM_OLD_VERSION code in gad_advection.F and remove
478        obcs_apply_tloc.F & obcs_apply_sloc.F
479    o obcs in model/src:
480      - call OBCS_APPLY_W only if NonHydrostatic.
481      - call OBCS_APPLY_ETA only if NonLinFreeSurf.
482      - reset dEtaHdt and wVel to zero outside OB interior region ;
483      - leave tracer unchanged outside OB interior region: This has no effect
484        on the solution but just to prevent unrealistic tracer value outside OB.
485      - zero out velocity outside OB interior region: This has no effect on
486        the solution but just to prevent unrealistic velocity outside OB.
487    o obcs and non-lin free-surf:
488       move call to OBCS_APPLY_R_STAR from update_r_star.F to calc_r_star.F
489       and call to OBCS_APPLY_SURF_DR from update_surf_dr.F to calc_surf_dr.F
490       + add argument "etaFld" to OBCS_APPLY_R_STAR & OBCS_APPLY_SURF_DR:
491       this fixes missing EXCH + get consistent eta OB value (+ fix restart).
492       update results of test-exp. exp4(nlfs).
493    o exp4 (nlfs) test-exp:
494       use OBC for Eta at Western & Eastern OB (to test prescribing Eta
495       with NonLin-FreeSurf); update output.nlfs.txt
496    o obcs and 2d/3d solver norm:
497       use interior masks (maskInC) to cancel out cg2d & cg3d matrix coeff at OB
498       and outside OB interior region (will allow to place OB further inside the
499       domain). Depending on the domain, can affects cg2d-Norm (previous
500       cancellation outside OB was only partial), e.g. in exp4 & obcs_ctrl,
501       and cg3d-Norm (previous Norm was computed before canceling OB terms),
502       e.g. in tutorial_plume_on_slope.
503      - update output of exp.: exp4 (x2), obcs_ctrl and tutorial_plume_on_slope.
504    o pkg rbcs:
505      - split RBCS.h into 3 files: RBCS_SIZE.h, RBCS_PARAMS.h & RBCS_FIELDS.h
506      - add capability to apply relaxation to horizontal velocity uVel & vVel.
507    o pkg/grdchk: add gradient check for control variable xx_shifwflx
508    o pkg/shelfice/shelfice_init_fixed.F
509      fix CPP-flag combinations
510    o pkg/seaice: Merge iceage code of Pierre Rampal
511      * update/change/correct ice age calculations
512      * add age updates for pathological cases
513      Probably needs more testing...
514    
515    checkpoint62x (2011/05/13)
516    o pkg/mom_vecinv:
517       high-order vorticity scheme: use interior masks (maskInW & S)
518       to zero-out (outside OB) gradient of vorticity.
519    o verification exp.:
520       turn on "useEnergyConservingCoriolis" (better discretisation) in exp.
521       hs94.128x64x5 and seaice_obcs ; update results.
522    o pkg/obcs:
523      fix bug in OBeta for YZ sections in obcs_exf_load.F
524    o pkg/ctrl, pkg/shelfice, and optim:
525      - add new control variable xx_shifwflx (fresh water flux underneath ice
526        shelves). This is almost as tedious as obcs-ctrl, because the
527        variables needs its own mask.
528      - add a cost function term that penalizes the deviation of xx_shifwflx
529        from the first guess (zero) in analogy to other control variables
530    o pkg/shelfice:
531      - start basic adjoint
532    o pkg/ctrl:
533      - remove extra 2D field "for good measure" when initializing in
534        ctrl_set_globfld_[xy/xz/yz].F
535      - replace hard coded precision 32 (a bug) in ctrl_map_ini_gen by ctrlprec
536      - improve error messages in ctrl_set_unpack_*
537    o OBC implementation in momentum:
538       use interior masks (maskInC,W & S) in momentum S/R:
539       - multiply divergence, tension and some del^i.u or del^j.v by maskInC
540       - multiply del2u,del2v by maskInW/S (biharmonic viscosity)
541       - multiply horiz. grad of vorticity by maskInW/S (in Leith scheme)
542       - multiply gradient of wVel by maskInW/S in del2w calculation (NonHyd)
543       Motivation: fix/clean implementation of OBC with biharmonic-viscosity
544        (and also with Leith/Smagorinsky harmonic-viscosity).
545       Update output of experiment dome and exp4 (+nlfs).
546    o exp4 test-exp:
547      - turn on: nonHydrostatic, exactConserv, viscA4 (with momDissip_In_AB=F)
548        and prescribe time-varying OB (without pkg/exf) for zonal-velocity
549        at Western & Eastern Boundaries (+/- 1 per-cent); Also prescribe
550        time-varying OB at Western-side for wVel (NonHyd); update output.
551      - add secondary set-up (.nlfs) using NonLin FreeSurf (z*) + mom_vecinv
552        and biharmonic-viscosity ; also use prescribed time varying OB.
553    o pkg/obcs:
554      fix bug in OBWeta,OBWeta indices in obcs_apply_r_star.F
555    o model/src:
556      - fix startTime setting when baseTime<>0 & nIter0=0 are specified ;
557      - initialise startTime & nIter0 with unlikely values: allows to set one
558        from the other without ambiguity.
559    o seaice_obcs test-exp.:
560      add small diffK4T,S to test biharmonic diffusivity with OBCS ; update output.
561    o pkg/obcs:
562      - remove calls to OBCS_COPY_TRACER after EXCH for T,S & pTracer:
563        no longer needed with maskInC,W,S in pkg/generic_advdiff.
564    o pkg/seaice:
565      - retired SEAICE_SALINITY and SEAICE_salinity in favor of
566        SEAICE_VARIABLE_SALINITY and SIsalFRAC, respectively.
567      - fixed bug in the initialization of sea ice salinity variable HSALT
568        in seaice_init_varia.F  (removed dependence on ICE2WATR)
569    o fizhi-cs test exp.:
570       switch reference output convention for these 2 non-standard test-exp,
571        from: pgi  6.1-5 on faulks (FC.6, -of linux_ia32_pgf77+authors_fc5)
572          to: ifort 11.1 on baudelaire (FC.13, -of linux_amd64_ifort11)
573       reason: faulks might get retired soon and pkg/fizhi has still Pb with gfortran
574    o model/inc:
575      - change type of PmEpR array (from _RS to _RL) to fix restart (with "-use_r4")
576        of exp. global_ocean.90x40x15 (Suncronous time-stepping + Real-FW + NonLin-FS)
577    o pkg/seaice:
578      - fix calculation of saltFlux and saltPlumeFlux when using SEAICE_SALINITY
579    o verification/lab_sea, 1D_ocean_ice_column, seaice_obcs, global_ocean.cs32x15
580      - updated output*.txt files due to bug fixes in salt, saltPlumeFlux,
581        and initial HSALT
582    
583    checkpoint62w (2011/04/26)
584    o pkg/mom_fluxform:
585      - fix calculation of del2u & del2v (no-slip BC) when using Non-Lin Free-Surf.
586      - use parameter "sideDragFactor" in no-slip BC side-drag part.
587      - update output of exp. global_ocean.90x40x15
588    o pkg/mom_vecinv:
589      mask del2u & del2v (no effect on results, but cleaner & closer to mom_fluxform)
590    o update seaice exp.:
591      use more consistent parameter values (remove "backward compatability only":
592       ICE2WATR, SEAICE_lhSublim, SEAICE_cpAir, SEAICE_rhoAir + set rhoConstFresh)
593      related to thermodynamics seaice. Update output (fwd+AD) of exp.:
594       1D_ocean_ice_column (x2), lab_sea (x8), ioffline_exf_seaice (x2) & seaice_obcs
595    o update test-exp global_ocean.90x40x15:
596      o use default CD_CODE_OPTIONS file (Adams-Bashforth on CD Mom & Coriolis).
597      o increase Overlap size from 2 to 3 (to allow to test bi-harmonic Visc.)
598      o new pickup-files from a 100.yr run with pkg/down_slope (input.dwnslp params)
599      o turn on zStar & viscA4 in standard set-up (dir input/)
600        and update output files: output.txt & output.dwnslp.txt
601    o new AD-test experiment: obcs_ctrl
602      (From Matt MITgcm_Contrib/SOSE/BoxAdj) to test OBCS as control vector.
603    o pkg/dic:
604      fix two bugs in handling water vapour pressure in carbonate chemistry
605      and air-sea fluxes. Found by Val Bennington and Galen McKinley
606      (add DIC Option = WATERVAP_BUG to recover old results)
607      update output of tutorial_global_oce_biogeo (fwd+AD) & tutorial_dic_adjoffline
608    o adding allowInteriorFreezing option to check for water below freezing point
609      at depth and bring the negative heat anomaly to the surface level
610    o pkgs _fields_load:
611      - extend GET_PERIODIC_INTERVAL to deal with non-periodic case (from pkg/rbcs)
612      - use new S/R GET_PERIODIC_INTERVAL in pkgs:
613        bulk_force, cheapaml, cfc, dic, obcs (+ ctrl/ctrl_get_gen_rec), offline and
614        rbcs to get interpolation weights and time reccord number.
615      - fix multi-threading in aim_fields_load.F
616      - apply EXCH to temp arrays [0,1] after reading in dic_fields_load.F
617    o external_fields_load:
618      new S/R GET_PERIODIC_INTERVAL to calculate which time-record (and linear
619       interpolation weights) to use in a periodic time-series ; do not divide by
620       time-step to convert to integer:
621       - this fixes case where externForcingPeriod is not multiple of time-step
622          (Thanks to Christopher L. Wolfe)
623       - this fixes case where externForcingPeriod is an odd multiple of time-step
624         (was wrong by half of time-step); update results of tutorial_global_oce_in_p.
625      store index of time-record which is currently loaded:
626       - works without any assumption on sequence of calls to EXTERNAL_FIELDS_LOAD ;
627       - needed for the adjoint but not yet used because of extensive recomputations;
628         (to be fixed soon)
629    
630    checkpoint62v (2011/04/02)
631    o verification/1D_ocean_ice_column added to test Ian Fenty's
632      pkg/seaice_growth.F modifications for improving sea ice code differentiability
633    o update output of exp4, internal_wave, seaice_obcs, tutorial_plume_on_slope
634      (new velocity statistics after changing maskInW & maskInS definition)
635    o pkg/generic_advdiff with OBCS:
636      use maksInW & maskInS in advective flux and in biharmonic diffusion calculation:
637      equivalent to assumption of no tracer gradient outside the OB region.
638      This will affect the results if using obcs+biharmonic diffusion.
639      update output_adm.txt of experiment bottom_ctrl_5x5 (not expected since no obc)
640    o pkg/obcs:
641      change definition of maskInW & maskInS: leave OB edges inside (maskIn=1)
642      (e.g., maskInW(OB_Ie)=1 ) so that velocity normal-component at OB is still
643      in Interior region. No impact on solution but affects Velocity monitor stats.
644    o pkg/ptracers (adjoint)
645      New option AUTODIFF_PTRACERS_SPLIT_FILES for writing separate
646      tape file for each tracer
647    o model/inc/src and pkg/autodiff: add parameters that allow to turn
648      of parts of the adjoint code at run time. For now, there are only
649      useKPPinAdMode, useGMrediInAdMode, and useSEAICEinAdMode. These
650      parameters are set in data.pkg.
651      This is the lazy coward's version of doing this, but still useful for
652      debugging. In order to do it right, everything needs to be moved to
653      pkg/autodiff.
654    o pkg/autodiff: fix global_sum_tile_ad.F by resetting adsumPhi at
655      the end; this fixes the adjoint balancing code for open boundaries.
656    o pkg/ctrl:
657      - change behavior of xx_${varname}period to be analogous to exf-conventions:
658        xx_${varname}period =   0.,  means time-independent control part
659        xx_${varname}period = -12., means one-year-periodic monthly control part
660      - introduce helper routine ctrl_init_rec (part of ctrl_init.F) to
661        clean up ctrl_init a little, remove unused variables
662      - ctrl_init: fixed the handling of the start/endrec for obcs-variables
663      - move "call cal_GetMonthsRec" from s/r ctrl_get_gen to s/r ctrl_get_gen_rec
664    
665    checkpoint62u (2011/03/15)
666    o model/src:
667      - for the adjoint, change NonLin-FreeSurf initialisation sequence: fill-in
668        h0Fac from INITIALISE_FIXED and reset hFac to h0Fac in INITIALISE_VARIA ;
669      - in initialise_varia.F (except for ALLOW_DEPTH_CONTROL) remove 2nd call to
670        INI_DEPTHS, INI_MASKS_ETC & INI_LINEAR_PHISURF.
671    o pkg/ctrl/obcs/ecco:
672      - remove obsolete, unused, and partially broken code:
673        ctrl_obcsvol/ctrl_obcsbal/ctrl_volflux and code within
674        ALLOW_CTRL_OBCS_BALANCE
675      - put a stop statement into ecco/cost_obcsvol.F, but also add
676        cost_obcsvol to ecco_ad_diff.list
677    o pkg/ecco: fix counting cost function contributions for obcs (code
678      by Matt M.) and diffkr for diagnostics
679    o pkg/ecco, pkg/ctrl, pkg/grdchk:
680      add cost penalty terms for initial uvel, vvel, eta controls
681      and I/O for prior error files
682    o pkg/mdsio:
683       move mds_check4file.F from eesupp/src to mdsio_check4file.F ; add option
684       (new argument) to check for tiled file in mdsioLocalDir : this fix the
685       restart from pickup_som , pickup_dic (& dic_co2atm) with mdsioLocalDir.
686    o pkg/ctrl:
687     - ctrl_obcsbal.F, ctrl_obcsvol.F: replace last calls of ctrl_getrec by
688       ctrl_get_gen_rec, put a stop statement into ctrl_getrec. Remove
689       unused and superfluous variables
690     - ctrl_get_gen_rec.F: catch the case of xx_genperiod=0.
691    o pkg/ecco
692     - enable adjoint of Stevens OB
693    o pkg/ctrl/ecco/grdchk:
694      - remove global declaration of tmpfldx/yz and tmpfldx/yz2.
695        Fortunately, we do not have any tests for the numerous cpp-flagged
696        option of "obcs as control parameters" so we will never know
697        if this is an improvement (but at least now things compile).
698      - remove an obsolete initialization from ecco_cost_init_barfiles.F
699      - fix some problems within never used ifdefs to make the code compile
700    o pkg/obcs:
701     - Refine Interior mask definition to work with more complex OB (e.g.
702       if OB_Ie < OB_Iw); In case default setting is not sufficient, allows to
703       read in Interior mask from file. Check if Interior mask is consistent
704       with OB list of indices.
705    o pkg/seaice
706     - beginning code for a seaice tracer package,
707       but currently only used for seaice age: SEAICE_AGE
708       SEAICE_num = 4
709       iTracer = 1: area-weighted ice age
710               = 2: volume-weighted ice age
711               = 3, 4: template for one-year vs. multi-year ice
712       data.seaice has new namelist SEAICE_PARM03 for arrays related to
713       SEAICE_num
714    
715    checkpoint62t (2011/03/05)
716    o pkg/obcs:
717     - obcs_apply_uv.F: change to a 2 steps method, first tangential component;
718       then normal component. This ensures that the normal component is set
719       correctly even when it conficts with tangential setting from an other OB.
720       Affects results of test-experiment seaice_obcs: update the output.txt
721    o pkg/obcs:
722     - add code to monitor statistics of dynamical fields at OB.
723     - take OBCS_BALANCE code out of obcs_calc.F into new S/R OBCS_BALANCE_FLOW :
724       - fix to OBCS_BALANCE code (right hFac ; deal with simple OB intersection).
725       - change default: balance the Net inflow through all OB (instead of balancing
726         each OB separately); keep the old method if setting OBC_balanceFacX < 0.
727     - switch on useOBCSbalance in dome experiment: only correct Western OB outflow
728       to match Nortern OB inflow (OBCS_balanceFacN=0).
729    o pkg/seaice:
730     - redefined actual sea ice age to be ICEAGE/HEFF ifdef SEAICE_AGE_VOL
731    o pkg/seaice (seaice_growth v 1.113):
732     - reverting seaice_growth to v 1.111 in order to have code with exact bit
733       compatibility with MITgcm_contrib/ifenty/Fenty_seaice_thermo_code_merge
734       CPP option SEAICE_OCN_MELT_ACT_ON_AREA removed in v 1.112 is reintroduced
735       runtime flag SEAICEareaFormula is kept but is inactive
736    o model/src:
737     - add new param to scale curvilinear grid distance and area when using
738       a different sphere radius from the grid-files.
739     - test/check multi-threads EXCH applied to local variable (cg2d_x)
740    o adjoint:
741     - enable adjoint of Stevens OB
742     - add dummy_in_dynamics to enable extraction of ADJrhoinsitu
743       (a bit delicate because of potentially modified adj. common block structure;
744       current switch is ALLOW_AUTODIFF_MONITOR_DIAG, could be changed later)
745    
746    checkpoint62s (2011/02/15)
747    o pkg/seaice (seaice_growth v 1.112):
748     - introduce SEAICEareaFormula run time parameter, which selects the recipe for
749       computing the ice cover tendency from effective thickness tendencies. Include
750       Ian Fenty's formula.
751     - remove 'undef SEAICE_OCN_MELT_ACT_ON_AREA' which may now be achieved using
752       SEAICEareaFormula.
753     - simplify notations for the various d_HEFF/d_AREA terms.
754    o pkg/gmredi:
755     - add Boundary-Value-Problem bolus transport (Ferrari etal, OM 2010) code
756       from Christopher Wolfe (UCSD); add partial cell factor in vertical derivative;
757       add a verification test-run (front_relax.bvp) to test GM_useBVP.
758    o pkg/seaice (seaice_growth v 1.111):
759     - for SEAICE_DO_OPEN_WATER_GROWTH, replace Gael's implementation with Ian's.
760     - the new SEAICE_DO_OPEN_WATER_MELT allows open-water air-sea heat fluxes to
761       also melt ice.
762    o pkg/seaice:
763     - McPhee formula for Ice-Ocean fluxes (provided by Ian Fenty).
764     - can be used by #define MCPHEE_OCEAN_ICE_HEAT_FLUX in SEAICE_OPTIONS.h
765    o pkg/cheapaml:
766     - from Nico Wienders: New version of this package.
767    o pkg/flt:
768     - add CPP options to prevent floats to re-enter the opposite side of
769       a periodic domain (default: keep periodicity)
770    o pkg/gmredi:
771     - apply exchange to GM_PsiX,GM_PsiY to get valid values near CS-corners
772       (needed for multi-dim advection).
773     - switch on GM Advective form in global_ocean.cs32x15 and update output.txt
774    o model/src:
775     - fix wrong re-setting of addMass array (ALLOW_ADDFLUID) for atmospheric run.
776    o tutorial_tracer_adjsens
777     - extend to NLFS and replace maskC by hFacC
778       (change reference output accordingly)
779    
780    checkpoint62r (2011/01/24)
781    o testreport:
782     - add option -deloutp (-do) to remove output file after successful run
783     - add option -mfile (-mf) for MPI machile-file and for each test-exp,
784       extract exact list of procs from this file ; adjust COMMAND by
785       replacing TR_MFILE & TR_NPROC with local machile-file & Nb of MPI procs.
786  o pkg/ecco: replace old ineffective way of penalizing deviations from  o pkg/ecco: replace old ineffective way of penalizing deviations from
787    first guess (of obcs) with code by Matt Mazloff    first guess (of obcs) with code by Matt Mazloff
788  o pkg/ctrl: add code that allows the use of ALLOW_OBCS?_CONTROL without  o pkg/ctrl: add code that allows the use of ALLOW_OBCS?_CONTROL without
789    exf/cal    exf/cal
790    - ctrl_init: fix initialisation (computation of diffrec) for obcs-ctrl    - ctrl_init: fix initialisation (computation of diffrec) for obcs-ctrl
791      and handle case of obcs?period == 0      and handle case of obcs?period == 0
792      Not affected by these changes: There is still an inconsistency in      Not affected by these changes: There is still an inconsistency in
793      the computation of start/endrec for the obcs variables for ALLOW_CAL      the computation of start/endrec for the obcs variables for ALLOW_CAL
794      defined (see comment by Menemenlis, 7-Mar-2003)      defined (see comment by Menemenlis, 7-Mar-2003)
795    - make S/R ctrl_get_gen_rec return something meaningful even if    - make S/R ctrl_get_gen_rec return something meaningful even if
796      ALLOW_CAL is not defined      ALLOW_CAL is not defined
797    - ctrl_getobcs?: simplify code so that it does not need to use    - ctrl_getobcs?: simplify code so that it does not need to use
798                     S/R exf_swapfields                     S/R exf_swapfields
799  o testreport:  o testreport:
800     allow to test MPI with different number of processors for each experiment:     allow to test MPI with different number of processors for each experiment:
# Line 24  o testreport: Line 803  o testreport:
803  o model/src, pkg/autodiff, pkg/ecco, pkg/seaice:  o model/src, pkg/autodiff, pkg/ecco, pkg/seaice:
804    alleviate the need for additional 3D tapes when using    alleviate the need for additional 3D tapes when using
805    the non-inear free surface in the adjoint. This is done    the non-inear free surface in the adjoint. This is done
806    by adding an 'update' of hfacc etc. to their current    by adding an 'update' of hfacc etc. to their current
807    value at the beginning of forward_step.F.    value at the beginning of forward_step.F.
808  o pkg/seaice  o pkg/seaice
809    seaice_lsr: move stress-divergence computations out of outer pseudo-    seaice_lsr: move stress-divergence computations out of outer pseudo-
810    timestepping loop    timestepping loop
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