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revision 1.1436 by jmc, Thu May 19 00:28:20 2011 UTC revision 1.1571 by mlosch, Fri Jan 6 09:40:35 2012 UTC
# Line 4  $Name$ Line 4  $Name$
4      Notes on tags used in MITgcmUV      Notes on tags used in MITgcmUV
5      ==============================      ==============================
6    
7    o optim: make Makefile more robust (?)
8    o pkg/shelfice: add missing initialisation of num_shifwflx
9    o pkg/exf (interpolation):
10      - extended input field (2 rows) near the N & S poles:
11        * fill in with the symetric value (when even Nb of data in longitude)
12        * add average value at the poles only for scalar quantities ; for vector
13          component interpolation, skip the averaging and keep duplicated values,
14          unless the 2 components have same location (uvInterp=T) in which case
15          interpolate the 2 components together using S/R EXF_INTERP_UV.
16      - new S/R EXF_INTERP_UV to interpolate the 2 components of a vector field
17        together: this allows to account properly for local orientation when
18        averaging at N & S pole.
19      - add CPP option EXF_USE_OLD_INTERP_POLE to recover old results regarding
20        exf-interpolation near N & S poles. Undef by default.
21      - add debug check/print on 1rst iter if debugLevel >=2.
22    o pkg/exf:
23      - change masking flags definition (no longer "parameter"), put them in
24        common block and set them in S/R EXF_INIT_FIXED.
25      - change recognized masking flag from s,u,v to c,w,s since the mask
26        to use (maskC,W,S) depends on position on model grid and has little to
27        do with scalar/vector difference; fix masking if using P-coordinates.
28      - fix masking of wind-stress (was wrong if interpolated or read on A-grid)
29        and update results of exp. global_with_exf (x2).
30      - fix setting of zenith-angle table when SHORTWAVE_HEATING is undef.
31    o pkg/obcs
32      - S/R obcs_calc_stevens: fix a small bug (gammat -> gammas where appropriate)
33    o pkg/exf (interpolation):
34      - assume periodicity in X only if input field cover full longitude range.
35      - improve search for lat. index (supposed to be faster, in ~log2(ny) steps,
36        and should vectorise).
37      - fix input lat of the 2 added row (in case we provide N.pole data).
38    
39    checkpoint63h (2011/12/30)
40    o pkg/seaice:
41      - change declaration of UVM from _RL to _RS in order to get B-grid
42        uIce,vIce monitor when _RS = real*4
43    o pkg/offline:
44      - new S/R OFFLINE_RESET_PARMS for resetting main-model params (switch off flags);
45      - compute vertical velocity if not read from file (switch on exactConserv
46        & staggerTimeStep);
47      - fix output of ptracer monitor iter & time for default PTRACERS_monitorFreq.
48    o verification:
49      - update grid-files (in tutorial_held_suarez_cs/input and fizhi-cs-32x32x40/input)
50        with grid-angle generated using "utils/matlab/cs_grid/cubeCalcAngle.m":
51        fix Pb in yG definition @ 2 missing corners (previously yG was averaged);
52      - update output of exp. global_ocean.cs32x15.viscA4 after changing
53        grid-file angles (used here for coriolis-3d);
54      - remove (or gzip) few files not needed to run fizhi-cs experiments.
55    o pkg/exf (vector interpolation):
56      - rotate vector component toward local grid-axis orientation using grid-angles
57        (stored in GRID.h) instead of locally computed rotation angle; keep old code
58        available with exf option EXF_USE_OLD_VEC_ROTATION (undef by default).
59    o pkg/seaice:
60      - allow to compile with exf options ALLOW_ATM_TEMP or ALLOW_DOWNWARD_RADIATION
61        undefined. Fix and remove the stop when ALLOW_RUNOFF is undefined.
62    o pkg/PKG_OPTIONS.h files:
63      - move #include "CPP_OPTIONS.h" just after #include "PACKAGES_CONFIG.h",
64        outside of the #ifdef ALLOW_THISPKG / #endif block.
65      - update verification/*/code/PKG_OPTIONS.h files.
66    o add a verification experiment (offline_exf_seaice/input.seaice) that test
67      the B-grid LSOR solver
68    o pkg/seaice: sort out emissivity and long wave radiation step 2:
69      - add emissivity for snow and ice as new run-time parameters
70        (unfortunately) that default to the corresponding exf values; this
71        changes results in most verification experiments so that for backward
72        compatibility these parameter have to be set explicitly to inconsistent
73        values (ugly);
74      - the exf-flag EXF_LWDOWN_WITH_EMISSIVITY then gets rid off the hard-wired
75        emissivities of 0.97 associated with lwdownloc in S/R seaice_solve4temp
76        until we agree how to handle this bug properly
77    o pkg/exf (interpolation):
78      - add a set of run-time param ({inputfield}_interpMethod), one for
79        each interpolated input field, to select the interpolation method
80        with a value of zero switching off the interpolation;
81      - print interpolation parameters to standard output;
82      - refine exf_check.F accordingly ; stop if USE_NO_INTERP_RUNOFF is defined
83        (to use instead runoff_interpMethod=0 in data.exf).
84      - simplify default setting of interpolation parameters (for all fields,
85        set position to match model grid cell-center position, leading to trivial
86        interpolation in case of regular Lat-Lon grid) and fix for the case of
87        non-uniform delY.
88    o pkg/exf/exf_radiation.F: add the factor ocean_emissivity to lwdown, for
89       within #ifdef EXF_LWDOWN_WITH_EMISSIVITY/#endif. Unless ocean_emissivity=1.
90       this factor is absolutely required, because the lw exitance (= out-going
91       long wave radiation) is emissivity*stefanBoltzmann*T^4 + rho*lwdown,
92       where the reflectivity rho = 1-emissivity for conservation reasons. Once
93       this is established, we can remove the CPP-Flag (if we want to).
94    o pkg/seaice:
95      - qualify a stop statement in S/R seaice_check: EXF_READ_EVAP and
96        ALLOW_BULKFORMULAE are only required if SEAICE_EXTERNAL_FLUXES is defined
97      - sort out emissivity and long wave radiation, step 1: make SEAICE_emissivity
98        what the name implies (and not emissivity*BoltzmannConstant), this means
99        the old default value of 5.5e-8 now means
100        5.5e-8/5.670e-8 = 0.97001763668430343479 as ocean_emissivity in
101        S/R exf_readparms
102      - FV-discretization of the B-grid LSOR solver, turn on with
103        SEAICE_LSRBNEW. This new solver also involves a slight re-organization
104        of the calling routine dynsolver, so that B and C-grid code look a
105        little more alike.
106      - fix index bugs in ostres.F (B-grid code)
107    o pkg/seaice/seaice_ocean_budget.F: change (unused) code to make it look better
108    o pkg/seaice/seaice_readparms.F: make ocean_emissivity*stefanBoltzmann the
109      default for SEAICE_emissivity, if useEXF; requires setting a wrong
110      parameter value in global_ocean.cs32x15/input.seaice/data.seaice for
111      backward compatiblity
112    o model/src: use sigmaR in calc_ivdc
113    
114    checkpoint63g (2011/12/16)
115    o pkg/seaice/seaice_growth.F:
116      fix heat conservation of the coupled ocean-seaice system.
117      when SEAICE_HEAT_CONSERV_FIX is defined, the mismatch of
118      solid vs liquid water treatment is resolved via QNET.
119    o pkg/seaice/seaice_growth.F:
120      add missing term for sublimation in saltFlux, which was breaking conservation.
121    o pkg/seaice/seaice_model.F:
122      Remove this patholigical case treatment in evolution branch,
123      where it is un-necessary and breaks conservation.
124      Update global_ocean.cs32x15/results accordingly for
125      output.seaice.txt output_adm.seaice.txt and output_adm.seaice_dynmix.txt
126    o model/src:
127      useRealFreshWaterFlux: remove masking of EmPmP (using maskInC) in
128      external_forcing_surf.F and apply mask directly in S/R SOLVE_FOR_PRESSURE.
129    o pkg/obcs:
130      modify Stevens boundary conditions so that S/R obcs_calc_stevens computes
131      tendency for temperature and salinity that is then applied to update
132      theta and salt in S/R obcs_apply_ts; this requires proper masking of all
133      horizontal advection and diffusion contributions on the boundary (in
134      S/Rs gad_advection, gad_calc_rhs, gmredi_rtransport, gmredi_calc_diff), and
135      removing the mask in S/R timestep_tracer. The advantage of this approach is
136      that the updated tracer values include contributions from the surface
137      forcing and vertical diffusion.
138      This modification changes exp4.stevens because of vertical diffusion.
139    o model/src:
140      change non-curvilinear grid setting to also work with exch2 + blank tiles:
141      - move delX,delY to new header file (SET_GRID.h) and adjust length to 1rst
142        face dimensions.
143      - new S/R INI_LOCAL_GRID to define model tile-local grid (using same units
144        as delX,delY) and called from S/R INI_CARTESIAN_GRID, INI_CYLINDER_GRID
145        and INI_SPHERICAL_POLAR_GRID.
146      change test-experiment global_ocean.90x40x15:
147      - split the domain in many more tiles (9x4 tiles of 10x10 each);
148      - switch to exch2 and remove 1 blank-tile (but only for MPI test).
149      - update results of both test (std & dwnslp).
150    o pkg/diagnostics/diagstat_calc.F: fix problem with non-initialised halos in
151       tmp-fields for TARGET_NEC_SX at the cost of extra loops and less vectorisation
152    o model/src:
153      - take sigma-coords related code out of update_etah.F into new S/R UPDATE_ETAWS
154        and fix initialisation when using sigma-coords.
155    o model/src:
156     - improve Gael's changes from Jan 14, 2011 "addition of an 'update' of hfacc etc.
157       to their current value at the beginning of forward_step.F": add a new run-time
158       switch "doResetHFactors" (default=false) and use it to do (or not) the resetting.
159     - set doResetHFactors=T in the following test exp:
160        global_ocean.90x40x15/input (rStar) & input.dwnslp (linFS),
161        global_ocean.cs32x15/input.seaice (rStar), hs94.cs-32x32x5/input.impIGW (linFS)
162        and tutorial_global_oce_in_p (nonLinFS in p)
163    o pkg/ecco
164      - added IES cost term
165    o verification/advect_xz
166      - scale down the depth by 1/100 (from 200 km to just 2.km)
167      - add secondary test using divergent flow, r-star and implicit vertical advection.
168      - add note (check_conserve_TS.txt) and matlab script to check global
169        conservation of T & S with NonLin-FreeSurf and Adams-Bashforth.
170    o pkg/rbcs:
171      - add missing relaxUFile & relaxVFile in namelist (in rbcs_readparms.F).
172    o pkg/obcs (Stevens BCs):
173      - fix various problems in the phase speed computations of the Stevens
174        boundary conditions:
175        - sign error for western and southern boundaries,
176        - time tendencies were underestimated by factor of dTracerLev and some just
177          zero (for multidim advection schemes) -> now estimate time tendencies
178          from difference between previous (n) time level and the one before (n-1);
179          this requires storing a field per tracer per boundary, also in the pickup
180          files.
181        - replace deltaTmom in cflMer/Zon computation with dTracerLev
182        - set default phase velocity to cflMer/Zon
183      - update verification experiment exp4.stevens
184    o pkg/generic_advdiff (implicit_r):
185      - fix implicit vertical advection conservation with AB and/or NonLin-FreeSurf
186        (remove Tr*d/dz(w) in gad_implicit_r.F and add it in gad_calc_rhs.F);
187      - fix implicit vertical diffusion or advection with NonLin FreeSurf
188        (was using current recip_hFacC instead of future recip_hFacC): set future
189        recip_hFac in thermodynamics.F and pass & use it in all vertical implicit
190        solver S/R ;
191      - fill diagnostics of vertical advective fluxes (computed from tendency)
192        when using implicit vert. advection;
193      - update output of exp that uses NonLin-FreeSurf & implicit vertical diffusion:
194         global_ocean.90x40x15 (fwd+AD), global_ocean.cs32x15 (4 fwd +4 AD),
195         tutorial_global_oce_in_p (fwd), tutorial_tracer_adjsens (AD)
196         and cpl_aim+ocn (used in ocean); to be fixed: bottom_ctrl_5x5.
197    o pkg/diagnostics:
198      - add diags for T & S tendency which goes through Adams-Bashforth.
199    
200    checkpoint63f (2011/11/30)
201    o pkg/obcs/obcs_calc_stevens.F:
202      - join some loops to reduce number of if-statements
203      - fix a bug in code for northern and southern boundaries.
204    o pkg/seaice/seaice_init_varia.F
205      - undo resetting UVM=0 that has slipped in unnoticed in r1.49 and
206        caused zero ice-velocities for the B-grid code
207    o pkg/seaice/seaice_init_fixed.F
208      - fix a bug in the initialisation of the second metric terms
209        k2AtC and k2AtZ: k2AtC was set to the value of k2AtZ and k2AtZ was 0.
210      - this affects all seaice configurations with useCurviLinearGrid = .true.
211        and SEAICEuseDynamics = .true. (default) and SEAICEuseMetricTerms
212        = .true. (default)
213      - the only verification experiment affected is global_ocean.cs32x15:
214        icedyn, seaice, and seaice_dynmix (AD)
215    o pkg/thsice/thsice_diagnostics_state.F
216      - only for TARGET_NEC_SX: initialise all of tmpFld, so that overlap does
217        not contain garbage that can lead to surprises in diagstats_calc.F
218    o model/src:
219      - move bi,bj loops inside INTEGR_CONTINUITY ;
220      - call INTEGR_CONTINUITY directly from forward_step.F
221        (previously called from momentum_correction_step.F)
222      - call UPDATE_ETAH from integr_continuity.F and update initialise_varia.F,
223        forward_step.F and pkg/ecco/the_main_loop.F
224    o model/src/do_oceanic_phys.F:
225      - reset addMass to zero only if useICEFRONT ;
226      - separated k-loop for rhoInSitu calculation ;
227      - add 2 diagnostics for wVel*delta^k(Rho) at constant pressure (= WdRHO_P)
228        and at constant T,S (= WdRHOdP);
229      NOTE: change diagnostics WRHOMASS : this is now simply the Vertical transport
230        of In-Situ Density (Anomaly) (=wVel*rho^bar-k) (previously was Vertical
231        transport of locally-referenced potential density);
232        to recover old diag: (WRHOMASS)_old = (WRHOMASS)_new -1/2 * (WdRHOdP)
233    o gluemnc:
234      - replace ncrcat with ncks when adding variables to *.glob.nc
235      - change the way variables without record dimensions are handled so that
236        files that have variables with and without record variables can be glued:
237        add a record dimension with a new unique name to be able to differentiate
238        between variable with and without a-prior record dimensions. Remove
239        this record dimension before adding the variable to the *.glob.nc file.
240        This procedure automatically works also for grid.*.nc files that do not
241        have any record dimension.
242    o verification/cpl_aim+ocn:
243      - generate new reference output on baudelaire (gfortran, mpich2) (previously
244        from old aces-grid cluster, ao + ifort) and update 'run_cpl_test' script.
245    o pkg/obcs/obcs_calc_stevens.F:
246      - add code for northern and southern boundaries.
247      - reorder some loops to save some operations and so that drFBar can be scalar
248    o model/src:
249      - re-arrange extrapolation calculation in Adams-Bashforth S/R (affects machine
250        truncation) and add diagnostics for Adams-Bashforth tendency increment.
251      - update test-exp. AD output:
252        1D_ocean_ice_column, bottom_ctrl_5x5, lab_sea.noseaicedyn, obcs_ctrl;
253      and FWD output: exp4 (x3), fizhi-cs-32x32x40, fizhi-cs-aqualev20,
254        front_relax (x3), global_ocean.90x40x15 (x2), global_ocean.cs32x15 (x5),
255        global_ocean_ebm, ideal_2D_oce, internal_wave, isomip (x3), lab_sea (x4),
256        matrix_example, MLAdjust (x5), natl_box (x2), tutorial_advection_in_gyre,
257        tutorial_global_oce_in_p, tutorial_global_oce_latlon and
258        tutorial_plume_on_slope.
259    o pkg/diagnostics/diagstats_calc.F: add special code for TARGET_NEC_SX
260      that vectorises. This code uses 3 extra 2D fields, F90 array assignments
261      and F90 intrinsic routines SUM, MINVAL, MAXVAL, but since TARGET_NEC_SX
262      does not even come with an F77 compiler anymore, this should not be
263      a limitation
264    
265    checkpoint63e (2011/11/06)
266    o pkg/seaice adjoint of LSR:
267      - substantially rework STORE dirs.
268      - add new flag SEAICE_LSR_ADJOINT_ITER and parameter SOLV_MAX_FIXED
269        this flag will do SOLV_MAX_ITERS but only store SOLV_MAX_FIXED fields
270        and only perform SOLV_MAX_FIXED adjoint iters.
271        If flag SEAICE_LSR_ADJOINT_ITER is undef-ined, the store in the iteration
272        always goes to same record, meaning that the last forward field will be
273        the one used in the adjoint - an approximation.
274      - now produces non-zero LSR-related gradients, and acceptable gradients for
275        An's zonal (x-z) test case (to be checked in)
276      - lab_sea: produces acceptable gradients for lab_sea with forward/backward LSR
277        (but these are screwed up by the thermodynamics in the first place);
278        reduce from 4 to 3 timesteps to avoid t.d. issue as temporary solution;
279        output_adm.txt also reflects changes to seaice_lsr
280      - global_ocean.cs32x15:
281        * the "default" input_ad.seaice has been re-defined to always exclude dynamics
282          (output_adm.seaice.txt was updated)
283        * new input_ad.seaice_dynmix tests a forward LSR / backward free-drift
284          (output_adm.seaice_dynmix.txt)
285    o test-exp. exp4+stevens:
286      - switch off pTracers and nonHydrostatic (restart problems with NH); update output
287    o pkg/seaice (lsr solver):
288      - put coriolis term into FORCEX,Y (as in seaice_evp.F; previously in rhsU,V only);
289        update output (change truncation) of FWD test exp lab_sea & global_ocean.cs32x15
290      - fix SEAICEuseFREEDRIFT for new OBCS version (ndef OBCS_UVICE_OLD)
291      - new parameter "LSR_mixIniGuess" allows (if=2,4) to mix free-drift solution
292        into initial guess for linearised solver; use weight ~ (1/err)^2,4.
293      - compute (with new S/R) and print initial (+ free-driff sol. if available)
294        and final residual of linearised system.
295    o pkg/pp81: add diagnostics for vertical eddy viscosity and diffusivity
296      (requires new subroutines pp81_init_fixed.F/pp81_diagnostics_init.F)
297    o pkg/obcs: Stevens BCs (still only for east and west)
298      - fix Stevens BCs by using intermediate velocities of previous
299        time step as "baroclinic" contribution rather velocity of one grid cell
300        inside the boundaries; more consistent but makes the entire treatment
301        more complicated, requires new pickup files and two new S/Rs:
302        obcs_copy_uv_n and obcs_save_uv_n
303        keep old version with flag OBCS_STEVENS_USE_INTERIOR_VELOCITY
304        (undefined by default)
305      - silently move computation of some grid factors into separate loops to
306        save some recomputations
307      - add a hack for non-linear free surface
308      - add a verification experiment to exp4 that tests this code
309    o make gluemnc/xplodemnc work with (moron) non-GNU shell tools
310    
311    checkpoint63d (2011/10/25)
312    o pkg/obcs + seaice-dynamics:
313      - new implementation calls OBCS_APPLY_UVICE (in seaice_dynsolver.F) before
314        solving for uIce,vIce and prevent SEAICE_LSR or SEAICE_EVP to modify OB
315        values (consistent with an implicit method).
316      - add option OBCS_UVICE_OLD (in OBCS_OPTIONS.h, defined by default) to
317        return to older implementation (same results as before); note that none of
318        the "experimental" OBCS_SEAICE options are implemented in the new version.
319      - switch test exp. seaice_obcs to use new version (update output).
320    o pkg/seaice:
321      - add few stop (B-grid & CS-exch, B-grid & obcs, AUTODIFF & SEAICE_maskRHS)
322      - add parenthesis in Water-Ice drag calculations (evp & lsr);
323      - in seaice_lsr.F, simplify and fix AA3 setting in case sNx or sNy=1;
324        and fix case SEAICE_waterDrag=0 (but unstable if no or little seaice)
325      - update output of test exp lab_sea that uses evp or lsr (fwd+ad)
326        and global_ocean.cs32x15 (icedyn & seaice fwd+ad).
327    o pkg/layers:
328      - Include potential density as new coordinate (Thanks to David Munday)
329    o pkg/dic:
330      - Remove subroutine CALC_PCO2_APPROX_CO3 from carbon_chem.F and add
331        carbonate computation/output to CALC_PCO2_APPROX
332    o pkg/generic_advdiff
333      - make TAF generate code that vectorizes:
334        gad_dst3fl_adv_*.F, gad_u3c4_impl_r.F
335    o model/src:
336      - improve vectorization also for adjoint code of
337        solve_tridiagonal and solve_pentadiagonal. As this requires up to
338        5 new 3D-fields, this code is only turned on for the combination of
339        ALLOW_AUTODIFF_TAMC and TARGET_NEC_SX. Also remove error message
340        for singular matrix check (only for TARGET_NEC_SX).
341      - remove hard-wiring of CPP-flag ALLOW_SOLVERS_KLOOPINSIDE to
342        ALLOW_AUTODIFF. This flag now needs to be set outside of
343        solve_tri/pentadiagonal.F
344    o pkg/exf:
345      - fix previous modif in exf_readparms.F (revision 1.66: treatment of
346        optional namelist EXF_NML_OBCS).
347      - add many debug-print (to trace down where pkg/cal error msg comes from)
348    o pkg/mom_vecinv/mom_vi_hdissip.F
349      - rearrange loops so that vectorization is improved and in particular
350        the adjoint routine vectorizes. The code is a little longer now, but I
351        think easier to read.
352        Note: CPP-flag MOM_VI_ORIGINAL_VISCA4 is not tested.
353    o pkg/seaice:
354      - allow to specify initial seaice velocity from files (uIceFile,vIceFile)
355    o pkg/exch2:
356      - alternative code (without tile x tile matrix) for cumulated (global) sum;
357        used as default; keep using matrix version in adjustment.cs-32x32x1.
358    o tools/build_options:
359      - after merging some MPI and/or multi-threads specific optfiles so that
360        the modified default optfile support both built (using genmake2 -mpi
361        for the MPI built, using genmake2 -omp for OpenMP built),
362        move now obsolete optfiles to tools/build_options/unsupported/
363       (add copy of email sent to support list in doc/optfiles_changes.txt)
364    
365    checkpoint63c (2011/09/28)
366    o pkg/ebm:
367      - fix ebm_zonalmean.F for several procs in Ydir (nPy > 1); update output of
368        test exp. global_ocean_ebm (affects machine truncation, 12 digits for cg2d)
369    o pkg/seaice (SItracer pickup)
370    * Simple code for pickup of SItracer fields (#define ALLOW_SITRACER)
371      To be done:
372      - thorough testing of missing fields in S/R seaice_read_pickup
373      - thorough matching between generic tracers and specific fields used
374        (e.g. volume-weighted age, area-weighted age, salinity, ...)
375    o pkg/grdchk:
376      - all procs calculate and print finite-difference gradient (for testreport)
377      - change description output used by testreport;
378      - AD testing: also compare and report Finite-difference gradient;
379        => update all output_adm*.txt
380    o test exp. global_ocean_ebm:
381      - switch back useRealFreshWaterFlux (no problem anymore with run-off);
382        and turn on exactConserve; update (fwd) output.
383    o pkg/seaice (LSR):
384      - print to STDOUT number of solver iterations at SEAICE_monFreq interval.
385      - modify solver to deal cleanly with u/v switch at face edges (CS-grid):
386        * identical results with non-CS topology (but save up to half of EXCH calls)
387        * no much changes in cs-32 verification tests since no ice at face edges
388         (differences due to convergence criteria, since nb of iterations changed)
389        * expect some differences on lat-lon-cap grid.
390        update FWD results of global_ocean.cs32x15 test exp. (icedyn & seaice)
391    o pkg/exch2:
392      - add new CPP option to disable Cumul-Sum matrix (to save storage when using
393        many tiles); until alternative coding is added, just add a stop.
394    o pkg/kpp:
395      - move ptracer/salt correction to KPP diffusivity from calc_3d_diffusivity.F
396        to S/R KPP_CALC_DIFF_PTR (+ add tracer-index to argument list).
397    o optfiles:
398      - merged few MPI specific (*+mpi*) and multi-threads specific (*+mth) optfiles
399        into corresponding standard one, which now support different build:
400        (when using "genmake2 -mpi" for MPI built, "genmake2 -omp" for OpenMP built)
401      - add "darwin_amd64_gfortran" optfile (initially from Constantinos, tested by Gael)
402    o pkg/obcs (seaice):
403      - add missing EXCH for uIce,vIce after applying OBCS;
404      - remove S/R EXF_SWAPFFIELDS_X/Y , disable S/R EXF_SET_OBCS_X/Y by adding
405        argument = number of levels to S/R EXF_SWAPFFIELDS_XZ/YZ and S/R
406        EXF_SET_OBCS_XZ/YZ ; update obcs_exf_load.F;
407      - fix EXF_SET_OBCS_XZ/YZ for multi-threaded (assuming loaded arrays are shared)
408      - verification exp. seaice_obcs: split domain in 2 tiles ; add SIZE.h_mpi
409        and eedata.mth for MPI and mutlti-threaded testing.
410    o pkg/flt:
411      - make FLT EXCH working with multi-threads (and MPI + multi-threads);
412      - use buffer for floats IO (trajectories & profiles); size set in FLT_SIZE.h;
413      - fix pickup and trajectories + profiles output with multi-threads;
414      - add parameter to select group of fields to write along trajectory and
415        profile (default unchanged);
416      - only call PORT_RAND* function when flt_noise <> 0;
417      - add multi-threaded test for verification exp. flt_example.
418    o eesupp/src:
419      - fix S/R ALL_PROC_DIE for MPI+multi-threads.
420      - USE_OMP_THREADING: check that number of threads (from eedata) matches
421        actual number (from env.var. setting).
422    o pkg/ebm:
423      - fix multi-threading in ebm_area_t.F ; clean-up EBM.h header file.
424      - add multi-threaded test for verification exp. global_ocean_ebm
425    
426    checkpoint63b (2011/08/29)
427    o pkg/ebm:
428      - fix sign of runoff;
429      - update directly forcing fields (Qnet,EmPmR) to use standard
430        external_forcing_surf.F (remove ebm_forcing_surf.F);
431      - avoid loading forcing fields a 2nd time (1rst time from ini_forcing.F);
432      - set either tauThetaClimRelax (in data) or tauThetaZonRelax (in data.ebm)
433        and apply relaxation towards corresponding SST field (2-D map or ZonAver).
434      - update global_ocean_ebm parameters file data and update output (fwd+ad).
435    o verification/matrix_example:
436      - split domain in 8 tiles (2x4); add SIZE.h_mpi and eedata.mth for
437        MPI and mutlti-threaded testing.
438    o pkg/matrix:
439      - change name of S/R MATRIX_INIT to S/R MATRIX_INIT_VARIA ;
440      - fix for multi-tiles (add bi,bj indices to exp/impMatrixCounter);
441      - fix for multi-threaded (remove DATA statement);
442      - use standard DIFFERENT_MULTIPLE function;
443      - add MATRIX_OPTIONS.h
444    o verification/matrix_example:
445       To allow to split the domain in several tiles, change the domain size
446        from 31x31 to 32x32 by adding 1 row (on Southern side) + 1 column (on
447        Western side) of land points.
448    o (*_)write_pickup:
449      - fix few bugs in mypackage_read/write_pickup.F
450      - in MDS_WR_METAFILES calls, replace "myTime" by a local copy into
451        array of length 1 (was caught by compiler syntax-check).
452    o pkg/diagnostics (velocity potential solver):
453      - fix initialisation of main diagonal matrix (for overlap values)
454    o tools/build_options:
455      - towards single optfile for MPI and non-MPI built: merge few +mpi optfile
456        into previously non MPI one (linux_am64 pgf77,open64,pathf90,ifort11)
457      - linux_amd64_gfortran: merge +mpi_generic version into standard optfile:
458        * move IEEE flags to DEVEL section; take IEEE flags from +mpi_generic ;
459        * FAST case: for now, keep -O3 with ini_masks_etc.F in NOOPTFILES list;
460        and use "-devel" testreport option for standard testing on baudelaire.
461    o pkg/grdchk:
462      - Assume that all gradient-check position are within the same tile
463        corresponding to global indices (iGloTile,jGloTile) and that
464        positions (i,j indices or nbeg) are local to this tile;
465      - set tile local-indices and proc. number according to tile global-indices;
466      - remove grdchkwhichproc from namelist (retired param);
467      - send adjoint gradient to all procs so that all procs print it to STDOUT;
468      - switch on MPI test for global_ocean.90x40x15 AD test experiment.
469    o adding package bbl (Bottom Boundary Layer)
470      description in MITgcm/pkg/bbl/bbl_description.tex
471      example/test experiment in MITgcm_contrib/bbl
472    o adjoint verifications
473      - changed 5 experiments to multi-tiles
474        * global_ocean.90x40x15
475        * obcs_ctrl
476        * offline_exf_seaice
477        * tutorial_dic_adjoffline
478        * tutorial_tracer_adjsens
479        changed reference output for those that crossed tile boundaries
480        (changed choices of gradient check positions)
481      - with same tiling, switch on MPI test for the last 4 (add SIZE.h_mpi)
482      - temporary bug fix in grdchk_loc.F for obcs
483    o genmake2 & testreport
484      - add target "obj" (just for OBJFILES files) to Makefile;
485      - add option to specify FEXTRAFLAGS on command line.
486    o pkg/mypackage:
487      - remove bi,bj arguments from argument list of S/R MYPACKAGE_CALC_RHS
488    
489    checkpoint63a (2011/08/02)
490    o pkg/diagnostics (velocity potential):
491      - fix velocity-potential calculation when using OBCS: balance net inflow
492        at each level (new S/R OBCS_DIAG_BALANCE).
493      - fix some of the problems with OBCS in stream-function calculation.
494    o pkg/exf/exf_readparms.F
495      - make treatment of optional namelists (EXF_NML_04, EXF_NML_SGRUNOFF,
496        EXF_NML_OBCS) more consistent, so that you need not have these lists
497        in data.exf when they are not used.
498    o optim/optim_readdata.F:
499      - add some output about obcs variables that might help debugging
500      - add a check about nvarlength
501    o pkg/ctrl: once again, fix computation of endrec in s/r ctrl_init_rec
502    o pkg/diagnostics (velocity potential):
503      - fix mask for OBCS (still problems in stream-function with OBCS);
504      - add specific parameter (default = main code CG2D params) for solver;
505      - in case of poor convergence, use solution corresponding to lowest residual.
506    o pkg/seaice/seaice_growth.F: small changes that permit vectorizable
507      adjoint code. In general statements like tmpscal=fld(i,j) are problematic
508      and should be avoided where possible.
509    o model/src (rStar):
510      - include r* effect on reference-state (PhiRef) in totPhiHyd
511        (so that it's really the potential anomaly at the cell center);
512        affect solution only if z* with full pressure in EOS.
513      - test-exp global_ocean.90x40x15: reduce viscA4 (was not stable) and
514        update output (because of z* in totPhiHyd and viscA4 changes);
515      - keep the previous diagnostics as "PHIHYDcR" (closer to potential anomaly
516        @ constant r) until interpolation at constant r is implemented.
517    o pkg/diagnostics
518      - fix RCENTER diagnostics in case cell center is not at interface middle
519    o add code for TEOS-10 (www.teos-10.org, McDougall et al. 2011). Use
520      this eos with eosType = 'TEOS10', in data (PARM01). This eos implies
521      that THETA and SALT are "conservative temperature" and "absolute
522      salinity"
523    o pkg/ctrl
524      - fix computation of endrec in s/r ctrl_init_rec
525      - ctrl_pack/unpack_*: remove unused variables and some obsolete code
526    o pkg/seaice/seaice_growth.F
527      - fix recomputation with FENTY_AREA_EXPANSION_CONTRACTION code,
528        remove then obsolete STORE directives
529      - fix STORE directives for tice and tices, so that only the
530        appropriate part of the fields are stored (and not the entire
531        field); update global_ocean.cs32x15.seaice AD output.
532      - cosmetic changes: adjust CPP flags and indentation for better
533        legibilty
534    o pkg/autodiff: add mnc-output of adBottomDragFld (code contributed by
535      Chris Wilson)
536    o pkg/gmredi:
537       Add Sub-Meso Eddies parameterisation from Baylor (for now, disabled with TAF),
538       and test it in verification exp. "front_relax.bvp" (update output.bvp.txt)
539    
540    checkpoint63  (2011/07/11)
541    o pkg/exch2:
542     - rename+move: nTiles in W2_EXCH2_PARAMS.h --> exch2_nTiles in W2_EXCH2_TOPOLOGY.h
543     - exch2 version of Cumul-Sum routine: S/R W2_SET_MAP_CUMSUM set up the
544       (2*nTiles)x(nTiles) Cumul-Sum matrix and Master Proc collects all tiles X,Y
545       increments, calculates Cumul-Sum @ tile origin and sends results to each tile.
546    o pkg/diagnostics:
547     - deal with pairs of post-processed diags which are computed together; in
548       particular, re-order list of diags within 1 file to save 2nd computation.
549     - add S/R to compute velocity stream-function (called after velocity-potential
550       calculation) from divergence free transport -> new diagnostics "PsiVEL".
551     - add parameter to select grid-point location where PsiVEL == 0.
552    o eesupp/src:
553       new S/R to calculate cumulated sum on tiled array, corner grid-cell location
554       (specific S/R needed with exch2 topology - for now, just print an error msg)
555    o pkg/shelfice
556     - Implement friction velocity-dependent transfer coefficients following
557       Holland and Jenkins, JPO, 1999
558       Original code by M. Losch with small modifs.
559       Enable with CPP option SHI_ALLOW_GAMMAFRICT
560       and runtime flag SHELFICEuseGammaFrict
561    o verification lab_sea & global_ocean.cs32x15:
562     - use tools/xmakedepend (instead of cyrus_makedepend, in genmake_local):
563       does not miss some dependencies (but is slower) and also works with many files
564       (default makedepend limitation for AD built).
565     - use cyrus_makedepend in adjustment.128x64x1 (so that it still tested).
566    o pkg/diagnostics:
567     - add run-time parameter "useMissingValue" (def=False) to fill land-point
568        (i.e., where mask=0) with MissingValue ; used only in MNC output file.
569       This replaces CPP-option DIAGNOSTICS_MISSING_VALUE.
570     - Extend the use of "missing_value" setting from data.diagnostics for the case
571       of counter-diagnostics (where fraction-weight is zero). This applies both to
572       MNC and MDS output files.
573    o pkg/seaice/seaice_growth.F:
574      - add 'a priori' cap of latent heat flux based on actual mass considerations
575        when SEAICE_ADD_SUBLIMATION_TO_FWBUDGET is used in conjunction with the
576        non-legacy seaice_solve4temp.
577      - add diagnostic of the residual sublimation freshwater flux (the freshwater
578        flux taken from the ocean if the total actual latent heat fluxes exceed
579        the maximum)
580      - remove the CPP switch around the *_FWbySublim unit change and move diagnostic
581       fill for SIatmQnt, SIfwSubl, SIatmFW to the end of seaice_growth.F.
582      - add diagnostic of the actual sublimation freshwater flux (that is 0. ifndef
583       SEAICE_ADD_SUBLIMATION_TO_FWBUDGET) and of the latent heat flux (evap+sublim).
584      - bug fix : frWtrAtm needs a_FWbySublim ifdef SEAICE_ADD_SUBLIMATION_TO_FWBUDGET.
585      - bug fix : missing part to Martin's r_FWbySublim pathological case fix.
586    o verification 1D_ocean_ice_column:
587       made model domain truly 1x1x23 instead of 5x5x23 with only center cell (3,3,:) wet
588       update results
589    o pkg/diagnostics:
590     - Implement setting of "Post-Processed" diagnostics (corresponding to gdiag(5)='P')
591       which are not filled-up but computed from other diags ; In this case, the mate
592       diag points to the primary (filled-up) diag to used for post processing.
593     - Update Velocity-potential computation using post-processed diag framework.
594     ==> Change the ordering of fields and time-periods in MDS output file
595       when using periodic averaging: now writes one time record with the full set
596       of fields for this time period, then the next time reccord (it used to be
597       one field with the full set of time records then the next field).
598         Note: this is now similar to NetCDF (MNC) output file. <==
599    
600    checkpoint62z (2011/06/21)
601    o adjoint monitor:
602     - Add adjoint monitor output for packages exf, seaice
603       and update relevant testreport output
604    o pkg/seaice:
605     - re-order diags inits so that they appear in order in available_diagnostics.log
606     - added diags: hsnow thermo. rates of change, area preceeding ridiging process,
607       area/heff/hsnow preceeding thermodynamic growth/melt.
608     - modified diag: SIdA; output actual effect, as the description states.
609     - modified description: SIqneti, SIqneto, SIuheff, SIvheff, SIdAb*, HSNOW.
610     - retired redundant diags: SIyneg, SIfice, SIsnwice, SIthdgrh.
611       (SIyneg->SIdHbOCN; SIfice->SIdHbATC; SIsnwice->SIdHbFLO;
612        and SIthdgrh->SIdHbOCN+SIdHbATC+SIdHbATO)
613     - modified diags (2) : switch all SIdA*, SIdH*, SIdS* from delta to rates.
614     - added diagnostics for seaice generic tracers (SItr*).
615     - added SItrUnit and SItrNameLong run time param (for SItr* diags).
616     - in diag names, replaced 'PrTh' abbrev. of 'preceeding thermo' with 'PT'.
617     I. Fenty: 18-Jun-2011:
618     Minor changes to seaice package:
619     1) Retired old variables (A22, SEAICE_lhsublim, areaMax, areaMin, hiceMin) and
620        added some new ones (SEAICE_area_reg, SEAICE_hice_reg, SEAICE_area_floor)
621       - Differentiated "regularization variables" from "floor variables"
622        * areaMin became SEAICE_area_reg (old A22) and SEAICE_area_floor
623        * hiceMin became SEAICE_hice_reg (old hiceMin)
624          (with _reg meaning regularization variable)
625       - SEAICE_lhSublim becomes lhSublim, the sum of SEAICE_lhEvap and SEAICE_lhFusion
626        so as to ensure energy conservation when going between phases
627      - A22 was not used anywhere
628     2) Changed regularization procedure for heffActual and hsnowActual to ensure
629        well-boundedness and smooth adjoint in seaice_growth.F
630     3) Fixed a bug where seaice_solve4temp would not recognize ice-free grid cells
631        because the old regularization always set heffActual >= 0.05 cm
632     4) Changed the model so that the default behavior is to put a small (10^-5) "floor"
633        on AREA when HEFF > 0.
634      - went from requiring ALLOW_PRECLUDE_INFINITESIMAL_AREA to be defined to
635        requiring that DISABLE_AREA_FLOOR *not* be defined
636     Affected verifications:
637      - 1D_ocean_ice_column (output.txt output_adm.txt)
638      - global_ocean.cs32x15 (output.seaice.txt output_adm.seaice.txt)
639    o pkg/diagnostics:
640      - move MNC code from diagnostics_out.F into new diagnostics_mnc_out.F (2 S/R).
641      - rename S/R GETDIAG to DIAGNOSTICS_GET_DIAG and change type of 1rst argument
642        (was _RL, now integer) with option = 0 to retrieve all levels.
643      - add pieces of code to compute velocity potential at each level (new diagnostics
644        PhiVEL, works only when UVELMASS & VVELMASS are also turned on);
645        for now, using same params as CG2D (target-resisual, max Nb of iter ...).
646      - fix few issues with counter diagnostics in diagnostics_setdiag.F &
647        diagstats_setdiag.F (if diagnostic counter is itself a counter diag)
648        and in diagnostics_fract_fill.F (do not need a valid pointer for the
649        diagnostics counter-mate); check that definition of counter-diagnostic
650        includes a valid counter-mate (in diagnostics_set_levels.F).
651    o model/src (rStar):
652      - add rStar scaling factor in diags_phi_hyd.F (similar to calc_grad_phi_hyd.F);
653        affect solution only if z* with full pressure in EOS;
654        update output of test-exp global_ocean.90x40x15.
655    o pkg/seaice:
656      - introduce siEps=1e-5 parameter
657      - use areaMax in AREA update (part 4), consistent with ridging step (part 2.5).
658      - re-organize SEAICE_ADD_SUBLIMATION_TO_FWBUDGET code.
659      - introduce ALLOW_SITRACER and seaice_tracer_phys.F to handle generic seaice tracer.
660        For now it covers, and was tested for, ice salinity and age (attached to HEFF),
661        as well as ice cover age and ridging index (attached to AREA).
662        For now the run time parameters (in data.seaice/SEAICE_PARM03) are
663        SItrName (e.g. 'age') and SItrMate ('HEFF', which is the default, or 'AREA').
664        Up to SItrMaxNum=3 tracers can be used simultaneously.
665    o pkg/salt_plume:
666      -introduce SPsalFRAC run time parameter that sets the fraction of the
667       salt by-product of ice growth (SPsalFRAC*(1-SIsalFRAC)*salt typically)
668       that gets vertically redistributed (fluxed down) by pkg/salt_plume.
669    o model debug options:
670      - Switch reading of debugMode from S/R INI_PARMS (parameter file "data", stored
671        in PARAMS.h) to S/R EESET_PARMS (parameter file "eedata", stored in EEPARAMS.h).
672      - Refine debug-msg printing selection (3 new levels):
673        debugMode  : controls printing of debug messages (sequence of S/R calls).
674        debugLevel : controls printing of algorithm-relevant auxiliary/debug messages
675         debLevZero =  0 ; /* level of disabled aux. msg printing */
676         debLevA =  1 ; /* level of minimum  aux. msg printing */
677         debLevB =  2 ; /* level of low aux. print (report read-file opening)*/
678         debLevC =  3 ; /* level of moderate debug prt (most pkgs debug msg) */
679         debLevD =  4 ; /* level of enhanced debug prt (add DEBUG_STATS prt) */
680         debLevE =  5 ; /* level of extensive debug printing */
681        New debugLevel default: with default debugMode value (=F),
682          = 2 (debLevB) or = 1 (debLevA) in case ALLOW_AUTODIFF is defined.;
683          and if debugMode=T, default debugLevel = 4 (debLevD).
684        Relation with previous settings:
685         debLevB (=2) corresponds to former debLevA (=1)
686         debLevD (=4) corresponds to former debLevB (=2)
687        Note:
688         a) if debugLevel=0, skip WRITE_GRID call when nIter0 > 0 (same as before);
689         b) default debugLevel=1 is convenient in AD runs (avoid many file opening msgs);
690            to recover previous default, set debugLevel=2 (e.g. AD-test hs94.1x64x5)
691      - Add new parameter (printResidualFreq, read from PARM02 namelist) to print
692        detailed CG solvers convergence; off (=0) by default, except if debugLevel=5.
693    o pkg/obcs:
694      - change OBCSfixTopo default from True to False (should not change the results);
695        keep OBCSfixTopo=T in verification-exp. seaice_obcs.
696    o pkg/thsice:
697      - fix bug in thsice_calc_thickn.F (was introduced in version 1.18) in
698        2nd layer seaice sublimation (unlikely to happen)
699      - use Interior mask for OBCS in thsice_advection.F (similar to what is
700        done in gad_advection & seaice_advection).
701    o adjoint:
702      bug fix spotted by Gael Forget:
703      seaice_advection and thsice_advection still had
704      legacy CPP options to avoid CS corner updates for adjoint
705    o pkg/seaice:
706      => Change some of the defaults (2011/05/29):
707         - change SEAICEuseFluxForm default (from False to True)
708         - change DIFF1 default (from 0.004 m/s to 0. m/s)
709         And print warnings if DIFF1 is not set in data.seaice and centered
710          avection scheme is used without any diffusion.
711      also:
712      - fix seaice_diffusion calls in default AdvScheme part of seaice_advdiff.F;
713      - set SEAICEdiffKh[] default in the same way as SEAICEadvSch[]
714      - stop if DIFF1<>0 with SEAICEadvScheme <> 2, if DIFF1<>0 with any
715        other non-zero SEAICEdiffKh[] diffusivity, if SEAICEadvSalt=T with
716        #undef SEAICE_VARIABLE_SALINITY, if SEAICEadvAge=T with #undef SEAICE_AGE.
717      update results of test exp.:
718         lab_sea: output.fd (switch to AdvScheme=33 with diffKh=20)
719             output.hb87, output_adm.evp (SEAICEuseFluxForm=T and diffKh=200)
720             output_adm.noseaicedyn (SEAICEuseFluxForm=T)
721         offline_exf_seaice: output.seaicetd, output_adm (SEAICEuseFluxForm=T)
722         seaice_obcs: output (SEAICEuseFluxForm=T)
723      and prescribe old default for SEAICEuseFluxForm (=F) and DIFF1 (=0.004)
724          for standard fwd & AD lab_sea tests (to keep the same output).
725    o pkg/seaice/seaice_growth.F:
726      - use Ian Fenty's capping formulas for actual ice
727      thickness thoughout EVOLUTION branch.
728      - put treatment pathological case #2) in CPP brackets
729      (ALLOW_AVOID_INFINITESIMAL_AREA, undef by default).
730      - update global_ocean.cs32x15 and 1D_ocean_ice_colum results accordingly.
731    o pkg/seaice:
732      - seaice_diffusion.F : remove the min(DX,DY) factor permanently;
733      pass the Laplacian diffusivity (in m^2/s) diffKh as a parameter;
734      also pass fac as a param, which can be 1. (to update the tendency
735      field) or the time step (to update the field itself).
736      - seaice_advdiff.F: for multidim, call seaice_diffusion with
737      e.g. SEAICEdiffKhHeff and with fac=1; for single-dim, call
738      seaice_diffusion with e.g. SEAICEdiffKhHeff and with fac=time step.
739      - SEAICE_PARAMS.h, seaice_readparms.F, seaice_check.F :
740      hooks to handle SEAICEdiffKhHeff, SEAICEdiffKhArea, etc.
741    o pkg/seaice:
742      diffusion with centered advection scheme (diffus.F & advect.F):
743      - simplify S/R DIFFUS (put deltaT & DIFF1 factor outside, move EXCH outside)
744        to just compute the laplacian of input-field.
745      - unroll k loop (harmonic,biharmonic diff) in advect.F to save 1 exch call.
746      - fix flux-form version in diffus.F to conserve tracer.
747      update output of lab_sea.fd & lab_sea.hb87 (1rst set of modif affects
748       machine truncation) and lab_sea.salt_plume (conservative flux-form modif)
749    
750    checkpoint62y (2011/05/26)
751    o pkg/seaice:
752     - seaice_growth.F : in EVOLUTION branch, always include
753       a_QSWbyATM_cover in qnet (as it should be).
754     - verification/global_ocean.cs32x15 : update results accordingly
755       (output.seaice.txt output_adm.seaice.txt).
756    o pkg/seaice + obcs:
757     - use maskInW & maskInS in multi-dim advection and biharmonic diffusion:
758       equivalent of assuming no tracer gradient outside the OB region.
759       update output of seaice_obcs (uses DIFF1 <>0 => biharmonic diffusion)
760     - remove calls to OBCS_COPY_TRACER after EXCH calls (no longer needed
761       after changes above);
762     - obcs+seaice cleaning: apply seaice-tracer OB values to tracer field
763       only at OB location (instead of over a band of OLx width).
764    o pkg/seaice:
765     - fix wrong indices in old (non Flux-Form) diffusion default S/R diffus.F
766       (dxG(I+1, ...) changed to dxG(I, ...), no impact on Lat-Lon grid)
767    o pkg/obcs:
768      - split header file "OBCS.h" into 4 separated files:
769        OBCS_PARAMS.h, OBCS_GRID.h, OBCS_FIELDS.h & OBCS_SEAICE.h
770       Note: OBCS_PARAMS.h & OBCS_GRID.h can be included without OBCS_OPTIONS.h
771         (contain no conditional statement which depends on OBCS options).
772      - move "useOBCSYearlyFields" from "data.obcs" (hold in OBCS_PARAMS.h)
773        to parameter file "data.exf", namelist EXF_NML_OBCS (in EXF_PARAM.h).
774    o ctrl, cost, grdchk & autodiff pkgs:
775      - make options file more standard (like other {PKG}_OPTIONS.h file but
776        with AD_CONFIG.h); clean-up some of the included header files.
777    o pkg/obcs:
778      - do not mask tracer when applying OB (tracer == 0 could generate problems)
779      - apply tracer OB values to tracer field only at OB location (instead of
780        over a band of OLx width)
781      - clean-up obcs_apply_w.F & obcs_apply_eta.F (since less calls to these S/R)
782      - remove OBCS_MULTIDIM_OLD_VERSION code in gad_advection.F and remove
783        obcs_apply_tloc.F & obcs_apply_sloc.F
784    o obcs in model/src:
785      - call OBCS_APPLY_W only if NonHydrostatic.
786      - call OBCS_APPLY_ETA only if NonLinFreeSurf.
787      - reset dEtaHdt and wVel to zero outside OB interior region ;
788      - leave tracer unchanged outside OB interior region: This has no effect
789        on the solution but just to prevent unrealistic tracer value outside OB.
790      - zero out velocity outside OB interior region: This has no effect on
791        the solution but just to prevent unrealistic velocity outside OB.
792    o obcs and non-lin free-surf:
793       move call to OBCS_APPLY_R_STAR from update_r_star.F to calc_r_star.F
794       and call to OBCS_APPLY_SURF_DR from update_surf_dr.F to calc_surf_dr.F
795       + add argument "etaFld" to OBCS_APPLY_R_STAR & OBCS_APPLY_SURF_DR:
796       this fixes missing EXCH + get consistent eta OB value (+ fix restart).
797       update results of test-exp. exp4(nlfs).
798  o exp4 (nlfs) test-exp:  o exp4 (nlfs) test-exp:
799     use OBC for Eta at Western & Eastern OB (to test prescribing Eta     use OBC for Eta at Western & Eastern OB (to test prescribing Eta
800     with NonLin-FreeSurf); update output.nlfs.txt     with NonLin-FreeSurf); update output.nlfs.txt
# Line 11  o obcs and 2d/3d solver norm: Line 802  o obcs and 2d/3d solver norm:
802     use interior masks (maskInC) to cancel out cg2d & cg3d matrix coeff at OB     use interior masks (maskInC) to cancel out cg2d & cg3d matrix coeff at OB
803     and outside OB interior region (will allow to place OB further inside the     and outside OB interior region (will allow to place OB further inside the
804     domain). Depending on the domain, can affects cg2d-Norm (previous     domain). Depending on the domain, can affects cg2d-Norm (previous
805     cancelation outside OB was only partial), e.g. in exp4 & obcs_ctrl,     cancellation outside OB was only partial), e.g. in exp4 & obcs_ctrl,
806     and cg3d-Norm (previous Norm was computed before canceling OB terms),     and cg3d-Norm (previous Norm was computed before canceling OB terms),
807     e.g. in tutorial_plume_on_slope.     e.g. in tutorial_plume_on_slope.
808    - update output of exp.: exp4 (x2), obcs_ctrl and tutorial_plume_on_slope.    - update output of exp.: exp4 (x2), obcs_ctrl and tutorial_plume_on_slope.
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