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revision 1.1312 by mlosch, Fri Oct 15 15:18:20 2010 UTC revision 1.1527 by jmc, Sun Nov 6 20:09:10 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/thsice:  checkpoint63e (2011/11/06)
8    - vectorize thsice_solve4temp and thsice_get_exf.  o pkg/seaice adjoint of LSR:
9      - substantially rework STORE dirs.
10      - add new flag SEAICE_LSR_ADJOINT_ITER and parameter SOLV_MAX_FIXED
11        this flag will do SOLV_MAX_ITERS but only store SOLV_MAX_FIXED fields
12        and only perform SOLV_MAX_FIXED adjoint iters.
13        If flag SEAICE_LSR_ADJOINT_ITER is undef-ined, the store in the iteration
14        always goes to same record, meaning that the last forward field will be
15        the one used in the adjoint - an approximation.
16      - now produces non-zero LSR-related gradients, and acceptable gradients for
17        An's zonal (x-z) test case (to be checked in)
18      - lab_sea: produces acceptable gradients for lab_sea with forward/backward LSR
19        (but these are screwed up by the thermodynamics in the first place);
20        reduce from 4 to 3 timesteps to avoid t.d. issue as temporary solution;
21        output_adm.txt also reflects changes to seaice_lsr
22      - global_ocean.cs32x15:
23        * the "default" input_ad.seaice has been re-defined to always exclude dynamics
24          (output_adm.seaice.txt was updated)
25        * new input_ad.seaice_dynmix tests a forward LSR / backward free-drift
26          (output_adm.seaice_dynmix.txt)
27    o test-exp. exp4+stevens:
28      - switch off pTracers and nonHydrostatic (restart problems with NH); update output
29    o pkg/seaice (lsr solver):
30      - put coriolis term into FORCEX,Y (as in seaice_evp.F; previously in rhsU,V only);
31        update output (change truncation) of FWD test exp lab_sea & global_ocean.cs32x15
32      - fix SEAICEuseFREEDRIFT for new OBCS version (ndef OBCS_UVICE_OLD)
33      - new parameter "LSR_mixIniGuess" allows (if=2,4) to mix free-drift solution
34        into initial guess for linearised solver; use weight ~ (1/err)^2,4.
35      - compute (with new S/R) and print initial (+ free-driff sol. if available)
36        and final residual of linearised system.
37    o pkg/pp81: add diagnostics for vertical eddy viscosity and diffusivity
38      (requires new subroutines pp81_init_fixed.F/pp81_diagnostics_init.F)
39    o pkg/obcs: Stevens BCs (still only for east and west)
40      - fix Stevens BCs by using intermediate velocities of previous
41        time step as "baroclinic" contribution rather velocity of one grid cell
42        inside the boundaries; more consistent but makes the entire treatment
43        more complicated, requires new pickup files and two new S/Rs:
44        obcs_copy_uv_n and obcs_save_uv_n
45        keep old version with flag OBCS_STEVENS_USE_INTERIOR_VELOCITY
46        (undefined by default)
47      - silently move computation of some grid factors into separate loops to
48        save some recomputations
49      - add a hack for non-linear free surface
50      - add a verification experiment to exp4 that tests this code
51    o make gluemnc/xplodemnc work with (moron) non-GNU shell tools
52    
53    checkpoint63d (2011/10/25)
54    o pkg/obcs + seaice-dynamics:
55      - new implementation calls OBCS_APPLY_UVICE (in seaice_dynsolver.F) before
56        solving for uIce,vIce and prevent SEAICE_LSR or SEAICE_EVP to modify OB
57        values (consistent with an implicit method).
58      - add option OBCS_UVICE_OLD (in OBCS_OPTIONS.h, defined by default) to
59        return to older implementation (same results as before); note that none of
60        the "experimental" OBCS_SEAICE options are implemented in the new version.
61      - switch test exp. seaice_obcs to use new version (update output).
62    o pkg/seaice:
63      - add few stop (B-grid & CS-exch, B-grid & obcs, AUTODIFF & SEAICE_maskRHS)
64      - add parenthesis in Water-Ice drag calculations (evp & lsr);
65      - in seaice_lsr.F, simplify and fix AA3 setting in case sNx or sNy=1;
66        and fix case SEAICE_waterDrag=0 (but unstable if no or little seaice)
67      - update output of test exp lab_sea that uses evp or lsr (fwd+ad)
68        and global_ocean.cs32x15 (icedyn & seaice fwd+ad).
69    o pkg/layers:
70      - Include potential density as new coordinate (Thanks to David Munday)
71    o pkg/dic:
72      - Remove subroutine CALC_PCO2_APPROX_CO3 from carbon_chem.F and add
73        carbonate computation/output to CALC_PCO2_APPROX
74    o pkg/generic_advdiff
75      - make TAF generate code that vectorizes:
76        gad_dst3fl_adv_*.F, gad_u3c4_impl_r.F
77    o model/src:
78      - improve vectorization also for adjoint code of
79        solve_tridiagonal and solve_pentadiagonal. As this requires up to
80        5 new 3D-fields, this code is only turned on for the combination of
81        ALLOW_AUTODIFF_TAMC and TARGET_NEC_SX. Also remove error message
82        for singular matrix check (only for TARGET_NEC_SX).
83      - remove hard-wiring of CPP-flag ALLOW_SOLVERS_KLOOPINSIDE to
84        ALLOW_AUTODIFF. This flag now needs to be set outside of
85        solve_tri/pentadiagonal.F
86    o pkg/exf:
87      - fix previous modif in exf_readparms.F (revision 1.66: treatment of
88        optional namelist EXF_NML_OBCS).
89      - add many debug-print (to trace down where pkg/cal error msg comes from)
90    o pkg/mom_vecinv/mom_vi_hdissip.F
91      - rearrange loops so that vectorization is improved and in particular
92        the adjoint routine vectorizes. The code is a little longer now, but I
93        think easier to read.
94        Note: CPP-flag MOM_VI_ORIGINAL_VISCA4 is not tested.
95    o pkg/seaice:
96      - allow to specify initial seaice velocity from files (uIceFile,vIceFile)
97    o pkg/exch2:
98      - alternative code (without tile x tile matrix) for cumulated (global) sum;
99        used as default; keep using matrix version in adjustment.cs-32x32x1.
100    o tools/build_options:
101      - after merging some MPI and/or multi-threads specific optfiles so that
102        the modified default optfile support both built (using genmake2 -mpi
103        for the MPI built, using genmake2 -omp for OpenMP built),
104        move now obsolete optfiles to tools/build_options/unsupported/
105       (add copy of email sent to support list in doc/optfiles_changes.txt)
106    
107    checkpoint63c (2011/09/28)
108    o pkg/ebm:
109      - fix ebm_zonalmean.F for several procs in Ydir (nPy > 1); update output of
110        test exp. global_ocean_ebm (affects machine truncation, 12 digits for cg2d)
111    o pkg/seaice (SItracer pickup)
112    * Simple code for pickup of SItracer fields (#define ALLOW_SITRACER)
113      To be done:
114      - thorough testing of missing fields in S/R seaice_read_pickup
115      - thorough matching between generic tracers and specific fields used
116        (e.g. volume-weighted age, area-weighted age, salinity, ...)
117    o pkg/grdchk:
118      - all procs calculate and print finite-difference gradient (for testreport)
119      - change description output used by testreport;
120      - AD testing: also compare and report Finite-difference gradient;
121        => update all output_adm*.txt
122    o test exp. global_ocean_ebm:
123      - switch back useRealFreshWaterFlux (no problem anymore with run-off);
124        and turn on exactConserve; update (fwd) output.
125    o pkg/seaice (LSR):
126      - print to STDOUT number of solver iterations at SEAICE_monFreq interval.
127      - modify solver to deal cleanly with u/v switch at face edges (CS-grid):
128        * identical results with non-CS topology (but save up to half of EXCH calls)
129        * no much changes in cs-32 verification tests since no ice at face edges
130         (differences due to convergence criteria, since nb of iterations changed)
131        * expect some differences on lat-lon-cap grid.
132        update FWD results of global_ocean.cs32x15 test exp. (icedyn & seaice)
133    o pkg/exch2:
134      - add new CPP option to disable Cumul-Sum matrix (to save storage when using
135        many tiles); until alternative coding is added, just add a stop.
136    o pkg/kpp:
137      - move ptracer/salt correction to KPP diffusivity from calc_3d_diffusivity.F
138        to S/R KPP_CALC_DIFF_PTR (+ add tracer-index to argument list).
139    o optfiles:
140      - merged few MPI specific (*+mpi*) and multi-threads specific (*+mth) optfiles
141        into corresponding standard one, which now support different build:
142        (when using "genmake2 -mpi" for MPI built, "genmake2 -omp" for OpenMP built)
143      - add "darwin_amd64_gfortran" optfile (initially from Constantinos, tested by Gael)
144    o pkg/obcs (seaice):
145      - add missing EXCH for uIce,vIce after applying OBCS;
146      - remove S/R EXF_SWAPFFIELDS_X/Y , disable S/R EXF_SET_OBCS_X/Y by adding
147        argument = number of levels to S/R EXF_SWAPFFIELDS_XZ/YZ and S/R
148        EXF_SET_OBCS_XZ/YZ ; update obcs_exf_load.F;
149      - fix EXF_SET_OBCS_XZ/YZ for multi-threaded (assuming loaded arrays are shared)
150      - verification exp. seaice_obcs: split domain in 2 tiles ; add SIZE.h_mpi
151        and eedata.mth for MPI and mutlti-threaded testing.
152    o pkg/flt:
153      - make FLT EXCH working with multi-threads (and MPI + multi-threads);
154      - use buffer for floats IO (trajectories & profiles); size set in FLT_SIZE.h;
155      - fix pickup and trajectories + profiles output with multi-threads;
156      - add parameter to select group of fields to write along trajectory and
157        profile (default unchanged);
158      - only call PORT_RAND* function when flt_noise <> 0;
159      - add multi-threaded test for verification exp. flt_example.
160    o eesupp/src:
161      - fix S/R ALL_PROC_DIE for MPI+multi-threads.
162      - USE_OMP_THREADING: check that number of threads (from eedata) matches
163        actual number (from env.var. setting).
164    o pkg/ebm:
165      - fix multi-threading in ebm_area_t.F ; clean-up EBM.h header file.
166      - add multi-threaded test for verification exp. global_ocean_ebm
167    
168    checkpoint63b (2011/08/29)
169    o pkg/ebm:
170      - fix sign of runoff;
171      - update directly forcing fields (Qnet,EmPmR) to use standard
172        external_forcing_surf.F (remove ebm_forcing_surf.F);
173      - avoid loading forcing fields a 2nd time (1rst time from ini_forcing.F);
174      - set either tauThetaClimRelax (in data) or tauThetaZonRelax (in data.ebm)
175        and apply relaxation towards corresponding SST field (2-D map or ZonAver).
176      - update global_ocean_ebm parameters file data and update output (fwd+ad).
177    o verification/matrix_example:
178      - split domain in 8 tiles (2x4); add SIZE.h_mpi and eedata.mth for
179        MPI and mutlti-threaded testing.
180    o pkg/matrix:
181      - change name of S/R MATRIX_INIT to S/R MATRIX_INIT_VARIA ;
182      - fix for multi-tiles (add bi,bj indices to exp/impMatrixCounter);
183      - fix for multi-threaded (remove DATA statement);
184      - use standard DIFFERENT_MULTIPLE function;
185      - add MATRIX_OPTIONS.h
186    o verification/matrix_example:
187       To allow to split the domain in several tiles, change the domain size
188        from 31x31 to 32x32 by adding 1 row (on Southern side) + 1 column (on
189        Western side) of land points.
190    o (*_)write_pickup:
191      - fix few bugs in mypackage_read/write_pickup.F
192      - in MDS_WR_METAFILES calls, replace "myTime" by a local copy into
193        array of length 1 (was caught by compiler syntax-check).
194    o pkg/diagnostics (velocity potential solver):
195      - fix initialisation of main diagonal matrix (for overlap values)
196    o tools/build_options:
197      - towards single optfile for MPI and non-MPI built: merge few +mpi optfile
198        into previously non MPI one (linux_am64 pgf77,open64,pathf90,ifort11)
199      - linux_amd64_gfortran: merge +mpi_generic version into standard optfile:
200        * move IEEE flags to DEVEL section; take IEEE flags from +mpi_generic ;
201        * FAST case: for now, keep -O3 with ini_masks_etc.F in NOOPTFILES list;
202        and use "-devel" testreport option for standard testing on baudelaire.
203    o pkg/grdchk:
204      - Assume that all gradient-check position are within the same tile
205        corresponding to global indices (iGloTile,jGloTile) and that
206        positions (i,j indices or nbeg) are local to this tile;
207      - set tile local-indices and proc. number according to tile global-indices;
208      - remove grdchkwhichproc from namelist (retired param);
209      - send adjoint gradient to all procs so that all procs print it to STDOUT;
210      - switch on MPI test for global_ocean.90x40x15 AD test experiment.
211    o adding package bbl (Bottom Boundary Layer)
212      description in MITgcm/pkg/bbl/bbl_description.tex
213      example/test experiment in MITgcm_contrib/bbl
214    o adjoint verifications
215      - changed 5 experiments to multi-tiles
216        * global_ocean.90x40x15
217        * obcs_ctrl
218        * offline_exf_seaice
219        * tutorial_dic_adjoffline
220        * tutorial_tracer_adjsens
221        changed reference output for those that crossed tile boundaries
222        (changed choices of gradient check positions)
223      - with same tiling, switch on MPI test for the last 4 (add SIZE.h_mpi)
224      - temporary bug fix in grdchk_loc.F for obcs
225    o genmake2 & testreport
226      - add target "obj" (just for OBJFILES files) to Makefile;
227      - add option to specify FEXTRAFLAGS on command line.
228    o pkg/mypackage:
229      - remove bi,bj arguments from argument list of S/R MYPACKAGE_CALC_RHS
230    
231    checkpoint63a (2011/08/02)
232    o pkg/diagnostics (velocity potential):
233      - fix velocity-potential calculation when using OBCS: balance net inflow
234        at each level (new S/R OBCS_DIAG_BALANCE).
235      - fix some of the problems with OBCS in stream-function calculation.
236    o pkg/exf/exf_readparms.F
237      - make treatment of optional namelists (EXF_NML_04, EXF_NML_SGRUNOFF,
238        EXF_NML_OBCS) more consistent, so that you need not have these lists
239        in data.exf when they are not used.
240    o optim/optim_readdata.F:
241      - add some output about obcs variables that might help debugging
242      - add a check about nvarlength
243    o pkg/ctrl: once again, fix computation of endrec in s/r ctrl_init_rec
244    o pkg/diagnostics (velocity potential):
245      - fix mask for OBCS (still problems in stream-function with OBCS);
246      - add specific parameter (default = main code CG2D params) for solver;
247      - in case of poor convergence, use solution corresponding to lowest residual.
248    o pkg/seaice/seaice_growth.F: small changes that permit vectorizable
249      adjoint code. In general statements like tmpscal=fld(i,j) are problematic
250      and should be avoided where possible.
251    o model/src (rStar):
252      - include r* effect on reference-state (PhiRef) in totPhiHyd
253        (so that it's really the potential anomaly at the cell center);
254        affect solution only if z* with full pressure in EOS.
255      - test-exp global_ocean.90x40x15: reduce viscA4 (was not stable) and
256        update output (because of z* in totPhiHyd and viscA4 changes);
257      - keep the previous diagnostics as "PHIHYDcR" (closer to potential anomaly
258        @ constant r) until interpolation at constant r is implemented.
259    o pkg/diagnostics
260      - fix RCENTER diagnostics in case cell center is not at interface middle
261    o add code for TEOS-10 (www.teos-10.org, McDougall et al. 2011). Use
262      this eos with eosType = 'TEOS10', in data (PARM01). This eos implies
263      that THETA and SALT are "conservative temperature" and "absolute
264      salinity"
265    o pkg/ctrl
266      - fix computation of endrec in s/r ctrl_init_rec
267      - ctrl_pack/unpack_*: remove unused variables and some obsolete code
268    o pkg/seaice/seaice_growth.F
269      - fix recomputation with FENTY_AREA_EXPANSION_CONTRACTION code,
270        remove then obsolete STORE directives
271      - fix STORE directives for tice and tices, so that only the
272        appropriate part of the fields are stored (and not the entire
273        field); update global_ocean.cs32x15.seaice AD output.
274      - cosmetic changes: adjust CPP flags and indentation for better
275        legibilty
276    o pkg/autodiff: add mnc-output of adBottomDragFld (code contributed by
277      Chris Wilson)
278    o pkg/gmredi:
279       Add Sub-Meso Eddies parameterisation from Baylor (for now, disabled with TAF),
280       and test it in verification exp. "front_relax.bvp" (update output.bvp.txt)
281    
282    checkpoint63  (2011/07/11)
283    o pkg/exch2:
284     - rename+move: nTiles in W2_EXCH2_PARAMS.h --> exch2_nTiles in W2_EXCH2_TOPOLOGY.h
285     - exch2 version of Cumul-Sum routine: S/R W2_SET_MAP_CUMSUM set up the
286       (2*nTiles)x(nTiles) Cumul-Sum matrix and Master Proc collects all tiles X,Y
287       increments, calculates Cumul-Sum @ tile origin and sends results to each tile.
288    o pkg/diagnostics:
289     - deal with pairs of post-processed diags which are computed together; in
290       particular, re-order list of diags within 1 file to save 2nd computation.
291     - add S/R to compute velocity stream-function (called after velocity-potential
292       calculation) from divergence free transport -> new diagnostics "PsiVEL".
293     - add parameter to select grid-point location where PsiVEL == 0.
294    o eesupp/src:
295       new S/R to calculate cumulated sum on tiled array, corner grid-cell location
296       (specific S/R needed with exch2 topology - for now, just print an error msg)
297    o pkg/shelfice
298     - Implement friction velocity-dependent transfer coefficients following
299       Holland and Jenkins, JPO, 1999
300       Original code by M. Losch with small modifs.
301       Enable with CPP option SHI_ALLOW_GAMMAFRICT
302       and runtime flag SHELFICEuseGammaFrict
303    o verification lab_sea & global_ocean.cs32x15:
304     - use tools/xmakedepend (instead of cyrus_makedepend, in genmake_local):
305       does not miss some dependencies (but is slower) and also works with many files
306       (default makedepend limitation for AD built).
307     - use cyrus_makedepend in adjustment.128x64x1 (so that it still tested).
308    o pkg/diagnostics:
309     - add run-time parameter "useMissingValue" (def=False) to fill land-point
310        (i.e., where mask=0) with MissingValue ; used only in MNC output file.
311       This replaces CPP-option DIAGNOSTICS_MISSING_VALUE.
312     - Extend the use of "missing_value" setting from data.diagnostics for the case
313       of counter-diagnostics (where fraction-weight is zero). This applies both to
314       MNC and MDS output files.
315    o pkg/seaice/seaice_growth.F:
316      - add 'a priori' cap of latent heat flux based on actual mass considerations
317        when SEAICE_ADD_SUBLIMATION_TO_FWBUDGET is used in conjunction with the
318        non-legacy seaice_solve4temp.
319      - add diagnostic of the residual sublimation freshwater flux (the freshwater
320        flux taken from the ocean if the total actual latent heat fluxes exceed
321        the maximum)
322      - remove the CPP switch around the *_FWbySublim unit change and move diagnostic
323       fill for SIatmQnt, SIfwSubl, SIatmFW to the end of seaice_growth.F.
324      - add diagnostic of the actual sublimation freshwater flux (that is 0. ifndef
325       SEAICE_ADD_SUBLIMATION_TO_FWBUDGET) and of the latent heat flux (evap+sublim).
326      - bug fix : frWtrAtm needs a_FWbySublim ifdef SEAICE_ADD_SUBLIMATION_TO_FWBUDGET.
327      - bug fix : missing part to Martin's r_FWbySublim pathological case fix.
328    o verification 1D_ocean_ice_column:
329       made model domain truly 1x1x23 instead of 5x5x23 with only center cell (3,3,:) wet
330       update results
331    o pkg/diagnostics:
332     - Implement setting of "Post-Processed" diagnostics (corresponding to gdiag(5)='P')
333       which are not filled-up but computed from other diags ; In this case, the mate
334       diag points to the primary (filled-up) diag to used for post processing.
335     - Update Velocity-potential computation using post-processed diag framework.
336     ==> Change the ordering of fields and time-periods in MDS output file
337       when using periodic averaging: now writes one time record with the full set
338       of fields for this time period, then the next time reccord (it used to be
339       one field with the full set of time records then the next field).
340         Note: this is now similar to NetCDF (MNC) output file. <==
341    
342    checkpoint62z (2011/06/21)
343    o adjoint monitor:
344     - Add adjoint monitor output for packages exf, seaice
345       and update relevant testreport output
346    o pkg/seaice:
347     - re-order diags inits so that they appear in order in available_diagnostics.log
348     - added diags: hsnow thermo. rates of change, area preceeding ridiging process,
349       area/heff/hsnow preceeding thermodynamic growth/melt.
350     - modified diag: SIdA; output actual effect, as the description states.
351     - modified description: SIqneti, SIqneto, SIuheff, SIvheff, SIdAb*, HSNOW.
352     - retired redundant diags: SIyneg, SIfice, SIsnwice, SIthdgrh.
353       (SIyneg->SIdHbOCN; SIfice->SIdHbATC; SIsnwice->SIdHbFLO;
354        and SIthdgrh->SIdHbOCN+SIdHbATC+SIdHbATO)
355     - modified diags (2) : switch all SIdA*, SIdH*, SIdS* from delta to rates.
356     - added diagnostics for seaice generic tracers (SItr*).
357     - added SItrUnit and SItrNameLong run time param (for SItr* diags).
358     - in diag names, replaced 'PrTh' abbrev. of 'preceeding thermo' with 'PT'.
359     I. Fenty: 18-Jun-2011:
360     Minor changes to seaice package:
361     1) Retired old variables (A22, SEAICE_lhsublim, areaMax, areaMin, hiceMin) and
362        added some new ones (SEAICE_area_reg, SEAICE_hice_reg, SEAICE_area_floor)
363       - Differentiated "regularization variables" from "floor variables"
364        * areaMin became SEAICE_area_reg (old A22) and SEAICE_area_floor
365        * hiceMin became SEAICE_hice_reg (old hiceMin)
366          (with _reg meaning regularization variable)
367       - SEAICE_lhSublim becomes lhSublim, the sum of SEAICE_lhEvap and SEAICE_lhFusion
368        so as to ensure energy conservation when going between phases
369      - A22 was not used anywhere
370     2) Changed regularization procedure for heffActual and hsnowActual to ensure
371        well-boundedness and smooth adjoint in seaice_growth.F
372     3) Fixed a bug where seaice_solve4temp would not recognize ice-free grid cells
373        because the old regularization always set heffActual >= 0.05 cm
374     4) Changed the model so that the default behavior is to put a small (10^-5) "floor"
375        on AREA when HEFF > 0.
376      - went from requiring ALLOW_PRECLUDE_INFINITESIMAL_AREA to be defined to
377        requiring that DISABLE_AREA_FLOOR *not* be defined
378     Affected verifications:
379      - 1D_ocean_ice_column (output.txt output_adm.txt)
380      - global_ocean.cs32x15 (output.seaice.txt output_adm.seaice.txt)
381    o pkg/diagnostics:
382      - move MNC code from diagnostics_out.F into new diagnostics_mnc_out.F (2 S/R).
383      - rename S/R GETDIAG to DIAGNOSTICS_GET_DIAG and change type of 1rst argument
384        (was _RL, now integer) with option = 0 to retrieve all levels.
385      - add pieces of code to compute velocity potential at each level (new diagnostics
386        PhiVEL, works only when UVELMASS & VVELMASS are also turned on);
387        for now, using same params as CG2D (target-resisual, max Nb of iter ...).
388      - fix few issues with counter diagnostics in diagnostics_setdiag.F &
389        diagstats_setdiag.F (if diagnostic counter is itself a counter diag)
390        and in diagnostics_fract_fill.F (do not need a valid pointer for the
391        diagnostics counter-mate); check that definition of counter-diagnostic
392        includes a valid counter-mate (in diagnostics_set_levels.F).
393    o model/src (rStar):
394      - add rStar scaling factor in diags_phi_hyd.F (similar to calc_grad_phi_hyd.F);
395        affect solution only if z* with full pressure in EOS;
396        update output of test-exp global_ocean.90x40x15.
397    o pkg/seaice:
398      - introduce siEps=1e-5 parameter
399      - use areaMax in AREA update (part 4), consistent with ridging step (part 2.5).
400      - re-organize SEAICE_ADD_SUBLIMATION_TO_FWBUDGET code.
401      - introduce ALLOW_SITRACER and seaice_tracer_phys.F to handle generic seaice tracer.
402        For now it covers, and was tested for, ice salinity and age (attached to HEFF),
403        as well as ice cover age and ridging index (attached to AREA).
404        For now the run time parameters (in data.seaice/SEAICE_PARM03) are
405        SItrName (e.g. 'age') and SItrMate ('HEFF', which is the default, or 'AREA').
406        Up to SItrMaxNum=3 tracers can be used simultaneously.
407    o pkg/salt_plume:
408      -introduce SPsalFRAC run time parameter that sets the fraction of the
409       salt by-product of ice growth (SPsalFRAC*(1-SIsalFRAC)*salt typically)
410       that gets vertically redistributed (fluxed down) by pkg/salt_plume.
411    o model debug options:
412      - Switch reading of debugMode from S/R INI_PARMS (parameter file "data", stored
413        in PARAMS.h) to S/R EESET_PARMS (parameter file "eedata", stored in EEPARAMS.h).
414      - Refine debug-msg printing selection (3 new levels):
415        debugMode  : controls printing of debug messages (sequence of S/R calls).
416        debugLevel : controls printing of algorithm-relevant auxiliary/debug messages
417         debLevZero =  0 ; /* level of disabled aux. msg printing */
418         debLevA =  1 ; /* level of minimum  aux. msg printing */
419         debLevB =  2 ; /* level of low aux. print (report read-file opening)*/
420         debLevC =  3 ; /* level of moderate debug prt (most pkgs debug msg) */
421         debLevD =  4 ; /* level of enhanced debug prt (add DEBUG_STATS prt) */
422         debLevE =  5 ; /* level of extensive debug printing */
423        New debugLevel default: with default debugMode value (=F),
424          = 2 (debLevB) or = 1 (debLevA) in case ALLOW_AUTODIFF is defined.;
425          and if debugMode=T, default debugLevel = 4 (debLevD).
426        Relation with previous settings:
427         debLevB (=2) corresponds to former debLevA (=1)
428         debLevD (=4) corresponds to former debLevB (=2)
429        Note:
430         a) if debugLevel=0, skip WRITE_GRID call when nIter0 > 0 (same as before);
431         b) default debugLevel=1 is convenient in AD runs (avoid many file opening msgs);
432            to recover previous default, set debugLevel=2 (e.g. AD-test hs94.1x64x5)
433      - Add new parameter (printResidualFreq, read from PARM02 namelist) to print
434        detailed CG solvers convergence; off (=0) by default, except if debugLevel=5.
435    o pkg/obcs:
436      - change OBCSfixTopo default from True to False (should not change the results);
437        keep OBCSfixTopo=T in verification-exp. seaice_obcs.
438    o pkg/thsice:
439      - fix bug in thsice_calc_thickn.F (was introduced in version 1.18) in
440        2nd layer seaice sublimation (unlikely to happen)
441      - use Interior mask for OBCS in thsice_advection.F (similar to what is
442        done in gad_advection & seaice_advection).
443    o adjoint:
444      bug fix spotted by Gael Forget:
445      seaice_advection and thsice_advection still had
446      legacy CPP options to avoid CS corner updates for adjoint
447    o pkg/seaice:
448      => Change some of the defaults (2011/05/29):
449         - change SEAICEuseFluxForm default (from False to True)
450         - change DIFF1 default (from 0.004 m/s to 0. m/s)
451         And print warnings if DIFF1 is not set in data.seaice and centered
452          avection scheme is used without any diffusion.
453      also:
454      - fix seaice_diffusion calls in default AdvScheme part of seaice_advdiff.F;
455      - set SEAICEdiffKh[] default in the same way as SEAICEadvSch[]
456      - stop if DIFF1<>0 with SEAICEadvScheme <> 2, if DIFF1<>0 with any
457        other non-zero SEAICEdiffKh[] diffusivity, if SEAICEadvSalt=T with
458        #undef SEAICE_VARIABLE_SALINITY, if SEAICEadvAge=T with #undef SEAICE_AGE.
459      update results of test exp.:
460         lab_sea: output.fd (switch to AdvScheme=33 with diffKh=20)
461             output.hb87, output_adm.evp (SEAICEuseFluxForm=T and diffKh=200)
462             output_adm.noseaicedyn (SEAICEuseFluxForm=T)
463         offline_exf_seaice: output.seaicetd, output_adm (SEAICEuseFluxForm=T)
464         seaice_obcs: output (SEAICEuseFluxForm=T)
465      and prescribe old default for SEAICEuseFluxForm (=F) and DIFF1 (=0.004)
466          for standard fwd & AD lab_sea tests (to keep the same output).
467    o pkg/seaice/seaice_growth.F:
468      - use Ian Fenty's capping formulas for actual ice
469      thickness thoughout EVOLUTION branch.
470      - put treatment pathological case #2) in CPP brackets
471      (ALLOW_AVOID_INFINITESIMAL_AREA, undef by default).
472      - update global_ocean.cs32x15 and 1D_ocean_ice_colum results accordingly.
473    o pkg/seaice:
474      - seaice_diffusion.F : remove the min(DX,DY) factor permanently;
475      pass the Laplacian diffusivity (in m^2/s) diffKh as a parameter;
476      also pass fac as a param, which can be 1. (to update the tendency
477      field) or the time step (to update the field itself).
478      - seaice_advdiff.F: for multidim, call seaice_diffusion with
479      e.g. SEAICEdiffKhHeff and with fac=1; for single-dim, call
480      seaice_diffusion with e.g. SEAICEdiffKhHeff and with fac=time step.
481      - SEAICE_PARAMS.h, seaice_readparms.F, seaice_check.F :
482      hooks to handle SEAICEdiffKhHeff, SEAICEdiffKhArea, etc.
483    o pkg/seaice:
484      diffusion with centered advection scheme (diffus.F & advect.F):
485      - simplify S/R DIFFUS (put deltaT & DIFF1 factor outside, move EXCH outside)
486        to just compute the laplacian of input-field.
487      - unroll k loop (harmonic,biharmonic diff) in advect.F to save 1 exch call.
488      - fix flux-form version in diffus.F to conserve tracer.
489      update output of lab_sea.fd & lab_sea.hb87 (1rst set of modif affects
490       machine truncation) and lab_sea.salt_plume (conservative flux-form modif)
491    
492    checkpoint62y (2011/05/26)
493    o pkg/seaice:
494     - seaice_growth.F : in EVOLUTION branch, always include
495       a_QSWbyATM_cover in qnet (as it should be).
496     - verification/global_ocean.cs32x15 : update results accordingly
497       (output.seaice.txt output_adm.seaice.txt).
498    o pkg/seaice + obcs:
499     - use maskInW & maskInS in multi-dim advection and biharmonic diffusion:
500       equivalent of assuming no tracer gradient outside the OB region.
501       update output of seaice_obcs (uses DIFF1 <>0 => biharmonic diffusion)
502     - remove calls to OBCS_COPY_TRACER after EXCH calls (no longer needed
503       after changes above);
504     - obcs+seaice cleaning: apply seaice-tracer OB values to tracer field
505       only at OB location (instead of over a band of OLx width).
506    o pkg/seaice:
507     - fix wrong indices in old (non Flux-Form) diffusion default S/R diffus.F
508       (dxG(I+1, ...) changed to dxG(I, ...), no impact on Lat-Lon grid)
509    o pkg/obcs:
510      - split header file "OBCS.h" into 4 separated files:
511        OBCS_PARAMS.h, OBCS_GRID.h, OBCS_FIELDS.h & OBCS_SEAICE.h
512       Note: OBCS_PARAMS.h & OBCS_GRID.h can be included without OBCS_OPTIONS.h
513         (contain no conditional statement which depends on OBCS options).
514      - move "useOBCSYearlyFields" from "data.obcs" (hold in OBCS_PARAMS.h)
515        to parameter file "data.exf", namelist EXF_NML_OBCS (in EXF_PARAM.h).
516    o ctrl, cost, grdchk & autodiff pkgs:
517      - make options file more standard (like other {PKG}_OPTIONS.h file but
518        with AD_CONFIG.h); clean-up some of the included header files.
519    o pkg/obcs:
520      - do not mask tracer when applying OB (tracer == 0 could generate problems)
521      - apply tracer OB values to tracer field only at OB location (instead of
522        over a band of OLx width)
523      - clean-up obcs_apply_w.F & obcs_apply_eta.F (since less calls to these S/R)
524      - remove OBCS_MULTIDIM_OLD_VERSION code in gad_advection.F and remove
525        obcs_apply_tloc.F & obcs_apply_sloc.F
526    o obcs in model/src:
527      - call OBCS_APPLY_W only if NonHydrostatic.
528      - call OBCS_APPLY_ETA only if NonLinFreeSurf.
529      - reset dEtaHdt and wVel to zero outside OB interior region ;
530      - leave tracer unchanged outside OB interior region: This has no effect
531        on the solution but just to prevent unrealistic tracer value outside OB.
532      - zero out velocity outside OB interior region: This has no effect on
533        the solution but just to prevent unrealistic velocity outside OB.
534    o obcs and non-lin free-surf:
535       move call to OBCS_APPLY_R_STAR from update_r_star.F to calc_r_star.F
536       and call to OBCS_APPLY_SURF_DR from update_surf_dr.F to calc_surf_dr.F
537       + add argument "etaFld" to OBCS_APPLY_R_STAR & OBCS_APPLY_SURF_DR:
538       this fixes missing EXCH + get consistent eta OB value (+ fix restart).
539       update results of test-exp. exp4(nlfs).
540    o exp4 (nlfs) test-exp:
541       use OBC for Eta at Western & Eastern OB (to test prescribing Eta
542       with NonLin-FreeSurf); update output.nlfs.txt
543    o obcs and 2d/3d solver norm:
544       use interior masks (maskInC) to cancel out cg2d & cg3d matrix coeff at OB
545       and outside OB interior region (will allow to place OB further inside the
546       domain). Depending on the domain, can affects cg2d-Norm (previous
547       cancellation outside OB was only partial), e.g. in exp4 & obcs_ctrl,
548       and cg3d-Norm (previous Norm was computed before canceling OB terms),
549       e.g. in tutorial_plume_on_slope.
550      - update output of exp.: exp4 (x2), obcs_ctrl and tutorial_plume_on_slope.
551    o pkg rbcs:
552      - split RBCS.h into 3 files: RBCS_SIZE.h, RBCS_PARAMS.h & RBCS_FIELDS.h
553      - add capability to apply relaxation to horizontal velocity uVel & vVel.
554    o pkg/grdchk: add gradient check for control variable xx_shifwflx
555    o pkg/shelfice/shelfice_init_fixed.F
556      fix CPP-flag combinations
557    o pkg/seaice: Merge iceage code of Pierre Rampal
558      * update/change/correct ice age calculations
559      * add age updates for pathological cases
560      Probably needs more testing...
561    
562    checkpoint62x (2011/05/13)
563    o pkg/mom_vecinv:
564       high-order vorticity scheme: use interior masks (maskInW & S)
565       to zero-out (outside OB) gradient of vorticity.
566    o verification exp.:
567       turn on "useEnergyConservingCoriolis" (better discretisation) in exp.
568       hs94.128x64x5 and seaice_obcs ; update results.
569    o pkg/obcs:
570      fix bug in OBeta for YZ sections in obcs_exf_load.F
571    o pkg/ctrl, pkg/shelfice, and optim:
572      - add new control variable xx_shifwflx (fresh water flux underneath ice
573        shelves). This is almost as tedious as obcs-ctrl, because the
574        variables needs its own mask.
575      - add a cost function term that penalizes the deviation of xx_shifwflx
576        from the first guess (zero) in analogy to other control variables
577    o pkg/shelfice:
578      - start basic adjoint
579    o pkg/ctrl:
580      - remove extra 2D field "for good measure" when initializing in
581        ctrl_set_globfld_[xy/xz/yz].F
582      - replace hard coded precision 32 (a bug) in ctrl_map_ini_gen by ctrlprec
583      - improve error messages in ctrl_set_unpack_*
584    o OBC implementation in momentum:
585       use interior masks (maskInC,W & S) in momentum S/R:
586       - multiply divergence, tension and some del^i.u or del^j.v by maskInC
587       - multiply del2u,del2v by maskInW/S (biharmonic viscosity)
588       - multiply horiz. grad of vorticity by maskInW/S (in Leith scheme)
589       - multiply gradient of wVel by maskInW/S in del2w calculation (NonHyd)
590       Motivation: fix/clean implementation of OBC with biharmonic-viscosity
591        (and also with Leith/Smagorinsky harmonic-viscosity).
592       Update output of experiment dome and exp4 (+nlfs).
593    o exp4 test-exp:
594      - turn on: nonHydrostatic, exactConserv, viscA4 (with momDissip_In_AB=F)
595        and prescribe time-varying OB (without pkg/exf) for zonal-velocity
596        at Western & Eastern Boundaries (+/- 1 per-cent); Also prescribe
597        time-varying OB at Western-side for wVel (NonHyd); update output.
598      - add secondary set-up (.nlfs) using NonLin FreeSurf (z*) + mom_vecinv
599        and biharmonic-viscosity ; also use prescribed time varying OB.
600    o pkg/obcs:
601      fix bug in OBWeta,OBWeta indices in obcs_apply_r_star.F
602    o model/src:
603      - fix startTime setting when baseTime<>0 & nIter0=0 are specified ;
604      - initialise startTime & nIter0 with unlikely values: allows to set one
605        from the other without ambiguity.
606    o seaice_obcs test-exp.:
607      add small diffK4T,S to test biharmonic diffusivity with OBCS ; update output.
608    o pkg/obcs:
609      - remove calls to OBCS_COPY_TRACER after EXCH for T,S & pTracer:
610        no longer needed with maskInC,W,S in pkg/generic_advdiff.
611    o pkg/seaice:
612      - retired SEAICE_SALINITY and SEAICE_salinity in favor of
613        SEAICE_VARIABLE_SALINITY and SIsalFRAC, respectively.
614      - fixed bug in the initialization of sea ice salinity variable HSALT
615        in seaice_init_varia.F  (removed dependence on ICE2WATR)
616    o fizhi-cs test exp.:
617       switch reference output convention for these 2 non-standard test-exp,
618        from: pgi  6.1-5 on faulks (FC.6, -of linux_ia32_pgf77+authors_fc5)
619          to: ifort 11.1 on baudelaire (FC.13, -of linux_amd64_ifort11)
620       reason: faulks might get retired soon and pkg/fizhi has still Pb with gfortran
621    o model/inc:
622      - change type of PmEpR array (from _RS to _RL) to fix restart (with "-use_r4")
623        of exp. global_ocean.90x40x15 (Suncronous time-stepping + Real-FW + NonLin-FS)
624    o pkg/seaice:
625      - fix calculation of saltFlux and saltPlumeFlux when using SEAICE_SALINITY
626    o verification/lab_sea, 1D_ocean_ice_column, seaice_obcs, global_ocean.cs32x15
627      - updated output*.txt files due to bug fixes in salt, saltPlumeFlux,
628        and initial HSALT
629    
630    checkpoint62w (2011/04/26)
631    o pkg/mom_fluxform:
632      - fix calculation of del2u & del2v (no-slip BC) when using Non-Lin Free-Surf.
633      - use parameter "sideDragFactor" in no-slip BC side-drag part.
634      - update output of exp. global_ocean.90x40x15
635    o pkg/mom_vecinv:
636      mask del2u & del2v (no effect on results, but cleaner & closer to mom_fluxform)
637    o update seaice exp.:
638      use more consistent parameter values (remove "backward compatability only":
639       ICE2WATR, SEAICE_lhSublim, SEAICE_cpAir, SEAICE_rhoAir + set rhoConstFresh)
640      related to thermodynamics seaice. Update output (fwd+AD) of exp.:
641       1D_ocean_ice_column (x2), lab_sea (x8), ioffline_exf_seaice (x2) & seaice_obcs
642    o update test-exp global_ocean.90x40x15:
643      o use default CD_CODE_OPTIONS file (Adams-Bashforth on CD Mom & Coriolis).
644      o increase Overlap size from 2 to 3 (to allow to test bi-harmonic Visc.)
645      o new pickup-files from a 100.yr run with pkg/down_slope (input.dwnslp params)
646      o turn on zStar & viscA4 in standard set-up (dir input/)
647        and update output files: output.txt & output.dwnslp.txt
648    o new AD-test experiment: obcs_ctrl
649      (From Matt MITgcm_Contrib/SOSE/BoxAdj) to test OBCS as control vector.
650    o pkg/dic:
651      fix two bugs in handling water vapour pressure in carbonate chemistry
652      and air-sea fluxes. Found by Val Bennington and Galen McKinley
653      (add DIC Option = WATERVAP_BUG to recover old results)
654      update output of tutorial_global_oce_biogeo (fwd+AD) & tutorial_dic_adjoffline
655    o adding allowInteriorFreezing option to check for water below freezing point
656      at depth and bring the negative heat anomaly to the surface level
657    o pkgs _fields_load:
658      - extend GET_PERIODIC_INTERVAL to deal with non-periodic case (from pkg/rbcs)
659      - use new S/R GET_PERIODIC_INTERVAL in pkgs:
660        bulk_force, cheapaml, cfc, dic, obcs (+ ctrl/ctrl_get_gen_rec), offline and
661        rbcs to get interpolation weights and time reccord number.
662      - fix multi-threading in aim_fields_load.F
663      - apply EXCH to temp arrays [0,1] after reading in dic_fields_load.F
664    o external_fields_load:
665      new S/R GET_PERIODIC_INTERVAL to calculate which time-record (and linear
666       interpolation weights) to use in a periodic time-series ; do not divide by
667       time-step to convert to integer:
668       - this fixes case where externForcingPeriod is not multiple of time-step
669          (Thanks to Christopher L. Wolfe)
670       - this fixes case where externForcingPeriod is an odd multiple of time-step
671         (was wrong by half of time-step); update results of tutorial_global_oce_in_p.
672      store index of time-record which is currently loaded:
673       - works without any assumption on sequence of calls to EXTERNAL_FIELDS_LOAD ;
674       - needed for the adjoint but not yet used because of extensive recomputations;
675         (to be fixed soon)
676    
677    checkpoint62v (2011/04/02)
678    o verification/1D_ocean_ice_column added to test Ian Fenty's
679      pkg/seaice_growth.F modifications for improving sea ice code differentiability
680    o update output of exp4, internal_wave, seaice_obcs, tutorial_plume_on_slope
681      (new velocity statistics after changing maskInW & maskInS definition)
682    o pkg/generic_advdiff with OBCS:
683      use maksInW & maskInS in advective flux and in biharmonic diffusion calculation:
684      equivalent to assumption of no tracer gradient outside the OB region.
685      This will affect the results if using obcs+biharmonic diffusion.
686      update output_adm.txt of experiment bottom_ctrl_5x5 (not expected since no obc)
687    o pkg/obcs:
688      change definition of maskInW & maskInS: leave OB edges inside (maskIn=1)
689      (e.g., maskInW(OB_Ie)=1 ) so that velocity normal-component at OB is still
690      in Interior region. No impact on solution but affects Velocity monitor stats.
691    o pkg/ptracers (adjoint)
692      New option AUTODIFF_PTRACERS_SPLIT_FILES for writing separate
693      tape file for each tracer
694    o model/inc/src and pkg/autodiff: add parameters that allow to turn
695      of parts of the adjoint code at run time. For now, there are only
696      useKPPinAdMode, useGMrediInAdMode, and useSEAICEinAdMode. These
697      parameters are set in data.pkg.
698      This is the lazy coward's version of doing this, but still useful for
699      debugging. In order to do it right, everything needs to be moved to
700      pkg/autodiff.
701    o pkg/autodiff: fix global_sum_tile_ad.F by resetting adsumPhi at
702      the end; this fixes the adjoint balancing code for open boundaries.
703    o pkg/ctrl:
704      - change behavior of xx_${varname}period to be analogous to exf-conventions:
705        xx_${varname}period =   0.,  means time-independent control part
706        xx_${varname}period = -12., means one-year-periodic monthly control part
707      - introduce helper routine ctrl_init_rec (part of ctrl_init.F) to
708        clean up ctrl_init a little, remove unused variables
709      - ctrl_init: fixed the handling of the start/endrec for obcs-variables
710      - move "call cal_GetMonthsRec" from s/r ctrl_get_gen to s/r ctrl_get_gen_rec
711    
712    checkpoint62u (2011/03/15)
713    o model/src:
714      - for the adjoint, change NonLin-FreeSurf initialisation sequence: fill-in
715        h0Fac from INITIALISE_FIXED and reset hFac to h0Fac in INITIALISE_VARIA ;
716      - in initialise_varia.F (except for ALLOW_DEPTH_CONTROL) remove 2nd call to
717        INI_DEPTHS, INI_MASKS_ETC & INI_LINEAR_PHISURF.
718    o pkg/ctrl/obcs/ecco:
719      - remove obsolete, unused, and partially broken code:
720        ctrl_obcsvol/ctrl_obcsbal/ctrl_volflux and code within
721        ALLOW_CTRL_OBCS_BALANCE
722      - put a stop statement into ecco/cost_obcsvol.F, but also add
723        cost_obcsvol to ecco_ad_diff.list
724    o pkg/ecco: fix counting cost function contributions for obcs (code
725      by Matt M.) and diffkr for diagnostics
726    o pkg/ecco, pkg/ctrl, pkg/grdchk:
727      add cost penalty terms for initial uvel, vvel, eta controls
728      and I/O for prior error files
729    o pkg/mdsio:
730       move mds_check4file.F from eesupp/src to mdsio_check4file.F ; add option
731       (new argument) to check for tiled file in mdsioLocalDir : this fix the
732       restart from pickup_som , pickup_dic (& dic_co2atm) with mdsioLocalDir.
733    o pkg/ctrl:
734     - ctrl_obcsbal.F, ctrl_obcsvol.F: replace last calls of ctrl_getrec by
735       ctrl_get_gen_rec, put a stop statement into ctrl_getrec. Remove
736       unused and superfluous variables
737     - ctrl_get_gen_rec.F: catch the case of xx_genperiod=0.
738    o pkg/ecco
739     - enable adjoint of Stevens OB
740    o pkg/ctrl/ecco/grdchk:
741      - remove global declaration of tmpfldx/yz and tmpfldx/yz2.
742        Fortunately, we do not have any tests for the numerous cpp-flagged
743        option of "obcs as control parameters" so we will never know
744        if this is an improvement (but at least now things compile).
745      - remove an obsolete initialization from ecco_cost_init_barfiles.F
746      - fix some problems within never used ifdefs to make the code compile
747    o pkg/obcs:
748     - Refine Interior mask definition to work with more complex OB (e.g.
749       if OB_Ie < OB_Iw); In case default setting is not sufficient, allows to
750       read in Interior mask from file. Check if Interior mask is consistent
751       with OB list of indices.
752    o pkg/seaice
753     - beginning code for a seaice tracer package,
754       but currently only used for seaice age: SEAICE_AGE
755       SEAICE_num = 4
756       iTracer = 1: area-weighted ice age
757               = 2: volume-weighted ice age
758               = 3, 4: template for one-year vs. multi-year ice
759       data.seaice has new namelist SEAICE_PARM03 for arrays related to
760       SEAICE_num
761    
762    checkpoint62t (2011/03/05)
763    o pkg/obcs:
764     - obcs_apply_uv.F: change to a 2 steps method, first tangential component;
765       then normal component. This ensures that the normal component is set
766       correctly even when it conficts with tangential setting from an other OB.
767       Affects results of test-experiment seaice_obcs: update the output.txt
768    o pkg/obcs:
769     - add code to monitor statistics of dynamical fields at OB.
770     - take OBCS_BALANCE code out of obcs_calc.F into new S/R OBCS_BALANCE_FLOW :
771       - fix to OBCS_BALANCE code (right hFac ; deal with simple OB intersection).
772       - change default: balance the Net inflow through all OB (instead of balancing
773         each OB separately); keep the old method if setting OBC_balanceFacX < 0.
774     - switch on useOBCSbalance in dome experiment: only correct Western OB outflow
775       to match Nortern OB inflow (OBCS_balanceFacN=0).
776    o pkg/seaice:
777     - redefined actual sea ice age to be ICEAGE/HEFF ifdef SEAICE_AGE_VOL
778    o pkg/seaice (seaice_growth v 1.113):
779     - reverting seaice_growth to v 1.111 in order to have code with exact bit
780       compatibility with MITgcm_contrib/ifenty/Fenty_seaice_thermo_code_merge
781       CPP option SEAICE_OCN_MELT_ACT_ON_AREA removed in v 1.112 is reintroduced
782       runtime flag SEAICEareaFormula is kept but is inactive
783    o model/src:
784     - add new param to scale curvilinear grid distance and area when using
785       a different sphere radius from the grid-files.
786     - test/check multi-threads EXCH applied to local variable (cg2d_x)
787    o adjoint:
788     - enable adjoint of Stevens OB
789     - add dummy_in_dynamics to enable extraction of ADJrhoinsitu
790       (a bit delicate because of potentially modified adj. common block structure;
791       current switch is ALLOW_AUTODIFF_MONITOR_DIAG, could be changed later)
792    
793    checkpoint62s (2011/02/15)
794    o pkg/seaice (seaice_growth v 1.112):
795     - introduce SEAICEareaFormula run time parameter, which selects the recipe for
796       computing the ice cover tendency from effective thickness tendencies. Include
797       Ian Fenty's formula.
798     - remove 'undef SEAICE_OCN_MELT_ACT_ON_AREA' which may now be achieved using
799       SEAICEareaFormula.
800     - simplify notations for the various d_HEFF/d_AREA terms.
801    o pkg/gmredi:
802     - add Boundary-Value-Problem bolus transport (Ferrari etal, OM 2010) code
803       from Christopher Wolfe (UCSD); add partial cell factor in vertical derivative;
804       add a verification test-run (front_relax.bvp) to test GM_useBVP.
805    o pkg/seaice (seaice_growth v 1.111):
806     - for SEAICE_DO_OPEN_WATER_GROWTH, replace Gael's implementation with Ian's.
807     - the new SEAICE_DO_OPEN_WATER_MELT allows open-water air-sea heat fluxes to
808       also melt ice.
809    o pkg/seaice:
810     - McPhee formula for Ice-Ocean fluxes (provided by Ian Fenty).
811     - can be used by #define MCPHEE_OCEAN_ICE_HEAT_FLUX in SEAICE_OPTIONS.h
812    o pkg/cheapaml:
813     - from Nico Wienders: New version of this package.
814    o pkg/flt:
815     - add CPP options to prevent floats to re-enter the opposite side of
816       a periodic domain (default: keep periodicity)
817    o pkg/gmredi:
818     - apply exchange to GM_PsiX,GM_PsiY to get valid values near CS-corners
819       (needed for multi-dim advection).
820     - switch on GM Advective form in global_ocean.cs32x15 and update output.txt
821    o model/src:
822     - fix wrong re-setting of addMass array (ALLOW_ADDFLUID) for atmospheric run.
823    o tutorial_tracer_adjsens
824     - extend to NLFS and replace maskC by hFacC
825       (change reference output accordingly)
826    
827    checkpoint62r (2011/01/24)
828    o testreport:
829     - add option -deloutp (-do) to remove output file after successful run
830     - add option -mfile (-mf) for MPI machile-file and for each test-exp,
831       extract exact list of procs from this file ; adjust COMMAND by
832       replacing TR_MFILE & TR_NPROC with local machile-file & Nb of MPI procs.
833    o pkg/ecco: replace old ineffective way of penalizing deviations from
834      first guess (of obcs) with code by Matt Mazloff
835    o pkg/ctrl: add code that allows the use of ALLOW_OBCS?_CONTROL without
836      exf/cal
837      - ctrl_init: fix initialisation (computation of diffrec) for obcs-ctrl
838        and handle case of obcs?period == 0
839        Not affected by these changes: There is still an inconsistency in
840        the computation of start/endrec for the obcs variables for ALLOW_CAL
841        defined (see comment by Menemenlis, 7-Mar-2003)
842      - make S/R ctrl_get_gen_rec return something meaningful even if
843        ALLOW_CAL is not defined
844      - ctrl_getobcs?: simplify code so that it does not need to use
845                       S/R exf_swapfields
846    o testreport:
847       allow to test MPI with different number of processors for each experiment:
848       create file "SIZE.h.mpi" in each build dir.
849       Note: update of "-command" argument not yet implemented.
850    o model/src, pkg/autodiff, pkg/ecco, pkg/seaice:
851      alleviate the need for additional 3D tapes when using
852      the non-inear free surface in the adjoint. This is done
853      by adding an 'update' of hfacc etc. to their current
854      value at the beginning of forward_step.F.
855    o pkg/seaice
856      seaice_lsr: move stress-divergence computations out of outer pseudo-
857      timestepping loop
858    o pkg/obcs/obcs_prescribe_read.F: move 'CALL OBCS_EXTERNAL_FIELDS_LOAD'
859      up, so that the calls of the ctrl_* subroutines are really at the end
860      of the routine.
861    o pkg/gmredi:
862      allow to specify a 2-D horizontal map and a 1-D vertical profil
863      as scaling factor for Isopycnal diffusivity (Redi) and GM diffusivity.
864    o pkg/seaice:
865      move lsr iterations from seaice_dynsolver to seaice_lsr.
866    o pkg/seaice:
867      reduce memory footprint of seaice mutldim advection tapes,
868      by using a 2D tape independent of the generic_advdiff ones,
869      and setting GAD_AREA=1 etc. rather than GAD_AREA=101 etc.
870    
871    checkpoint62q (2010/12/29)
872    o model/src:
873      - check horizontal grid-spacing for unset or zero/negative values.
874      - change AD test hs94.1x64x5 to be truly a 2-D set-up.
875    o pkg/flt:
876      - use (recent) mdsio S/R MDS_READVEC_LOC instead of local FLT_MDSREADVECTOR
877      - precision of input and output files set according to readBinaryPrec
878        and writeBinaryPrec (previously always 64.b), pickup remains at 64 bits.
879      - initial float position from tiled file was not converted to index space
880        (looks like a bug): fixed to make it similar to initial pos. global file.
881    o global_ocean.cs32x15:
882       change SIZE.h of AD set-up to get same tiling as with MPI.
883       Update output_adm, output_adm.thsice (pass@14) & output_adm.seaice (fail@11)
884    o model/src:
885       add flag to control printing of domain fields (bathymetry, hFac ...) in
886       ini_mask_etc (call to plot_fieds_xy*).
887    o pkg/thsice:
888       if useEXF, some forcing fields are not valid in overlap: fixed by computing
889       over the interior only + apply EXCH at the end (like with SEAICE advection).
890    o pkg/mdsio:
891      - add 2 arguments to S/R MDS_PASS_R4/8toRL/S for overlap size of buffer
892        to copy to/from, so that it can be used to replace MDS_PASS_WH_R8toRL/RS.
893      - change barrier call for safe multi-threads access to 3-D shared buffer.
894      - MDS_READ/WRITEVEC_LOC use buffers from MDSIO_BUFF_3D.h (instead of local ones)
895      - replace call to MDS_PASS_WH_R4/8toRL with call to MDS_PASS_R4/8toRL and
896        remove the 4 S/R MDS_PASS_WH_R4/8toRL/S.
897    o pkg/flt:
898      - add fourth-order Runge-Kutta integration
899      - add basic exch2 support (only 1 facet supported so far!)
900    o pkg/mdsio+rw:
901      new S/R to read local (or tile independent) vector (read counterpart of
902       mds_writevec_loc, and front-end write_glvec_rl/rs).
903    o global_ocean.cs32x15: additional input_ad.seaice experiment
904        that uses pkg/seaice rather than pkg/thsice.
905        (using multidim advection for seaice)
906    o towards more F95 syntax for array specification in namelist:
907      - change "data.diagnostics" (data.ptracers was changed before checkpoint62p)
908        of all verification experiments.
909           e.g.:    line: fields(1,3)='ETAN    ','ETANSQ  ',
910          was changed to: fields(1:2,3)='ETAN    ','ETANSQ  ',
911      - finish adding "-DNML_EXTENDED_F77" to DEFINES list in pgf77 and g77 optfiles
912    o global_ocean.cs32x15: additional input.seaice experiment
913        that uses pkg/seaice rather than pkg/thsice.
914    
915    checkpoint62p (2010/12/17)
916    o pkg/thsice: rename (ad tape index) iicekey as ticekey, and move it
917        to THSICE_SIZE.h to avoid conflict with pkg/seaice.
918    o pkg/seaice: add seaice_diffusion.f seaice_map_thsice.f to adjoint.
919        allow for use of multim. advection in seaice adjoint.
920    o pkg/seaice: add diagnostics for snow precipitation and sublimation flux
921      - first attempt to close budgets by taking into account the freshwater
922        flux implied by the sublimation of snow and ice. So far only the
923        volume budget is closed, turn on with soon-to-be-retired-again CPP-Flag
924        SEAICE_ADD_SUBLIMATION_TO_FWBUDGET
925    o eesupp/src:
926      new S/R with new option (NML_EXTENDED_F77) to change array specification
927      from F95 standard to commonly accepted extended F77 form.
928      This would allow to use F95 syntax in namelist (needed with gfortran 4.4.5)
929      and to revert back to the original syntax (with -DNML_EXTENDED_F77)
930      for less tolerant f77 compiler (e.g., pgf77, g77).
931    o globalFiles:
932      commented out in parameter file "data" since it's not safe with MPI
933      (e.g., wrong on aces); keep it if useSingleCpuIO=T (but not doing much
934      in this case); no longer commented out in restart test (tst_2+2).
935    o add adTapeDir to specify a special directory where adjoint tapes are
936      written/read (adread_adwrite.F). adTapeDir is specified in data/PARM05
937      and cannot be used together with mdsioLocalDir.
938    o nesting pkgs:
939      - packages_init_variables : put call to OBCS_INIT_VARIABLES in last position
940      - update Gianmaria's Nesting pkgs (from Contrib/nesting_sannino)
941      - add parameter files + utils dir + output from short run on beagle.
942    o pkg/seaice:
943        fix seaice_growth.F store directives; update results of exp. lab_sea.ad
944    o pkg/seaice: explicitly store tsurfloc in seaice_solve4temp.F to avoid
945      unnecessary copying in adjoint code, requires new parameter NMAX_ITER
946    
947    checkpoint62o (2010/11/25)
948    o pkg/exf:
949      - change CPP option EXF_VERBOSE to run-time logical param exf_verbose.
950    o pkg/seaice:
951      - seaice_ocean_stress: split a loop for better vectorization of the
952        adjoint code
953      - seaice_growth.F: fix bug in conservation of freshwater connected to
954        capping of heff, put contribution into d_HEFFbyNEG
955      - replace irritating parameters SEAICE_latentWater/Ice and SEAICE_sensHeat
956        by something more sensible (parameters that are what their name implies)
957      - change some defaults, so that by default exf-parameters are used for
958        things like rhoAir, cpAir,latent/sensible heat parameters, in order
959        to reproduce the old results, many data.seaice now contain funny values
960        for cpAir and latent heat of sublimation
961    o packages_readparms.F: move exf_readparms up in line so that
962        exf-parameters are visible for other packages (e.g. seaice)
963    o debugMode & debugLevel=2:
964      - differentiate between debugMode & debugLevel=2:
965        debugMode: controls printing of debug messages (sequence of S/R calls).
966        debugLevel: controls printing of algorithm intermediate results and stats.
967      - remove "if debugLevel=2 => debugMode" but keep "debugMode =>  debugLevel=2";
968        => allows to print debug-stats without all sequence of call messages.
969      - switch control of debug print from debugLevel to debugMode in many S/R.
970    o pkg/obcs (obcs-sponge):
971        fix bug that was introduced on Oct 25 (in dynamics.F v1.151): put back the
972        call to OBCS_PRESCRIBE_EXCHANGES (need to exch gU,gV when using obcs-sponge)
973    o pkg/generic_advdiff:
974      - record overlap minimum size for each advection scheme;
975      - refine criteria on overlap minimum size;
976      - check and stop (in gad_check) if overlap size is too small.
977    o pkg/obcs:
978      - with ptracers: remove multiple calls to obcs_apply_ptracer (only done
979        once, in ptracers_implicit.F)
980      - with seaice: remove test on empty file name in obcs_apply_seaice (always
981        apply OB values when tile has OB)
982    o model/src, coriolis setting:
983      - integer parameter "selectCoriMap" (=0,1,2) replaces 3 logical
984        useConstantF, useBetaPlaneF, useSphereF ; can now read coriolis from
985        files (selectCoriMap=3) with any grid.
986      - add parameter "fPrime" for constant second Coriolis coeff (default=0).
987    o pkg/seaice/seaice_growth.F:
988        a few cosmetic changes that reduce the number of lines of code
989    o pkg/obcs: add boundary conditions following Stevens (1990)
990      - the code follows old MOM/NAOSIM code
991      - so far it is only implemented for the eastern and western boundaries
992        and NOT for pTracers
993    o pkg/rbcs:
994      - replace rbcsInIter by rbcsForcingOffset, the time in seconds at the
995        beginning of the first rbcs forcing period.
996      - add option rbcsSingleTimeFiles that makes rbcs read forcing data like the
997        offline package, i.e., one file per time, labeled by iteration number;
998        deltaTrbcs sets the timestep with which the data was generated;
999        rbcsIter0 is the forcing iteration corresponding to rbcsForcingOffset.
1000      - rbcsForcingCycle=0 makes forcing non-cyclic.
1001      - make arithmetic safe for negative times and odd forcing periods.
1002    
1003    checkpoint62n (2010/11/09)
1004    o pkg/seaice:
1005        fix masking in free-drift S/R ; update results of exp. lab_sea.fd
1006    o pkg/obcs:
1007       New S/R to copy tracer value from the OB location to narrow band region
1008        (width = same as overlap) beyond the OB: preserve OB value (needed for
1009        high-order scheme) which were overwritten by EXCH call if in overlap
1010        region. Applied to theta, salt, ptracer and advected seaice variables.
1011       With seaice: use maskInC in similar way as in gad_advection.F,
1012        in seaice_advection.F and advect.F.
1013       Update output of experiment seaice_obcs and change exp4 to test OBCS with
1014        4th order Adv.Scheme. for pasive salt and ptracer.
1015    o tools/genmake2:
1016      - when looking for an optfile (not specified), only search for Fortran compiler
1017        (remove sym-link test + setting of CPP + makedepend check + C-compiler check)
1018      - in get_fortran_c_namemangling: use "$CC $CFLAG" to compile C test programm
1019        (instead of "$MAKE genmake_test.o" since an existing Makefile can be wrong)
1020      - set default for CPP to "cpp -traditional -P" (was the case without specifying
1021        an optfile, but otherwise default was just "cpp".
1022      - comment out PLATFORM=$p_PLATFORM (no idea where p_PLATFORM comes from)
1023      - when "CC" is not set in the optfile, look for possible C compiler
1024        (instead of just setting CC=cc)
1025      - put back version v.169 modif (from 2008/02/15), was dropped in v.173 changes:
1026        => add a ".F" to ".o" rule for source files with no "#include" (such as
1027           port_rand.F); otherwise, default ignores FOPTIM and just uses FFLAGS.
1028      - move gfortran before g77 in list of possible Fortran compiler (consistent
1029        with reference compiler switch from g77 to gfortran)
1030    o pkg/seaice:
1031      o remove SEAICE_OLD_AND_BAD_DISCRETIZATION-code, add a test to
1032        seaice_check that stops the model, when the CPP flag is used.
1033      o seaice_growth.F: make capping of ice volume conserving by returning the
1034        capped ice as freshwater to EmPmR. This does not change the verification
1035        experiments but will change runs where the capping is acutally active
1036    o change reference platform+compiler from faulks+g77 to baudelaire+gfortran
1037      (except the 2 fizhi test exp.); update output of exp.: bottom_ctrl_5x5,
1038         global_ocean.cs32x15 (icedyn, thsice, AD thsice), global_ocean_ebm (AD),
1039         lab_sea (fd, hb87, salt_plume), MLAdjust (3/5) and vermix (dd)
1040    o tools/genmake2:
1041      - merge genmake_warnings & genmake_errors into 1 log file: "genmake.log")
1042      - change DUMPSTATE default to false (can use "-ds" option to switch it to T)
1043      - clean previous genmake log files before anything else.
1044      - change Makefile to remove testreport log files (*.tr_log) and genmake log
1045        files only with "CLEAN" target (instead of "Clean");
1046    o pkg/generic_advdiff:
1047      Change OBCS in multiDim advection (gad_advection.F):
1048       Use maskInC to prevent intermediate update of tracer-field in OB regions,
1049       thus keeping current-time-step OB values; and remove the call to OBCS_APPLY
1050       which were applying future time-step OB values.
1051      This way, all explicit calculations use current-time-step OB values
1052       (simpler and more consistent).
1053      Affects results when set-up uses time-varying OBC and multi-dim advection;
1054       update output of experiment seaice_obcs.
1055    o pkg/seaice:
1056      move OPTIONS (formerly locally defined) to SEAICE_OPTIONS.h:
1057       this includes SEAICE_GROWTH_LEGACY (+ SEAICE_DO_OPEN_WATER_GROWTH &
1058         SEAICE_OCN_MELT_ACT_ON_AREA ) and SEAICE_SOLVE4TEMP_LEGACY.
1059      Default (pkg/seaice/SEAICE_OPTIONS.h) is to define SEAICE_SOLVE4TEMP_LEGACY
1060       but leave SEAICE_GROWTH_LEGACY undef ; For now, keep verification exp
1061       unchanged (SEAICE_GROWTH_LEGACY defined in */code*/SEAICE_OPTIONS.h)
1062    o pkg aim (2010/10/26):
1063      - Introduce ALLOW_INSOLATION, moving toward a more general incoming solar radiation
1064        formulation with obliquity, eccentricity, ... as run-time parameters,
1065      - Introduce diagnostics for top-of-the-atmaophere incoming solar radiation and
1066        upward shortwave radition at the surface (all-sky and clear-sky).
1067    o pkg/obcs:
1068      - writing sections with globalFiles=T does not work: switch to tiled-files
1069        when writing sections for OBCS (change pkg/rw/write_rec.F accordingly).
1070      - fix index bug (OB_Ie -> OB_Iw_) in obcs_apply_uvice.F
1071      - apply OBCS_SEAICE_COMPUTE_UVICE to both uice and vice at all obcs
1072    
1073    checkpoint62m (2010/10/21)
1074    o pkg/seaice: vectorize seaice_solve4temp.F
1075      - move iterations loops outside of i/j-loops
1076      - requires 2D arrays for TB and effConduct
1077      - add 2D iceOrNot to replace HICE_ACTUAL.GT.0, as HICE_ACTUAL is
1078        modified in this routine
1079      - a little bit of clean up, adjusting indentation, etc.
1080      - replaced a few TEN**a by exp(a*log(10.)) in new code for better
1081        performance and '**TWO' by '**2' (because TWO is a float),
1082        replaced ONE, ZERO
1083    o eesupp/src:
1084       fix flow dir for exch1_z_RX_cube, exch1_uv_RX_cube & exch1_bg_RX_cube
1085    o pkg/seaice/seaice_growth.F
1086      Revision 1.89 of seaice_growth.F completes the overall october 2010 revision and
1087      merging process. The merged routine has two branches, and one activates the 'evolution'
1088      branch by setting SEAICE_GROWTH_LEGACY to undef (at the top of the routine for now).
1089      In summary, here is what the '10/10 revision' did consist of
1090        part 1: seaice_growth.F revisions 1.71 to 1.75
1091          - Preliminary seaice_growth.F clean-up, keeping test results strictly unchanged.
1092            The emphasis here was on improving readability (e.g. by trying to use meaningful
1093            variable names) and modularity (e.g. by adding arrays to store heff etc. updates).
1094        part 1.5:
1095          - revising the lab_sea experiment to make it a more useful (i.e. stable
1096            and representative of an actual model run). This was done by generating a
1097            (winter) pickup to start from, switching back the main experiment dynamic
1098            solver from evp to lsr, having one of the experiments use the free drift solution.
1099        part 2: seaice_growth.F revisions 1.76 to 1.85
1100          - Sorting out hard-coded constants that prevented heat and fresh water conservation.
1101          - Sorting out the various fields units and sign (set early on and reset at the end)
1102            to avoid numerous scalings/re-scalings. By v1.85 the basic unit for ice, heat and
1103            fresh water stock is 'effective ice meters', and >0 implies more ice/snow.
1104          - Using tendency terms arrays (d_HEFF* etc.) to alleviate remaining code locks,
1105            and simplifying logical expressions to further improve readibility.
1106        part 3: seaice_growth.F revisions 1.86 to 1.89
1107          - Re-organize the blocks of code more logically.
1108          - Merging the '_if.F' pieces that add something new.
1109    o pkg/thsice:
1110      - vectorize thsice_solve4temp and thsice_get_exf.
1111      Problem: thsice_solve4temp has an unvectorizable statement that      Problem: thsice_solve4temp has an unvectorizable statement that
1112      might also be problematic for TAF      might also be problematic for TAF
1113    - thsice_get_exf: add the ALLOW_BULK_LARGEYEAGER04 CPP-flag. This    - thsice_get_exf: add the ALLOW_BULK_LARGEYEAGER04 CPP-flag. This
1114      does not change the verifcation experiment, but will change all      does not change the verifcation experiment, but will change all
1115      experiments that have this flag undefined (not tested in verification);      experiments that have this flag undefined (not tested in verification);
1116      a little reorganization to save a few 2D fields and recomputations      a little reorganization to save a few 2D fields and recomputations
1117      - 1st step of revisiting thsice adjoint (major recomp. sorted out)
1118      - 2nd step:  fix some store dirs
1119        o seems to work somewhat, i.e. using ifort but not g77
1120        o likely cause are incomplete init. or recomputation
1121        o start verification/global_ocean.cs32x15/input_ad.thsice
1122  o pkg/obcs: add support for exch2  o pkg/obcs: add support for exch2
1123    - the position of the boundary and prescribed values are specified using    - the position of the boundary and prescribed values are specified using
1124      a global domain with exch2 facets stacked      a global domain with exch2 facets stacked
# Line 30  o pkg/thsice: Line 1137  o pkg/thsice:
1137     iteration loop and call to S/R THSICE_GET_BULKF & THSICE_GET_EXF.     iteration loop and call to S/R THSICE_GET_BULKF & THSICE_GET_EXF.
1138  o verification/lab_sea:  o verification/lab_sea:
1139    - overhaul of the forward model experiments. The main motivation    - overhaul of the forward model experiments. The main motivation
1140      for this revision is that lab_sea has proven quite fragile (when      for this revision is that lab_sea has proven quite fragile (when
1141      changing the sea-ice code, and switching platforms) to a point      changing the sea-ice code, and switching platforms) to a point
1142      when failures were very hard to attribute to specific code problems.      when failures were very hard to attribute to specific code problems.
1143    - the suspected reason for this fragility is noise amplification by evp so,    - the suspected reason for this fragility is noise amplification by evp so,
1144      to start with, we decided to replace evp with lsr in the main experiment.      to start with, we decided to replace evp with lsr in the main experiment.
1145    - the input.lsr experiment thus became obsolete and was removed.    - the input.lsr experiment thus became obsolete and was removed.
1146    - it was replaced with the input.fd experiment that uses an    - it was replaced with the input.fd experiment that uses an
1147      analytical "free drift" solution as the ice velocity field.      analytical "free drift" solution as the ice velocity field.
1148    - Taken together, input (lsr), input.fd (free drift) and input.hb87 (evp)    - Taken together, input (lsr), input.fd (free drift) and input.hb87 (evp)
1149      will hopefully allow us to discriminate problems due to dynamic solvers      will hopefully allow us to discriminate problems due to dynamic solvers
1150      from problems due to the thermodynamic code. input.salt_plume (lsr) allows      from problems due to the thermodynamic code. input.salt_plume (lsr) allows
1151      us to test additional options, along with the salt plume package.      us to test additional options, along with the salt plume package.
1152    - Finally a pickup was generated (at the end of a one year run) to    - Finally a pickup was generated (at the end of a one year run) to
1153      make the tests more representative of an actual model run. Previously      make the tests more representative of an actual model run. Previously
1154      the tests starting point was a 1m thickness of ice everywhere.      the tests starting point was a 1m thickness of ice everywhere.
1155  o pkg/seaice:  o pkg/seaice:
1156    - introducing S\R seaice_freedrift.F that compute the    - introducing S\R seaice_freedrift.F that compute the
1157      analytical solution to an approximate ice momentum      analytical solution to an approximate ice momentum
1158      equation (i.e. the simple stress/coriolis balance).      equation (i.e. the simple stress/coriolis balance).
1159    - define SEAICE_ALLOW_FREEDRIFT to trigger the computation    - define SEAICE_ALLOW_FREEDRIFT to trigger the computation
1160      of the free drift velocity field, and enable its use.      of the free drift velocity field, and enable its use.
1161      To actually use the free drift solution as the model ice      To actually use the free drift solution as the model ice
1162      velocity field set SEAICEuseFREEDRIFT to .TRUE. in data.seaice.      velocity field set SEAICEuseFREEDRIFT to .TRUE. in data.seaice.
1163  o move "useOASIS" from PARAMS.h to EEPARAMS.h and read it from "eedata"  o move "useOASIS" from PARAMS.h to EEPARAMS.h and read it from "eedata"
1164    
1165  checkpoint62l (2010/10/04)  checkpoint62l (2010/10/04)
# Line 373  o tools/build_options: Line 1480  o tools/build_options:
1480      but keep the former optfile for few weeks for smooth transition      but keep the former optfile for few weeks for smooth transition
1481  o pkg/ecco  o pkg/ecco
1482    - allow user defined cost function contributions    - allow user defined cost function contributions
1483          CPP: ALLOW_USERCOST_CONTRIBUTION       CPP: ALLOW_USERCOST_CONTRIBUTION
1484          USAGE: compute contributions in cost_usercost_all.F       USAGE: compute contributions in cost_usercost_all.F
1485    - note: this is identical to what ALLOW_GENCOST_CONTRIBUTION once was.    - note: this is identical to what ALLOW_GENCOST_CONTRIBUTION once was.
1486        the two options are complementary.        the two options are complementary.
1487  o pkg/smooth  o pkg/smooth
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