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revision 1.2179 by mlosch, Thu Sep 10 15:58:25 2015 UTC revision 1.2334 by mlosch, Thu Jun 8 15:10:15 2017 UTC
# Line 4  $Name$ Line 4  $Name$
4      Notes on tags used in MITgcmUV      Notes on tags used in MITgcmUV
5      ==============================      ==============================
6    
7    o pkg/seaice: add the option to compute no-slip du/dy, dv/dx (i.e.
8      the offdiagonal strain rate e12) by a second order approximation
9      on the boundary; works only with JFNK, KRYLOV, or EVP solvers, because
10      it is too messy to implement for the implicit LSR matrix.
11      SEAICE_2ndOrderBC = .FALSE. by default
12    
13    checkpoint66h (2017/06/02)
14    o pkg/seaice:
15      - add new routines to compute stress tensor components and stress tensor
16        divergence to be reused in s/r seaice_lsr and s/r seaice_calc_lhs
17      - change names of diagnostics SIsigI/II (commonly used for invariants)
18        to SIsig1/sig2 (more common for principal components) to avoid confusion
19    o pkf/exf:
20      - add a stop if useRelativeWind with un-updated uwind/vwind (e.g., constant);
21        similarly, stop if rotateStressOnAgrid with constant wind-stress.
22    o pkg/seaice:
23      - remove (comment out) diagnostics SIuwind,SIvwind,SIfu,SIfv (duplicate of
24        EXFuwind,EXFvwind,oceTAUX,oceTAUY) and point them to their equivalent.
25      - add diagnostics of wind-stress over seaice (SItaux,SItauy) and seaice
26        fraction weighted wind stress over ocean+seaice (SIatmTx,SIatmTy).
27    o pkg/diagnostics:
28      - small piece of code to rename (old) diagnostics, when namelist is processed.
29    o model/src:
30      - new run-time param (useMin4hFacEdges) to select method for setting hFacW,S:
31        originally, set as minimum of adjacent hFacC factor ; now (new default)
32        computed from rSurfW,S and rLowW,S by applying same rules as for hFacC.
33        Only matters when useShelfIce=T with particular ice-shelf cavity geometry.
34    o pkg/seaice:
35      - add momemtum advection, off by default, still in test phase
36        most of the momentum advection code is adapted and reused from mom_vecinv
37    o pkg/mom_vecinv:
38      - pass these runtime flags:
39        selectVortScheme, highOrderVorticity, upwindVorticity, useJamartMomAdv
40        as formal parameters to s/r mom_vi_u/v_coriolis, mom_vi_u/v_coriolis_c4,
41        so that these routines can also be used in pkg/seaice.
42    
43    checkpoint66g (2017/04/24)
44    o model/src:
45      - more robust ordering of column thickness integral (=Sum_k(drF*hFac) )
46        to get same expression (regarding machine truncation) in different places
47        in ini_masks_etc.F (e.g., rSurfC,W,S is now exactly zero when it should).
48        Update forward output of experiments: global_ocean.cs32x15 (all 5 except
49        viscA4), isomip (x3), tutorial_global_oce_in_p & tutorial_plume_on_slope.
50    o pkg/shelfice:
51      - ALLOW_SHIFWFLX_CONTROL: move setting of maskSHI from shelfice_update_masks.F
52        to shelfice_init_fixed.F
53      - change S/R SHELFICE_UPDATE_MASKS to SHELFICE_INIT_DEPTHS (still called from
54        ini_masks_etc.F for now) to update ocean upper boundary position according
55        to ice-shelf topography (instead of directly updating hFacC).
56    o model/src:
57      - move call to CTRL_INIT & CTRL_ADMTLM from the middle to the bottom of
58        packages_init_fixed.F to allow other pkgs to set mask and weight fields.
59    
60    checkpoint66f (2017/04/06)
61    o model/src:
62      - add specific run-time param to select level of printed plot-field-maps,
63        set by default to debugLevel. Remove internal param "printDomain".
64    o pkg/seaice:
65      - add flag to add snow mass to seaiceMassC/U/V, the default is
66        SEAICEaddSnowMass=.FALSE., not to change previous results
67    o pkg/bling
68      - Bug fix in bling_production regarding unit conversion for diagnostics
69        being put in the wrong place
70    o model/src:
71      - add back recomputation of rSurfW & S to ensure consistent column thickness
72        (needed for rStar) between Sum_k(hFac*drF) and rSurf-rLow, for now only
73        when using pkg/shelfice; was initially added on 2012/06/01 (ini_masks_etc.F
74        revision 1.51) but was removed accidentally on 2014/02/08 (v1.53).
75    o pkg/autodiff:
76      - clean-up "checkpoint.flow"
77    o pkg/rw (Contribution from Jody Klymak):
78        option to set mds file suffix as function of time in simulation:
79        *) new input parameter "rwSuffixType" (read from PARM03 namelist)
80           to select file suffix format; by default (=0), use iteration number;
81        *) add simple routine to return file suffix according to rwSuffixType;
82        *) in model/src and in most pkgs (except: atm2d, fizhi, regrid & streamice),
83           use new S/R to get file suffix, except for debug output file (diagFreq)
84           and pkgs offline & rbcs input files.
85    o pkg/rw:
86      - uniform processing of "I10" suffix across writing fld routines; used to
87        simplify debug writing of cg2/3d_b/x in solve_for_pressure.F & post_cg3d.F
88        (similar to cg3d.F, cg3d_ex0.F)
89    o pkg/mom_vecinv:
90      - highOrderVorticity in selectVortScheme=2 case: fix c4 coeff in splitted
91        vorticity flux (keep same sum in case vBarXm=vBaXp, uBarYm=uBarYp).
92    o pkg/bling:
93      - Many small changes intended to clean the code.
94        Unnecessary ADJOINT_SAFEs removed ;
95        removed BLING_COST.h BLING_CTRL.h bling_cost.F ;
96        diagnostics added.
97    
98    checkpoint66e (2017/03/14)
99    o pkg/exf:
100      - interpolation with #undef EXF_INTERP_USE_DYNALLOC: move buffer size
101        definition outside EXF_PARAM.h in new header file: EXF_INTERP_SIZE.h;
102        use fixed size buffer (passed to S/R EXF_INTERP & EXF_INTERP_UV) to
103        avoid any dynamic allocation ;
104      - S/R EXF_CHECK: add new check & stop when file-name is defined but not
105        read-in ; add warning when file is read-in but not used within pkg/exf ;
106        + check for buffer-size (if #undef EXF_INTERP_USE_DYNALLOC).
107      - update exf_summary.F (print {FLD}RepCycle).
108    o verification/global_with_exf:
109      - switch on exf interpolation in AD test (just like the forward test)
110    o pkg/mom_vecinv:
111      - add storage directives to avoid recomputations within mom_vecinv.F
112        which were generating seg. fault with gfortran -devel
113    o pkg/ctrl, pkg/smooth:
114      - initialize array halos which were generating seg. fault with
115        gfortran -devel in adjoint mode
116    o pkg/exf:
117      - for each input field, enable to specify a field specific repeat-cycle
118        ({FLD}RepCycle) which defaults to pkg/exf main "repeatPeriod".
119    o verification/lab_sea:
120      - update AD results of primary test and noseaicedyn test after switching
121        to new version of TAF (5.3.13 vs 5.3.2 before); agreement with gradient
122        check stays about the same.
123    o pkg/exf:
124      - fix bug in exf_zenithangle.F for cases select_ZenAlbedo > 0 with useCAL=T.
125      - exf_check: MAX_LAT_INC need only be "loc_nlat-1", not equal to loc_nlat
126    o pkg/bling, USE_EXFCO2 code:
127      - add parameter "apco2RepCycle" (set to pkg/exf "repeatPeriod" by default);
128      - update calls to EXF S/R (use new version: EXF_INIT_FLD & EXF_SET_FLD).
129    o pkg/exf:
130      - rename S/R EXF_INIT to EXF_INIT_VARIA ;
131      - add arguments: fldName (for debug msg) and fldRepeatCycle (set to
132        repeatPeriod) to S/R EXF_SET_UV and to S/R EXF_SET_GEN (renamed EXF_SET_FLD)
133        and update calls in pkg/exf calling S/R (exf_getffields.F & exf_getclim.F) ;
134      - add argument: fldName (for debug msg) to S/R EXF_INIT_GEN (renamed
135        EXF_INIT_FLD) and update calls in exf_init_varia.F
136      - For now, for backward compatibility, keep a simplified version of S/Rs
137        EXF_SET_GEN & EXF_INIT_GEN in file exf_set_gen.F
138      - add and pass new arguments: fldName (for debug msg) and fldRepeatCycle
139        to S/R EXF_GetFFieldRec ; update calls in pkg/obcs/obcs_exf_load.F
140    o tools/genmake2:
141      - replace "bc -l" (only used once) by "expr" (already used).
142    o verification/global_ocean.cs32x15:
143      - turn off pkg/cal (useCAL=F) in secondary FWD exp. "icedyn".
144        Note: exf setting (data.exf) can be compared to other exf secondary exp
145        "seaice" (kept with useCAL=T) which has same time dependent forcing.
146    
147    checkpoint66d (2017/02/13)
148    o pkg/exf:
149      - remove setting of useCAL=T when using pkg/exf (useEXF=T); add warning
150        early on (in packages_boot.F) to stress this change in pkg setting.
151      - In (most) verification exp. that use pkg/exf, add useCAL=.TRUE. to data.pkg
152    o model/src:
153      - move call to ecco_phys to end of time step; this may induce minor
154        cost function changes by shifting time averages by one time step
155        for some variables; this revision resulted in changed adjoint results
156        in MITgcm_contrib/verification_other/global_oce_cs32
157    o pkg/exf:
158      - Change EXF_READ_EVAP to only activate code within #ifdef ALLOW_ATM_TEMP ;
159        this prevents to read evap when ALLOW_ATM_TEMP is undef and other fields,
160        e.g. precip, are not available.
161    o pkg/flt:
162      - flt_init_varia.F: use pickupSuff if specified
163      - add code (within #ifdef DEVEL_FLT_EXCH2) and test case as a first,
164        intermediate, step towards completing pkg/exch2 support within pkg/flt;
165        ifdef DEVEL_FLT_EXCH2 then:
166        - flt_init_fixed.F: comment out stop
167        - flt_exch2.F: conserve ipart, jpart (grid coordinates)
168        - exch2_recv_get_vec.F: transform ipart, jpart (grid coordinates)
169        - flt_mapping.F: attempt to fix longitude diagnostic near date-line
170        - flt_init_varia.F: hack initialization (for testing purposes w. LLC90)
171    o tools/genmake2 & pkg/pkg_depend:
172      - define new type of pkg dependency rule ("=pkg_x"), less strict than
173        the "+" rule, that add the dependent pkg (pkg_x) unless it's disabled
174        (-pkg_x in packages.conf).
175      - change pkg/exf dependency rule from "exf +cal" to "exf =cal";
176      - add "+cal" to dependency list of pkg/ecco (needed to compile).
177      - simplify FWD experiment "offline_exf_seaice" by removing pkg/cal.
178    o utils/matlab:
179      - adding ocean_basin routines for defining basin masks.
180    o pkg/exf:
181      - new S/R EXF_GETFFIELD_START replacing EXF_GETFIELD_START, but with more
182        arguments, allowing to check (and stop) if parameter setting of
183         {FLD}startdate1 & date2 and of {FLD}StartTime are consistent with
184        useCAL= T or F. For now, kept a simplified version of EXF_GETFIELD_START
185        for backward compatibility.
186      - change accordingly calls in exf_init_fixed.F + default {FLD}StartTime in
187        exf_readparms.F ; apply same changes to pkg/icefront (for SGRunOff field).
188    o pkg/bling (USE_EXFCO2 code):
189      - fix missing setting of apco2StartTime according to apco2startdate1 & date2
190        by adding a call to S/R EXF_GETFFIELD_START.
191    o pkg/exf:
192      - allows to compile without pkg/cal (but disabled by current dependency
193        rules, i.e., default "pkg/pkg_depend"). Minimal changes to enable to
194        run with useCAL=F ; this involves setting directly {FLD}StartTime instead
195        of {FLD}startdate1 & date2 ; consistency check not yet coded.
196    o verification/global_ocean.cs32x15:
197      - fix all data.exf for a shift of 1 day in all field startdate1 so that it now
198        corresponds to middle of 1rst month; update outputs (2 fwd + 3 adm + 3 tlm).
199    o pkg/exf:
200      - allow to use EXF_ZENITHANGLE without pkg/cal + simplify (saving some
201        calculations); change FWD experiment global_ocean.cs32x15
202        (#define ALLOW_ZENITHANGLE) to test/check that this code compiles.
203    o pkg/exf:
204      - In preparation for addition to NAMELIST, rename internal (_RL) parameter
205         {FIELD}startdate to {FIELD}StartTime
206        Note: new name also fit better the content, i.e, a start time in second.
207    o eesupp/src:
208      - add 1 argument to S/R EEBOOT & EEBOOT_MINIMAL for interface with ESMF
209    o pkg/exf:
210      - add option ALLOW_READ_TURBFLUXES (and corresponding set of parameters)
211        to allow to read-in Sensible & Latent Heat flux ;
212      - simplify pkg/exf main options:
213        1) move small piece of code (case ALLOW_ATM_TEMP undef) out of
214           exf_bulkformulae.F into exf_wind.F so that exf_bulkformulae.F is
215           compiled only when both ALLOW_ATM_TEMP & ALLOW_BULKFORMULAE are defined;
216        2) make call to EXF_RADIATION and to EXF_WIND independent of CPP option
217           ALLOW_BULKFORMULAE which now only applies to S/R EXF_BULKFORMULAE ;
218        3) improve options documentation in EXF_OPTIONS.h.
219    o pkg/ecco:
220      - cost_gencost_customize.F,ecco.h,ecco_phys.F,ecco_readparms.F, and
221        ecco_summary.F: add passive tracer cost functions to gencost;
222        m_ptracer and m_boxmean_ptracer
223    o pkg/ctrl:
224      - ctrl_map_forcing.F: pass myIter and myTime to ctrl_map_forcing as input
225        parameters; move myIter .EQ. nIter0 inside ctrl_map_forcing; add to list
226        of implemented gentim2d contol parameters: xx_qnet, xx_empmr, xx_qsw,
227        xx_sst, xx_sss, xx_pload, xx_saltflux, xx_fu, xx_fv, xx_fe, xx_fn
228    o model/src:
229      - forward_step.F: pass myIter and myTime to ctrl_map_forcing as input
230        parameters; move myIter .EQ. nIter0 inside ctrl_map_forcing
231    o pkg/exf:
232      - exf_getffields.F: add to list of implemented gentim2d contol parameters:
233        xx_lwflux, xx_swflux, xx_evap, xx_apressure, xx_areamask
234    
235    checkpoint66c (2017/01/19)
236    o verification:
237      - add new option "-src" to testreport to only produce source code (*.f),
238        including taf output src code (if using '-adm'/'-tlm' option).
239    o pkg/exf:
240      - add saltflx :: Net upward salt flux in psu.kg/m^2/s
241    o pkg/diagnostics:
242      - add run-time variable diagMdsDir to specify a subdirectory for
243        diagnostic output when mds is being used and mdsioLocalDir is not.
244    o pkg/mnc:
245      - mnc_utils.F: edit stop message
246    o pkg/autodiff:
247      - autodiff_ini_model_io.F: PRINT_MESSAGE, clean-up comments, add _*_MASTER,
248        add HAVE_SYSTEM bracket around system call to mkdir
249    o pkg/profiles:
250      - profiles_findunit.F, profiles_init_fixed.F, profiles_interp.F,
251        profiles_readparms.F: call ALL_PROC_DIE before 'stop'
252      - profiles_ini_io.F: use PRINT_MESSAGE, clean-up comments, add _*_MASTER,
253        add HAVE_SYSTEM bracket around system call to mkdir
254    o pkg/smooth:
255      - smooth_filtervar2d.F, smooth_filtervar3d.F: call ALL_PROC_DIE before 'stop'
256      - smooth_init2d.F, smooth_init3d.F: move print statements to readparms
257      - smooth_readparms.F: add cleaner print statements from smooth_init?d.F
258    o pkg/exf:
259      - check: count errors and stop cleanly at the end (call to ALL_PROC_DIE);
260        issue error message when climsst_interpMethod.GT.0 and climsst_lon_inc > 500
261        generalize tests on interpMethod, nlat, and lon_inc to all exf variables.
262      - summary: skip detailed field report if not used (empty file-name).
263    o tools/xmakedepend:
264      - In case line editor "ed" is missing, switch to "sed" command to clean-up
265        Makefile from previous dependencies (anything after "# DO NOT DELETE" line).
266    o pkg/exf:
267      - change definition of "hflux" input file to always include Short-Wave;
268        this is now consistent with hflux computation (if using bulk-formulae)
269        and hflux diagnostic & documentation (in EXF_FIELDS.h).
270    
271    checkpoint66b (2016/12/01)
272    o model & momentum pkgs:
273      - implement fully implicit bottom friction combined with implicit surf.
274        pressure, for now, only in hydrostic formulation:
275        + to use: compile with #define ALLOW_SOLVE4_PS_AND_DRAG in CPP_OPTIONS.h
276          and run with selectImplicitDrag=2 ;
277        + currently missing diagnostics of bottom drag and vert. viscosity tendency;
278      - partial implicit time-stepping (bot. friction + vert. visc first, then
279        surf. press) corresponding to selectImplicitDrag=1 should be applicable
280        to NH formulation but not available until we solve for surf. pressure
281        increment (instead of full etaN).
282      - change exp. global_ocean.cs32x15.thsice to test implicit bottom drag
283        with implicit vertical viscosity.
284    o pkg/seaice: add linear remapping scheme (Lipscomb 2001) to ITD model
285      - this is a first version that includes many regularisations that may
286        not all be necessary, to be sorted out,
287      - turned on by runtime parameter SEAICEuseLinRemapITD (true by default)
288      - change one verification experiment in seaice_itd to use and test new code
289      - seaice_growth: catch a case where the argument of log can be zero
290        or smaller (important for code stability)
291    o model/src:
292      - modify SOLVE_DIAGONAL_LOWMEMORY version of solve_tridiagonal.F
293        & solve_pentadiagonal.F to enable to re-used inverse matrix for solving
294        similar A.X'=Y' system (with same matrix A) in subsequent calls;
295        switch based on errCode (In/Out) argument value; in calling routines,
296        initialise errCode before first call.
297    
298    checkpoint66a (2016/10/18)
299    o pkg/bling:
300      - BLING package now loads in atmospheric pCO2 file using exf package routines
301        Enable with #define USE_EXFCO2 in BLING_OPTIONS.h
302    o model/src & pkg/ptracers:
303      - with INCLUDE_IMPLVERTADV_CODE defined, also call MOM_U,V_IMPLICIT_R &
304        GAD_IMPLICIT_R (instead of IMPLDIFF) when just implicitViscosity and
305        implicitDiffusion (respectively) are used (even without momImplVertAdv
306        or temp,salt,PTRACERS_ImplVertAdv).
307    o model/src & generic_advdiff:
308      - add parenthesis in main diagonal calculation of implicit vertical
309        diffusion matrix (impldiff.F & gad_implicit_r.F).
310        This affects results at machine truncation level; update output of many
311        verification experiments (31 fwd ; 10 adm ; 8 tlm ; 3 oad).
312    o pkg/mom_commom & generic_advdiff:
313      - add deep atmosphere and anelastic scaling factor in implicit vertical
314        advection routines (mom_u,v_implicit_r.F & gad*_impl*_r.F).
315    o model/src:
316      - remove few unnecessary temp array copies in solve_tridiagonal.F
317        & solve_pentadiagonal.F
318    
319    checkpoint65z (2016/09/28)
320    o pkg/seaice: fix multithreading for seaice_fgmres.F
321      - remove unecessary variables from common blocks
322      - use extra dimension MAX_NO_THREADS for all variables of the Krylov space
323        basis, that are stored in commom blocks (including integer variable i1)
324      - clean up code a little by removing commented lines that refer to
325        original code
326      - turn on multi-threaded test for experiment offline_exf_seaice.dyn_jfnk.
327    o MITgcm manual:
328      - add uptodate pkg/ecco documentation to the manual (section 8.1; ecco.tex),
329        preliminary documentation for generic controls (8.3; ctrl.tex),
330        a placeholder for smooth (8.4; smooth.tex), and comment out the deprecated
331        ecco_costfunction.tex
332    o pkg/ecco:
333      - update and cleanup list of CCP options
334      - re-assign gencost_mask to specify masks rather than gencost_errfile; 'c'
335        is now always passed to cost_generic; gencost_mask is now MAX_LEN_FNAM
336      - add checks that retired run-time options are not used, and in relation
337        to gencost_mask and gencost_errfile
338      - finish deprecating gencost_scalefile, gencost_smooth2Ddiffnbt, and
339        gencost_nrecperiod
340      - fix m_eta computation for virtual salt flux case
341      - add m_horflux_vol case (selected via gencost_barfile) that computes
342        transports via cost_gencost_boxmean (gencost_flag=-3)
343      - use gencost_flag more systematically (i.e., avoid using gencost_name)
344        for code switches (aside from physical variable selection)
345    o pkg/seaice: make seaice_fgmres.F fit for multithreading; this first
346      attempt appears to be a bit of a hack and my need some repair down the road
347    o pkg/exf:
348      - interpolation near South Pole: fix criteria on input field latitude.
349    o pkg/icefront & pkg/exf:
350      - move setting of icefront Sub-Glacial RunOff forcing (currently unused)
351        from pkg/exf (read from data.exf) to pkg/icefront (read from data.icefront)
352    o pkg/exf:
353      - replace CPP option ALLOW_EXF_OUTPUT_INTERP with run-time parameter
354        "exf_output_interp" (in namelist: EXF_NML_04); change output file name
355        (add suffix "_out" instead of a prefix); keep same record number as in
356        input file but always write record 1 first (to avoid a STOP in I/O S/R).
357        Change output file content by writing interpolated field before applying
358        land-sea mask (helpful for debug).
359      - 2 compon. vector interpolation with rotation: apply scaling factor on
360        each compon. (Eastward and Northward) just before rotation.
361    o pkg/bling:
362      - Cleaned package. Removed not needed code and comments.
363      - adjoint example now works
364        (MITgcm_contrib/verification_other/global_oce_biogeo_bling/code_ad)
365    o pkg/ptracers:
366      - add Bruno Deremble's code to complete the linear surface correction
367        for tracer conservation;
368      - enabled for individual ptracers by PTRACERS_linFSConserve(iTr)=.TRUE.
369    
370    checkpoint65y (2016/07/29)
371    o pkg/debug (stats):
372      - change GLOBAL_SUM to GLOBAL_SUM_TILE (result independent of tile to
373        proc/thread mapping);
374      - fix Min & Max for case where 1 thread has only empty tiles;
375      - use RL variable to count number of wet grid points (with big domain,
376        can be too large to fit into integer*4).
377    o pkg/monitor:
378      - use RL variable to count number of wet grid points (but used only for del2)
379      - add new routine to compute Advective CFL within tracer time-stepping with
380        writing delayed until next monitor output.
381    o pkg/obcs:
382      - fix bug in OBCS_BALANCE_FLOW (OBCS_balanceFacN misspelled OBCS_balanceFacW)
383    o pkg/cal:
384      - calandar-dump: treat case myTime < timePhase in the same way as in
385        eesupp/src/diff_phase_multiple.F (when not using calandar-dump).
386    o pkg/dic & seaice:
387      - fix compilation of ocean component for coupled atm+ocn model with
388        seaice dynamics & dic.
389    
390    checkpoint65x (2016/06/11)
391    o add a license text file in main MITgcm tree.
392    o added pkg/bling:
393      - intermediate complexity biogeochemical model
394      - see bling_description.txt for details
395      - verification experiment is global_oce_biogeo_bling (for now, in
396        Contrib/verification_other/); tested daily on baudelaire with gfortran.
397      - add entry point in pkg/gchem for new pkg "bling".
398    o pkg/seaice: fix tensile stength computation
399      - replace global field tensileStrength by tensileStrFac
400      - tensileStrFac can be computed once in S/R seaice_init_varia
401      - fortunately that does not affect any verification results
402    
403    checkpoint65w (2016/05/12)
404    o pkg/ctrl/ctrl.h: fix a comma in common block list, so that code compiles
405         with ECCO_CTRL_DEPRECATED defined
406    o verification/global_ocean.cs32x15:
407      - change secondary test "viscA4" to also test "selectP_inEOS_Zc=3"
408        with "selectNHfreeSurf=1".
409    o model/src (non-hydrostatic free-surface):
410      - More "natural" expression of NH free-surface term (case selectNHfreeSurf=1):
411        was: tmpSurf/(1+tmpSurf); changed to: 1/(1+Gamma) with Gamma=1/tmpSurf.
412      - Calculate surface vertical velocity after 2-D solver adjustment (accounts
413        for EmPmR if RealFreshWaterFlux); used in RHS (cg3d_b) if exactConserv
414        and used to compute dPhiNH (in post_cg3d.F) if selectNHfreeSurf=1.
415        This fixes EmPmR contribution when selectNHfreeSurf=1 & RealFreshWaterFlux.
416      - Update output (changes at machine truncation level) of verification exp:
417        exp4 (11 digits for cg2d), global_ocean.cs32x15.viscA4 (11.d),
418        short_surf_wave (13.d) and tutorial_deep_convection.smag3d (12.d).
419    o pkg/seaice: ITD code
420      - fix picking up from a single category model by initialising
421        heff/area/hsnowITD = 0. in seaice_itd_pickup.F
422      - split a long warning message in seaice_check_pickup.F into two lines,
423        because NEC SX-ACE cannot deal with the long line.
424    o model/src:
425      - fix missing dPhiNH in pressure_for_eos.F (case: selectP_inEOS_Zc=3)
426    o pkg/seaice:
427      - add missing checks for SEAICE_ALLOW_KRYLOV and SEAICE_ALLOW_BOTTOMDRAG
428    o pkg/seaice:
429      - add basal stress as parameterisation for grounding ice
430        following Lemieux et al. (2015)
431      - turn on by setting new parameter SEAICEbasalDragK2 to a value
432        larger than 0. Lemieux et al. (2015) recommend 15.
433      - The adjoint complains with extra recomputations so there is also a
434        new cpp-flag SEAICE_ALLOW_BOTTOMDRAG that is undefined by default in
435        order to postpone the problem
436      - compile the new code in lab_sea
437    o verification/halfpipe_streamice:
438      - update both TAF and OpenAD adm output (machine truncation differences)
439    
440    checkpoint65v (2016/04/08)
441    o verification/advect_xz:
442      - increase overlap size from 3 to 4 and add new secondary test for PQM
443        advection scheme (with mono & wino limiter).
444      - change main exp. to test PPM (with weno limiter) adv.scheme on Temp.
445    o model/src:
446      - new parameters "top_Pres" & "seaLev_Z" (replacing Ro_SeaLevel and recently
447        added phi0Ref) to set vertical axis origin and phiRef origin;
448        keep Ro_SeaLevel for backward compatibility (with a warning).
449       According to coordinate and fluid type:
450        OCN in Z: top_Pres(Ref) (=rhoConst*PhiRef(1)), seaLev_Z (=rF(1), @ the top)
451        ATM in Z: top_Pres(Ref) (=rhoConst*PhiRef(1)), seaLev_Z (=rF(Nr+1) @ bottom)
452        OCN in P: top_Pres (=rF(Nr+1)), seaLev_Z (= PhiRef(Nr+1)/g, @ the top)
453        ATM in P: top_Pres (=rF(Nr+1)), seaLev_Z (= PhiRef(1)/g, @ the bottom)
454      - remove Ro_SeaLevel from ATM experiment parameter files;
455      - in tutorial_global_oce_in_p, remove Ro_SeaLevel and set top_Pres to the
456        complement; update output.txt (changes at machine truncation level).
457    o pkg/seaice/seaice_evp.F
458      - simplify computation of deltaZ and zetaZ to simple averaging following
459        Bouillon et al. (2013). This removes a lot of code, but also changes
460        verification experiment lab_sea.hb87 -> updated
461    
462    checkpoint65u (2016/03/14)
463    o pkg/generic_advdiff:
464      - from Darren: add PPM and PQM advection schemes (number 40-42 and 50-52)
465        with 2 types of limiter (see: Engwirda & Kelley, submit. to JCP);
466        Note (from Darren): unlimited PPM/PQM scheme (40 & 50) are just for
467        testing and not for actual use.
468    o model/src:
469      - add parameter "phi0Ref" to specify reference [pressure/geo] potential at
470        origin r = rF(1);
471      - add options (parameter selectP_inEOS_Zc) to select which pressure to use
472        in EOS for height coordinate: enable to include NH Pressure or to use
473        more accurate pressure vertical profile; options not linked to EOS type
474        (as previously, e.g., JMD95P/JMD95Z) but set default according to EOS type;
475      - start to implement variable gravity (along vertical): for now, only with
476        z-coords (not even z*).
477      - add Ideal Gas equation of state for height coordinate.
478      - update OpenAD output (affected at machine truncation level) of exp:
479        global_ocean.90x40x15, OpenAD (std) and tutorial_global_oce_biogeo.
480    o pkg/exf:
481      - add ALLOW_EXF_OUTPUT_INTERP cpp switch to output the result
482        of exf interpolation (before any rescaling, rotation or interpolation
483        to velocity point) for each field that gets loaded from file. This option
484        identically mimics the input file organization (e.g. record numbers in year
485        by year input files) besides the change in horizontal grid.
486      - add rotateStressOnAgrid run-time switch so that wind stress fields
487        can be provided on the A-grid in zonal/meridional direction and
488        rotated on the fly. This only applies to the case when the exf
489        interpolation is off and rotateStressOnAgrid is false by default.
490    o model/src:
491      - rename internal parameter "useDynP_inEos_Zc" to "storePhiHyd4Phys" (since
492        it's also used with pkg/atm_phys) and add few more parameters (but still
493        inactive, src code yet to come)
494    
495    checkpoint65t (2016/02/10)
496    o pkg/atm_phys:
497      - from Ruth Geen: add optical depth dependence on CO2 concentration.
498    o model/src:
499      - fix vertical inter/extra-polation of density factor rhoFacF (for anelastic)
500        for the case setCenterDr=T (delRc set from "data"); add output of rhoFacC&F.
501        Update output of exp. deep_anelastic (changes at truncation level).
502    o tools:
503      - add a hack in "remove_comments_sed" (used only with TAF) for recent
504        version of OpenMPI (shipped with FC.23): comment out the new header
505        file "mpif-sizeof.h" which causes problems to TAF.
506    o pkg/seaice:
507      - change the termination criterion so that maxits (SEAICElinearIterMax)
508        has an effect
509      - unify iteration parameters for implicit solvers (JFNK and Picard)
510        SEAICEnonLinIterMax replaces SEAICEnewtonIterMax/NPSEUDOTIMESTEPS
511        SEAICElinearIterMax replaces SEAICEkrylovIterMax/SOLV_MAX_ITER
512        SEAICEpreLinIterMax replaces SOLV_MAX_ITER in preconditioner
513        SEAICEpreNL_IterMax replaces NPSEUDOTIMESTEPS in preconditioner
514        SEAICEnonLinTol     replaces JFNKgamma_nonlin
515      - remove S/R SEAICE_FGMRES_DRIVER and put content into S/R SEAICE_JFKN
516      - add new Picard-Krylov solver, compile with SEAICE_ALLOW_KRYLOV and
517        use with SEAICEuseKrylov
518    o pkg/seaice/seaice_lsr.F
519        fix small bug: replace zetaZ by zetaZloc in S/R seaice_lsr_rhsu/v; only
520        relevant if SEAICEuseStrImpCpl=T, and even then it does not seem to have
521        an effect.
522    o pkg/seaice: add two new parameters
523      - SEAICEuseLSR to simplify the logic in seaice_dynsolver (this
524        parameter is not in any namelist)
525      - SEAICEusrPicardAsPrecon to allow s/r seaice_lsr to be used as
526        a preconditioner for the non-linear Newton iteration of the JFNK
527        solver
528    o pkg/seaice/seaice_lsr.F: replace 1./SEAICE_deltaTdyn with recip_deltaT,
529      affects some experiments at truncation level:
530      - global_ocean.cs32x15.icedyn (11 digits),
531      - global_ocean.cs32x15.seaice (11 digits),
532      - seaice_itd (12 digits), seaice_itd.lipscomb07 (12 digits) -> update
533      - also update global_ocean.cs32x15 adjoint and tangent-linear results
534    o pkg/salt_plume & pkg/thsice:
535      - for coupled  set-up with pkg/thsice in ATM and pkg/salt_plume in OCN,
536        connect salt_plume flux to ATM-OCN coupling pkgs interface:
537       a) in ATM: also cumulate salt-plume flux in S/R THSICE_SALT_PLUME (for
538         export to coupler interface) even without compiling pkg/salt_plume ;
539       b) in OCN: apply coupler salt-plume flux to pkg/salt_plume field
540         (saltPlumeFlux) just before exch call, in S/R SALT_PLUME_DO_EXCH.
541    o pkg/dic:
542      - use the updated seaice fraction (from seaice pkgs) for DIC forcing
543        instead of the previous time-step value ; done in new S/R DIC_FIELDS_UPDATE
544        called from the top of dic_biotic_forcing.F (instead of in DIC_FIELDS_LOAD);
545      - move also update with values from ATM-OCN Coupler in the same new S/R
546        (previously done in ocn_apply_import.F).
547    o tools/adjoint_options:
548      - specify explicitly "-f77" or "-f90" in default ad-optfile since TAF (default)
549        has been changed on Jan 14, 2016.
550    o pkg/ggl90:
551      - add alternative discretisation of vertical shear (off by default), to
552        compute the mean (@ grid-cell center) of vertical shear compon instead of
553        vertical shear of mean flow (@ grid-cell center).
554      - add correct parenthesis in ALLOW_GGL90_SMOOTH code to get the same truncated
555        results on adjacent faces of cubed-sphere grids; this fix the restart.
556    o pkg/atm_compon_interf:
557      - skip time-ave over cpl_atmSendFrq of Sea-Level Pressure (atmSLPr) and just
558        pass last value, stored directly before export to CPL ;
559        Note: this affects results of Coupled set-up where OCN uses useImportSLP=T
560      - remove atmSLPr from pickup files (no longer needed for restart)
561    
562    checkpoint65s (2016/01/13)
563    o eesupp & genmake2:
564       - first check for Function ETIME and, if it fails, then check for subroutine
565         ETIME and consistent output; use the appropriate version in timers.F
566    o model/src:
567      - to check restart test, add option to apply EXCH to U,V earlier, just before
568        integr_continuity; turned off by default.
569    o pkg/dic:
570      - remove CPP option USE_ATMOSCO2 (not needed)
571    o tools/tst_2+2:
572      - try to ignore difference between +0 and -0 in binary file, causing test
573        to fail for no good reason.
574    o eesupp & genmake2:
575      - put back modif from Jinxuan Zhu - change etime fct call to S/R call -
576        but also check (in genmake2) that test runs and returns meaningful results.
577    o coupler pkgs:
578      Finish implementation of optionally-exchanged variable switches (started on
579       Nov 12) with addition of few more exchanged fields, including 2-way exchange
580       of pkg/thsice vars to allow to use seaice dynamics (from pkg/seaice) & seaice
581       advection in OCN component; this requires sequential coupling.
582      coupler (pkg/atm_ocn_coupler):
583      - add argument msgUnit and iter number to CPL_SEND/RECV_ATM/OCN_FIELDS
584        routines (useful for debug).
585      - only export/import optionally exchanged fields (RunOff, seaice, Salt-Plume
586         flux, DIC fields) if corresponding switch is ON.
587      - add option to export RunOff to OCN (to use for DIC river input)
588      - add 2-way thSIce vars exchange; check for consistent cpl_sequential setting.
589      components (pkg/atm_ & ocn_compon_interf):
590      - to save memory space in ATM & OCN comp: add some #ifdef ALLOW_${PKG} around
591        optionally exchanged fields; add a check & stop in cpl_readparms.F.
592        ATMCPL.h: ALLOW_LAND for RunOff, ALLOW_THSICE for seaice, ALLOW_AIM for CO2;
593        OCNCPL.h: ALLOW_SALT_PLUME, ALLOW_DIC for DIC, ALLOW_THSICE for 2-W thsice.
594      - rename:   fracIce     -> sIceFrac_cpl (<- match coupler var name)
595        + in ATM: fracIceTime -> sIceFracTime ; seaIceTime -> sIceMassTime.
596      - add 2-way thSIce vars exchange ; add Salt-Plume flux ; add RunOff in OCN.
597      - hold in common block coupler optionally-exchanged variable switch
598        and set default "useImportXXX" accordingly; + check & stop if inconsistent.
599      - add diagnostics for all imported fields from coupler (in both OCN & ATM);
600        this is intended to replace the OCN cplFldtave.* output files (not updated
601        to contain new additional exchanged fields).
602    o pkg/dic:
603      - fix an other bug (also from 2014/08/30) in dic_atmos.F, in dic_int1=3 code.
604    o pkg/thsice:
605      - when coupled to ATM (useCoupler) with thSIce_skipThermo=T, skip reading
606        and writing of thsice pickup files.
607    o pkg/atm_compon_interf:
608      - move all field individual export-call out of cpl_export_import_data.F
609        into new S/R ATM_EXPORT_FIELDS
610    o pkg/atm_compon_interf:
611      - store state variables (for now, only thSIce fields) just before beeing
612        exported (in cpl_export_import_data.F, like on ocean side) instead of from
613        atm_store_my_data.F like all exported fluxes.
614      - new version of pickup_cpl: write field names into meta file and read meta
615        file to find field postion in pickup. Also only write/read fields meeded for
616        restart (same logic as main pickup file ; also using pickupStrictlyMatch)
617    o pkg/dic:
618      - fix bug (added on 2014/08/30) in dic_atmos.F for the case dic_int1= 2 or 3.
619    o pkg/seaice: add new parameter SEAICEpressReplFac to choose between
620        pressure replacement method (=1., default) or original Hibler (1979) (=0.)
621        value can be from domain [0,1] to average between the two methods
622    o pkg/atm_phys:
623      - allow to provide 2-d map of albedo and mixed-layer depth from files (but
624        hold fixed in time).
625    
626    checkpoint65r (2015/12/21)
627    o pkg/seaice:
628        fix bug in tridiagonal solvers for SEAICE_OLx/y>0, this affects the JFNK
629        solver (offline.dyn_jfnk) and global_ocean.cs32x15.seaice -> updated
630    o pkg/seaice:
631      - fix a bug in computing areaS in (J-J -> J-1) that affects runs
632        when SEAICEscaleSurfStress=.TRUE.,
633      - apply areaW and areaS in S/R seaice_calc_lhs
634    o pkg/atm_phys:
635      - add diagnostics for 3-D, Nr+1 levels diagnostics of radiative fluxes
636        (shortwave & longwave, net & downward) and diagnostics of temp. tendency
637        for individual contribution (convection, LSC cond, radiation)
638      - add Ruth Geen etal, GRL 2016, radiation options (see paper supp.
639        information); activated with: solar_exponent=0. and wv_exponent=-1.
640    o pkg/ggl90:
641      - within IDEMIX add upper limit for horizontal group velocity to
642        avoid instability problems in the explicit horizontal diffusion term for
643        long time steps or high resolution
644    o pkg/diagnostics:
645      - simplify setting of local-array size in diagstats_output.F: uses "numLevels"
646        (from DIAGNOSTICS_SIZE.h) to allow to write out more than Nr levels.
647    o testreport:
648      - remove "-v" (verbose option) in default mpirun command.
649    o pkg/seaice/seaice_growth:
650      - catch potential division by zero in ITD code, does not change
651        verification results
652    o pkg/ecco:
653      - retire old codes to the Attic. The calls to retired functions are
654        left in a commented form in case they ever need to be re-activated.
655      - ecco_check.F: issue warning if any old CPP option is
656        defined that corresponds to retired codes -- then stop.
657    o pkg/atm_compon_interf:
658      - change seaice fraction (use for OCN dic surf.flux) stored and sent to
659        coupler: use last time-step value instead of average over cplSendFrq_iter
660        time-step, similar to what is done for seaIceMass.
661        This will affect results (pkg/dic) of coupled ATM-OCN+dic set-up.
662    o eesupp & genmake2:
663      - from Jinxuan Zhu: change etime fct call to S/R call (fix gfortran ETIME);
664        <= remove until a fix is found for some ifort version on ia32 machine.
665    o pkg/seaice/seaice_evp:
666      - refine residual computation
667    
668    checkpoint65q (2015/11/18)
669    o pkg/seaice/seaice_evp:
670      - fix residual computations so that they no longer affect the actual
671        simulation code
672      - fix seaice_readparams to be able to actually set new parameters
673        SEAICEaEVPcStar and SEAICEaEVPalphaMin, also fix logic a little
674    o model/src:
675      - fix wrong truncation (single prec) from "FLOAT" function in expressions
676        like: deltaT*FLOAT(myIter) when myIter is large:
677         a) replaced by DFLOAT (if not seen by TAF);
678         b) remove "FLOAT" and use implicit type conversion (if seen by TAF).
679    o pkg/aim_v23:
680      - write/read the expected CO2 pickups (from S/R AIM_DO_CO2): fix reading
681        when pickupSuff is set ; do write rolling pickups + at the end of the run.
682    o pkg/atm_ocn_coupler + ocn_compon_interf:
683      - in prep for using pkg/seaice Dyn in coupled set-up, implement sequential
684        coupling option-1: ATM -(cpl)-> OCN and then OCN -(cpl)-> ATM ;
685        add corresponding call in DO_OCEANIC_PHYS.
686    o coupler pkgs:
687      Start a new way to set-up optionally-exchanged variables (previously, only
688       there for exchange_DIC): switch on/off from 1 place, at run-time, in coupler
689       data.cpl (new) instead of at compile time in ATMIDS.h & OCNIDS.h ;
690       send switch to ATM & OCN compon before reading their own "data.cpl" (so that
691       compononent param default can be set accordingly).
692      Note: this new switch (cpl_exchange_[xxx]) is not a per variable switch
693       but rather applies to a group a fields (going both ways like for DIC)
694       and corresponds to an option of coupling config.
695      coupler (pkg/atm_ocn_coupler):
696      - change parameter file from "data" to "data.cpl" (in cpl_read_params.F),
697        and read namelist directly (without eessup S/R calls) instead of
698        in the very un-flexible old way, 1 param per line, in fixed order;
699      - add error-counter to track errors (e.g., missing "data.cpl") and to stop
700        cleanly in CPL_CHECK_CPLCONFIG
701      - add new coupling-exchange selectors (some not yet active) including
702        cpl_exchange_DIC (to set to 3 to replace atmCpl_exchange_DIC=T in ATMIDS.h
703                                             and ocnCpl_exchange_DIC=T in OCNIDS.h);
704      - add 2 new S/R (CPL_SEND_ATM/OCN_CPLPARMS) to send coupler-params to each
705        component ; called directly from coupler.F, after comp. registrations;
706      - rename few variable-ID names (in ATMIDS.h & OCNIDS.h):
707         atm/ocnSeaIceName --> atm/ocnSIceMassName ; atm/ocnFCO2Name ->
708          -> atm/ocnCO2FluxName ; atm/ocnWSpdName --> atm/ocnWindSpdName
709      components (pkg/atm_ & ocn_compon_interf):
710      - add ATM/OCN_CPL_OPTIONS.h in component pkgs and include the corresponding
711        CPP header file in all pkg source files.
712      - move checking of comp. configs out of cpl_exch_configs.F into new S/R
713        ATM/OCN_CHECK_CPLCONFIG;
714      - add error-counter to track errors (e.g., in "data.cpl") and to stop
715        cleanly in ATM/OCN_CHECK_CPLCONFIG;
716      - add new S/R CPL_IMPORT_CPLPARMS to import coupling-exchange selectors
717        from coupler ; called from initialise_fixed.F, after PACKAGES_BOOT and
718        before PACKAGES_READPARMS;
719      verification/cpl_aim+ocn/:
720      - update ATMIDS.h & OCNIDS.h (in shared_code) and use new parameter file
721        "data.cpl" for coupler (in input_cpl).
722    o eesupp/inc:
723      - change the MPI-global-sum default (in CPP_EEOPTIONS.h) to:
724        #define GLOBAL_SUM_ORDER_TILES (only affects MPI built of global_sum_tile.F)
725        to always cumulate tile local-sum in the same order (still uses
726        MPI_Allreduce like standard code).
727      - in verification experiment code, remove local CPP_EEOPTIONS.h_mpi files
728        that are now identical to standard version (in eesupp/inc).
729    o pkg/shelfice:
730      - add SHELFICETransCoeffTFile for initializing spatially varying
731        heat and salt transfer coefficients
732    o pkg/atm_compon_interf & ocn_compon_interf:
733      - combine into 1 (new) S/R CPL_EXPORT_IMPORT_DATA the two previous
734        S/R CPL_EXPORT_MY_DATA & CPL_IMPORT_EXTERNAL_DATA
735      - move bi,bj loops inside S/R OCN_STORE_MY_DATA
736    o pkg/atm_ocn_coupler:
737      - initialise to zero ATMVARS.h & OCNVARS.h arrays.
738    o pkg/rbcs:
739      - select RBCS-mask for Temp & Salt the same way as for pTracer ; this allows
740        to compile with maskLEN=1 when all tracers use the same RBCS-mask.
741      - add a short report (to STDOUT) about RBCS-mask settings.
742    
743    checkpoint65p (2015/10/23)
744    o pkg/seaice/seaice_evp.F: fix store directives and key computations, since
745        there is no adjoint test for EVP, we don't know what it does to the adjoint
746        solution, but at least there are no more recomputation warnings left
747    o pkg/seaice/seaice_evp.F: slight modification of averaging so that EVP stands
748        a chance of giving the same results as a fully converged VP (JFNK) solver
749    o tools/adjoint_options/adjoint_diva:
750      - fix bug (typo) in Tang-Linear FLAGS setting for MPI + DIVA
751    o pkg/streamice:
752      - spotted bug in streamice_driving_stress using dyG where should have been dxG
753    o pkg/exf:
754      - remove STOP statement that prevented to use wind or (wind-)stress
755        interpolation for constant-in-time forcing fields (wind/stress period = 0).
756    o pkg/seaice:
757      - replace SEAICE_EVP_USE_ADAPTATION by run time parameters, requires
758        5 additionals 2D fields and 6 new store directives
759      - change logic in seaice_readparms.F: EVP code can now be turned on in
760        various ways, setting SEAICE_deltaTev is no longer required,
761        alternatively set SEAICE_evpAlpha/Beta, SEAICEuseEVPstar, SEAICEuseEVPrev,
762        or SEAICEaEVPcoeff
763    o pkg/shelfice/shelfice_thermodynamics.F
764      - redefining uLoc/vLoc to u/v, instead of 2u/v
765    o pkg/seaice/seaice_evp.F: introduce "adaptive EVP" by Madlen Kimmritz
766      - this is an intermediate state of a truely converging EVP that has
767        the potential of outperforming implicit VP methods, I do not recommend
768        using it yet.
769      - for now, "adaptive EVP" is turned on by setting SEAICE_EVP_USE_ADAPTATION
770        and all parameters are hardwired
771      - for convergence it still requires very smooth regularisations, that means,
772        if SEAICE_DELTA_SMOOTHREG is defined, deltaCreg=deltaC+deltaMin, which is
773        different from the VP case with deltaCreg=sqrt(deltaC**2+deltaMin**2); also
774        specific averaging appears to be required, still subject to tuning
775      - still needs cleaning and I need to turn parameter into runtime parameters
776      - add code to compute and print residuals of iteration, compile with
777        defining ALLOW_SEAICE_EVP_RESIDUAL to enable it
778    o pkg/seaice/seaice_evp.F: fix a bug (factor of four in front of e12Csq)
779      that entered with r1.54 on Sep04, 2015, -> update results
780    
781    checkpoint65o (2015/09/14)
782    o pkg/mom_vecinv & mom_common:
783      - add deep-atmosphere geometry factor in mom_calc_visc.F + in routines
784        called from there.
785      - add anelastic and deep-atmosphere geometry factor in pkg/mom_vecinv ; this
786        allows to use Vector-Invariant form in deep atmos and anelastic formulation
787  o pkg/seaice: introduce fast ice parameterisation following Itkin et al. (2015)  o pkg/seaice: introduce fast ice parameterisation following Itkin et al. (2015)
788    and Koenig-Beatty+Holland (2012)    and Koenig-Beatty+Holland (2012)
789    - two new parameters SEAICE_tensilFac and SEAICE_tensilDepth    - two new parameters SEAICE_tensilFac and SEAICE_tensilDepth
# Line 15  o pkg/seaice: introduce new parameter SE Line 795  o pkg/seaice: introduce new parameter SE
795    - if TRUE scale ice-ocean and ice-atmosphere stress acting on sea ice    - if TRUE scale ice-ocean and ice-atmosphere stress acting on sea ice
796      by AREA according to Connelly et al. (2004), JPO.      by AREA according to Connelly et al. (2004), JPO.
797    - For EVP and the LSR solver, the implicit part of the drag term is    - For EVP and the LSR solver, the implicit part of the drag term is
798      the only non-zero term in the denominator when there is no ice (which      the only non-zero term in the denominator when there is no ice (which
799      prevented running the model with zero ice-ocean drag). If      prevented running the model with zero ice-ocean drag). If
800      SEAICEscaleSurfStress = .TRUE., this results in a division by zero      SEAICEscaleSurfStress = .TRUE., this results in a division by zero
801      (or zero main diagonals BU/BV) which need to be caught. A practical      (or zero main diagonals BU/BV) which need to be caught. A practical
802      consequence is that for open water, the momentum equation reduce      consequence is that for open water, the momentum equation reduce
803      to trivially 0 = 0 + 0 (for EVP). For LSR, BU/BV are reset to 1, if      to trivially 0 = 0 + 0 (for EVP). For LSR, BU/BV are reset to 1, if
804      they happen to be zero, often leading to a non-zero solution over      they happen to be zero, often leading to a non-zero solution over
805      open water.      open water.
806  o pkg/seaice: revise EVP code (seaice_evp.F) in preparation for a more  o pkg/seaice: revise EVP code (seaice_evp.F) in preparation for a more
807      efficient EVP method.      efficient EVP method.
808    - introduce area-weighted averages for e12 (analogously to    - introduce area-weighted averages for e12 (analogously to
809      seaice_calc_viscosities.F); this totally changes lab_sea.hb87 (2 digits      seaice_calc_viscosities.F); this totally changes lab_sea.hb87 (2 digits
810      remain, but also changing the order of terms in the previous average      remain, but also changing the order of terms in the previous average
811      changed the results as much) -> update experiment      changed the results as much) -> update experiment
812    - add SEAICE_DELTA_SMOOTHREG code    - add SEAICE_DELTA_SMOOTHREG code
813    - disentangle computation of zetaC/deltaC and zetaZ/deltaZ, also for    - disentangle computation of zetaC/deltaC and zetaZ/deltaZ, also for
814      TEM-code      TEM-code
815    - adjust loop bounds so that only required fields are computed    - adjust loop bounds so that only required fields are computed
816    - add new averaging code for zetaZ/deltaZ (again similar to    - add new averaging code for zetaZ/deltaZ (again similar to
817      seaice_calc_viscosities.F), inactive by default for now (will change      seaice_calc_viscosities.F), inactive by default for now (will change
818      results again), but will replace old code eventually      results again), but will replace old code eventually
819  o eesupp/src:  o eesupp/src:
# Line 44  o eesupp/src: Line 824  o eesupp/src:
824      and should be faster than GLOBAL_SUM_SEND_RECV code.      and should be faster than GLOBAL_SUM_SEND_RECV code.
825    - switch almost all verification experiments that use GLOBAL_SUM_SEND_RECV    - switch almost all verification experiments that use GLOBAL_SUM_SEND_RECV
826      (defined in CPP_EEOPTIONS.h_mpi) to GLOBAL_SUM_ORDER_TILES instead.      (defined in CPP_EEOPTIONS.h_mpi) to GLOBAL_SUM_ORDER_TILES instead.
827    - add CPP_EEOPTIONS.h_mpi with GLOBAL_SUM_ORDER_TILES defined in 13 more exp.:    - add CPP_EEOPTIONS.h_mpi with GLOBAL_SUM_ORDER_TILES defined in 14 more exp.:
828       aim.5l_cs, cheapAML_box, deep_anelastic, dome, fizhi-cs-32x32x40,       aim.5l_cs, cheapAML_box, deep_anelastic, dome, fizhi-cs-32x32x40,
829       fizhi-cs-aqualev20, global_ocean_ebm, matrix_example, natl_box,       fizhi-cs-aqualev20, fizhi-gridalt-hs, global_ocean_ebm, matrix_example,
830       solid-body.cs-32x32x1, tutorial_advection_in_gyre, tutorial_baroclinic_gyre       natl_box, solid-body.cs-32x32x1, tutorial_advection_in_gyre,
831       and tutorial_held_suarez_cs.       tutorial_baroclinic_gyre and tutorial_held_suarez_cs.
832    
833  checkpoint65n (2015/07/29)  checkpoint65n (2015/07/29)
834  o pkg/thsice:  o pkg/thsice:
# Line 378  o model/src & mom pkgs: Line 1158  o model/src & mom pkgs:
1158      just copy level Nr value to level Nr+1.      just copy level Nr value to level Nr+1.
1159  o doc:  o doc:
1160    - add notes form Abhisek Chakraborty on how to close Heat & Salt budgets.    - add notes form Abhisek Chakraborty on how to close Heat & Salt budgets.
1161  o pkg/streamice:  o pkg/shelfice:
1162    - shelfice_init_varia.F, shelfice_init_fixed.F, shelfice_readparms.F,    - shelfice_init_varia.F, shelfice_init_fixed.F, shelfice_readparms.F,
1163      SHELFICE.h: move array shelficemass to init_varia, initialise      SHELFICE.h: move array shelficemass to init_varia, initialise
1164      from array shelficemassinit, which is set in init_fixed and      from array shelficemassinit, which is set in init_fixed and
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