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Revision 1.99 - (show annotations) (download)
Tue Nov 5 19:58:17 2002 UTC (21 years, 6 months ago) by adcroft
Branch: MAIN
Changes since 1.98: +3 -1 lines
Added non-hydrostatic Coriolis term to U equation
 - needs new PARAMS.h arraya fCoriCos(i,j,bi,bj)
 - new routine: mom_u_coriolis_nh()

1 $Header: /u/gcmpack/MITgcm/doc/tag-index,v 1.98 2002/11/05 19:20:40 adcroft Exp $
2
3 Notes on tags used in MITgcmUV
4 ==============================
5
6 o added 2*Omega*Cos(phi)*W to u equations (non-hydrostatic Coriolis term)
7 New routine: mom_u_coriolis_nh()
8 o fixed sign of non-hydrostatic metric terms in u and v equations.
9 Depend on correct sign of gravitySign.
10 o added work.pc* to .cvsignore in aim directories using ifc
11 o introduced flag for controllin non-hydrostatic metric terms
12 o removed gravitySign from PARM04
13 o switched to g77/ifc from pgf77 in aim experiments
14
15 checkpoint46l_post
16 o made convective adjustment work with pressure coordinates:
17 - changed the direction of k-loop in convective_adjustment.F for the
18 case of pressure coordinates (OCEANICP,ATMOSPHERIC buoyancyRelation)
19 - adjusted the reference pressure k-index in convective_adjustment.F
20 - adjusted the convection condition in convect.F (in analogy to
21 calc_ivdc.F)
22 - convective_adjustment no longer computes anything on the halos
23 - removed the warnings about negative salinity from find_rho.F and
24 find_alpha.F; instead the new routine look_for_neg_salinity, called
25 at the beginning of find_rho, find_alpha, and find_beta, does a
26 check of the entire slice, if CPP-option
27 CHECK_SALINITY_FOR_NEGATIVE_VALUES is defined
28 checkpoint46l_pre
29
30 checkpoint46k_post
31 o fixed the verification/global_ocean.90x40x15 experiment:
32 - new bathymetry (the world according to A., JMC, and M.)
33 - new initial fields and forcing fields (*.bin files)
34 - new POLY3.COEFFS (for the next release one should switch to a full
35 equation of state: JMD95P or MDJWF)
36 - fixed several errors and redundancies in the data file
37 - experiment uses looped cells
38 - added matlab directory with diagnostic scripts for plotting of output
39
40 o S/R aim_initialise.F replace S/R aim_init from file aim_do_inphys.F:
41 - read AIM physics parameters from a file (data.aimphys)
42 - set defaults values = F.Molteni paper (Clim.Dyn., 2002)
43
44 checkpoint46j_post
45 o split calc_exact_eta in 2 S/R : integr_continuity & update_etaH
46 o move wVel computation at the end of the time step, in S/R integr_continuity
47 o create specific S/R to exchange T,S before DYNAMICS (for stagger time step)
48 o update timeave pkg for wVel diagnostic.
49 checkpoint46j_pre
50
51 checkpoint46i_post
52 o Clean up AIM package (and keep the results unchanged):
53 include CPP_OPTION and use IMPLICT NONE in all routines ;
54 declare all the variables _RL ; use _d 0 for all numerical constants.
55 use ifdef ALLOW_AIM everywhere. And now AIM can be used with g77 !
56
57 checkpoint46h_post
58 o cleaned up the use of rhoNil and rhoConst.
59 - rhoNil should only appear in the LINEAR equation of state, everywhere
60 else rhoNil is replaced by rhoConst, e.g. find_rho computes rho-rhoConst
61 and the dynamical equations are all divided by rhoConst
62 o introduced new parameter rhoConstFresh, a reference density of fresh
63 water, to remove the fresh water flux's dependence on rhoNil. The default
64 value is 999.8 kg/m^3
65 o cleanup up external_forcing.F and external_forcing_surf.F
66 - can now be used by both OCEANIC and OCEANICP
67 checkpoint46h_pre
68
69 Added code to convert surface volume flux (fresh water) into
70 a mass flux when using P coordinates in the ocean (OCEANICP).
71 Note: It assumes you have set rho0=rhoConst=density of fresh water.
72
73 checkpoint46g_post
74 o Include a new diagnostic variable phiHydLow for the ocean model
75 - in z-coordinates, it is the bottom pressure anomaly
76 - in p-coordinates, it is the sea surface elevation
77 - in both cases, these variable have global drift, reflecting the mass
78 drift in z-coordinates and the volume drift in p-coordinates
79 - included time averaging for phiHydLow, be aware of the drift!
80 o depth-dependent computation of Bo_surf for pressure coordinates
81 in the ocean (buoyancyRelation='OCEANICP')
82 - requires a new routine (FIND_RHO_SCALAR) to compute density with only
83 Theta, Salinity, and Pressure in the parameter list. This routine is
84 presently contained in find_rho.F. This routine does not give the
85 correct density for 'POLY3', which would be a z-dependent reference
86 density.
87 o cleaned up find_rho
88 - removed obsolete 'eqn' from the parameter list.
89 o added two new verification experiments: gop and goz
90 (4x4 degree global ocean, 15 layers in pressure and height coordinates)
91 checkpoint46g_pre
92
93 checkpoint46f_post
94 o Enable tangent linear (forward mode) gradient checks:
95 - extended active file handling to g_... files
96 - added TANGENT_SIMULATION to theSimulationMode
97 - extended grdchk package accordingly
98 o added tangent linear setup in verification/carbon/code_ftl
99 o added adjoint setup in verification/front_relax/code_ad
100
101 checkpoint46e_post
102 o Added new equation of state -> MDJWF
103 - EOS of McDougall et al., 2002, JAOT, submitted
104 - caveat: the equation of state is only valid for a smaller (more
105 realistic?) range of values than JMD95P/Z and UNESCO
106 - added masks to the calculation of pressure in store_pressure
107 - added more check values for density in check_eos (ini_eos.F), some of
108 the old check values are out of the range of the MDJWF-eos, so don't
109 expect perfect matches for those
110 checkpoint46e_pre
111
112 checkpoint46d_post
113 o fixed store_pressure to work with both buoyancy relation = 'OCEANIC' and
114 'OCEANICP', also initialised field pressure correctly in ini_eos in the
115 case of pressure coordinates. eosType='JMD95Z' in
116 combination with buoyancyRelation='OCEANICP' now causes an error.
117 o Changed p = pressure(i,j,k,bi,bj) to p = pressure(i,j,kRef,bi,bj)
118 in find_alpha/beta.
119 checkpoint46d_pre
120
121 o Changed p = pressure(i,j,k,bi,bj) to p = pressure(i,j,kRef,bi,bj)
122 so that JMD95Z and JMD95P give approptiate static stability in find_rho.
123
124 checkpoint46c_post
125 o Changes necessary for ocean in p-coordinates
126 - Added new buoyancy relation = 'OCEANICP'
127 - Added new parameters = gravitySign (this used to be contained inside
128 the factor dRdZ which I added when we first switched to R coordinates).
129 X GM/Redi is not compatible (yet)
130 X bottom drag and no-slip need to be debugged.
131 checkpoint46c_pre
132
133 checkpoint46b_post
134 o Added new equation of state -> JMD95Z and JMD95P
135 - EOS of Jackett and McDougall, 1995, JAOT
136 - moved all EOS parameters into EOS.h
137 - new routines ini_eos.F, store_pressure.F
138 o Added UNESCO EOS, but not recommended because it requires
139 in-situ temperature (see JMD95)
140 o Modified formatting for knudsen2.f in utils/knudsen2 and added
141 unesco.f to be used with POLY3
142 checkpoint46b_pre
143
144 checkpoint46a_post
145 o Added (atmospheric) pressure loading
146 - new field in FFIELDS.h, etc...
147 - new cpp flag ATMOSPHERIC_LOADING
148 o Changed hFacC to _hFacC in calc_phi_hyd.F
149 o Added SHORTWAVE_HEATING to some files for consistency
150 checkpoint46a_pre
151
152 checkpoint46
153 further merges from release1_p5
154 o new ctrl package
155 - adopted from ECCO environment to enable optimization
156 - added Eliassen Palm fluxes to controls
157 o added Eliassen Palm flux controls to gradient check package
158 o cost package
159 - Compatible with new ctrl package
160 - added Eliassen Palm cost hooks
161 - modif's of existing cost functions
162 o Adjoint-related bug fixes in kpp:
163 - kpp_calc: sore of kpphbl avoids recomputation/call to S/R kppmix
164 - kpp_routines: store of Rib avoids partial recomputation bug of TAF.
165 o autodiff package
166 - flow directives:
167 + new for S/R do_the_model_io
168 + enhanced for S/R checkpoint
169 + new gmredi.flow
170 - Introduced CPP option ALLOW_AUTODIFF_MONITOR to
171 disable adcommon.h/g_common.h by default.
172 - fixed problem for adjoint of global_max
173 o modified verification/carbon/
174 o New setup for adjoint of global_ocean
175 o added hooks for Eliassen Palm fluxes (dynamics.F, ini_fields.F)
176 o cleaned TAF keys iikey, idkey (dynamics.F, thermodynamics.F)
177 o incorporated hooks for sponge layer code (external_forcing.F)
178
179 checkpoint45d_post
180 o import 2 fixes from release1_p5 (CG2D.h & packages_readparms.F)
181 o use recip_dx*,recip_dy* instead of /dx*,/dy* in orlanski_E,W,N,S
182 (affects plume_on_slope "cg2d" output)
183 o add new parameter deltaTfreesurf for free-surface time stepping
184 o exchange gT,gS when using staggerTimeStep & GM & Oly<4
185 o NONLIN_FRSURF: rescale gNm1 to get a better conservation with A-B
186 o change phiMin in exp1 (to agree with documentation)
187 o add new flags:
188 - T,S forcing inside/outside Adams-Bashforth
189 - turn off temp,salt advection and/or forcing
190 - for each tracer, define internal flag for multiDimAdvection & A-B
191 o monitor: change definition of KE to check conservation of Energy
192
193 checkpoint45c_post
194 o Removed f90 comments ("!")
195 o Modified initialisations to enable exf package for MITgcm
196 (without invoking ECCO_PACKAGE).
197 o modifications to gradient check package (Martin Losch)
198 - enable centered differences
199 - modified format of standard output
200
201 checkpoint45b_post
202 o cleaned exchange calls in cg2d
203 o Included CPP option ALLOW_AUTODIFF_MONITOR in forward_step
204 o included CPP option SINGLE_LAYER_MODE in thermodynamics
205 to configure barotropic setup (Martin Losch)
206 o moved some initialisations within bi,bj loop in dynamics
207 (TAF flow dependency)
208 o in initialise_varia, moved call packages_init_variables
209 before convective_adjustment_init
210 (corresponding adjustment of TAF tape initialisation).
211 o in calc_diffusivity/calc_viscosity extended domain to full overlap.
212
213 checkpoint45a_post
214 o compute Rho over the whole domain (extend iMin,jMin indices)
215 o specific exchange for X-slice domain (case Ny=1)
216 o argument futureIter of S/R obcs_calc missing in exp4 & internal_wave /code
217 o solve_for_pressure : set cg2d_x to zero where OBCS are applied
218
219 checkpoint44h_post = checkpoint45
220 o Fix to restore differentiability:
221 place at which packages_init_variables is called in
222 initialise_varia is crucial for reverse control flow.
223 o modifications in GMRedi to enable stable adjoint
224 (corresponding modif's in thermodynamics, dynamics)
225 o added missing hook for sponge layer code in external_forcing
226 o modified test cost functions
227 o storing in gad_advection (plus removal of write(0,*)!
228 o missing headers TR1.h added in convective_adjustment routines
229 o errorMessageUnit set non-equal zero in eeboot
230 (conflict on some platforms, e.g. IBM SP3)
231 o modified carbon verif.
232
233 checkpoint44h_pre
234 o vertical grid option: allow to put the Interface at the middle between
235 2 cell-centers ; replace delZ in pkg/kpp by drF.
236 o GM Advective form: Tracers are advected using the residual transport (=
237 Euler+GM-bolus); set param GM_AdvSeparate=T to return to previous form.
238
239 checkpoint44g_post
240 o fix surface correction term in multiDimAdvection (affects plume_on_slope
241 results) ; ifdef missing in thermodynamics.F
242
243 checkpoint44f_pre,checkpoint44f_post
244 o added PTRACERS package
245 This allows an arbitrary number of passive tracers to be integrated
246 forward simultaneously with the dynamicaly model.
247 + Implemented so far:
248 - basic forward algorithm (time-stepping, advection, diffusion, convection)
249 - I/O and checkpointing
250 - GM/Redi *but* using the GM/Redi coefficient of Salt
251 + Not implemented so far:
252 - KPP
253 - OBCS
254 + No specific example supplied (yet) but global_ocean.90x40x15 has the
255 necessary data.ptracer file. Simply use -enable=ptracers and uncomment
256 line in data.pkg.
257 + This package is disabled by default since it increases storage.
258
259
260 o testscript: added -cleanup option
261 o Shap_filt: a) new shap_filt S/R to use no-slip BC with S2 filter
262 b) enable to filter 2D fields.
263
264 checkpoint44e_pre,post
265 o re-wrote convective adjustment to use pre-calculated weights
266 Affects: model/src/convective_adjustment.F, convective_adjustment_ini.F
267 Adds: model/src/convective_weights.F, convectively_mixtracer.F
268 Original calls to convect() still in place.
269
270 chkpt44d_pre,post
271 o added missing EXCLUDE_MONITOR flags
272 o changed "e" to "_d" in gmredi_slope_limit, gmredi_slope_psi
273 (incompatible typ in MIN/MAX expressions caused problems
274 on IBM SP3)
275 o in genmake added variable MAKEDEPEND
276 plus resetting for case SunOS
277 o added timer_stats.c routine for IBM SP3
278 o removed variables in dynamics
279 !!! I forgot to create tag chkpt44d_pre !!!
280 !!! But chkpt44d_pre = chkpt44c_post !!!
281
282 o real fresh water flux implemented with non-linear free-surface.
283
284 chkpt44c_pre,post
285 o few fix (mask in shap_s2, EmPmR in external_field_load,
286 USE_NATURAL_BCS in solve_for_P);
287 o add arguments myIter & myTime to S/R obcs_calc & solve_for_P
288
289 checkpoint44b_pre/_post
290 o merge of relevant stuff from the ecco-branch:
291 - genmake: removed $S64 overwrite for case SunOS
292 - pkg/exf: update and corrections for field swapping and obcs
293 - pkg/ecco: parameter lists for the_model_main, the_main_loop
294 harmonized between ECCO and MITgcm
295 - pkg/autodiff: added flow directives for obcs, mdsio_gl_slice
296 updated checkpointing_lev... lists for obcs
297 - model/src: minor changes in forward_step, plot_field
298 added directive for divided adjoint in the_main_loop
299 - pkg/mdsio: added mdsio_gl_slice
300
301 o check parameters & config (chkpt44a_pre,post)
302 o OBC and NonLin_FrSurf.
303
304 checkpoint44
305 o fix bug in mom_vi_del2uv
306 o select when filters are applied ; add options to zonal_filter (data.zonfilt)
307 o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection)
308 o update AIM experiments (NCEP input files)
309 o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf)
310 o added some stuff for AD
311
312 checkpoint43
313 o added two new advection tests
314 o added global 4x4 degree ocean test
315 o added test of H&S94 with free surface on cube
316 o some final mods for gradient check, adjoint,...
317
318 checkpoint42
319 Fixed AD-related problems:
320 o Store directives up-to-date with re-arranged Adams-Bashforth
321 (mainly thermodynamics.F)
322 o New store directives for multi-dim. advection schemes
323 * new CPP flag ALLOW_MULTI_DIM_ADVECTION
324 * new common block and key passkey
325 (mainly gad_advection.F)
326 o Modified store directives for split of dynamics/thermodynamics
327 for the case ALLOW_KPP
328 o Cleaned argument list for timestep_tracer.F
329
330 checkpoint41
331 o re-formatted/added comments in prologues of key subroutines
332 to work with protex
333
334 checkpoint40
335 o moved calc_gs, calc_gt and calc_tr1 back to model/src
336 o added FLT (floats) package from Arne along with demo. experiment
337 o re-arranged Adams-Bashforth scheme for tracers to allow easier
338 implementation of forward-in-time forcing terms
339 o more mods for non-linear free-surface including new variable
340 o modified multi-dim method to work on cube
341 o bug fix in KPP (from DM)
342
343 checkpoint40pre9
344 o added DST advection schemes
345 o fix MPI bug on SGI's
346 o modifications for non-linear free-surface
347 o fixed conditionals for fixed flow/passive tracer only mode
348 o added tension/strain form of stress tensor
349 o changes to commenting of arguments for TAF/TAMC
350 o added/updated many matlab scripts
351 o added multi-dimensional advection method for tracers
352
353 checkpoint40pre8
354 o new package rw/
355 Added method for dumping intermediate local arrays:
356 mdsio_writetile - same as mdsio_writefield except works from inside
357 bi,bj loop
358 mdsio_writelocal - same as mdsio_writetile except works for local
359 arrays
360 write_local_r? - higher-level wrapper for mdsio_writelocal
361 Controlled by diagFreq. Defaults to zero (ie. no dumps)
362 Example given at end of mom_vecinv.F that dumps some local arrays.
363 o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to
364 control flux-form versus vector invariant code.
365 Switch is runtime flag vectorInvariantMomentum (defaults to false)
366 or genmake -DISABLE ...
367 o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F
368 (additional storing is now needed for case vecinv;
369 currently nothing implemented to switch this storing off
370 in case fluxform is used since no CPP flag available).
371
372 checkpoint40pre7
373 o bug fix in dynamics.F
374 calc_viscosity called before k=1,Nr loop.
375 o added some #ifdef's ALLOW_PASSIVE_TRACER
376 o cleaned initialisations in ctrl_map_ini
377 related to TAF
378
379 checkpoint40pre6
380 o split dynamics into thermodynamics & dynamics
381 o corresponding split of calc_diffusivity into
382 calc_diffusivity, calc_viscosity
383 (kpp_calc_diff, kpp_calc_visc).
384 o Added diffkr, kapgm to control variables
385 o bug fix in gmredi_slope_limit for ldd97
386
387 checkpoint40pre5
388 o proper initialization of Adams-Bashforth time stepping
389 + uses forward step for very first step of model (iter=0)
390 o re-generated *all* output since almost all output is modified by this
391 change (sorry but we've been putting this one off for about 2 years)
392 + natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were
393 *not* regenerated since they are already out of date and I don't
394 want to create the impression that they are suddenly working.
395 o removed KAP stuff for DEC's
396 o modified/added many .cvsignore files in */code and */input
397 o added new expt "solid-body.cs-32x32x1"
398 + this uses an alternative form of ini_curvilinear_grid.F which
399 is not necessarily any better than the current one...
400
401 checkpoint40pre4
402 o added re-initialisations of utrans,vtrans,rtrans in
403 calc_common_factors which are crucial for TAF.
404 o extended iMin,jMin range for calc_common_factors,
405 calc_diffusivity
406 o added option ALLOW_PASSIVE_TRACER
407 o a few minor updates and fixes
408
409 checkpoint40pre3
410 o created calc_gtr1.F for gad package
411 o split the_main_loop and re-introduced forward_step
412 o some recomputations of nIter0 for TAMC
413
414 checkpoint40pre2
415 o Updated to latest branch of AJA, JMC
416 o Added gradient check package
417 o Added routines for passive tracer handling
418 o Added carbon sequestration sensitivity experiment
419
420 checkpoint39
421 o Modifications and fixes to support TAMC
422 (mainly missing or wrong directives)
423 o Corrected common blocks when fooling TAMC to produce adjoint I/O
424 in addummy_in_stepping
425 o Updated verification/vero/ (bug fixes in code/, correct pickups in input/)
426 o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs.
427 o Included following packages:
428 cal: calendar
429 exf: external forcing
430 ecco: essential routines to control use of cal, exf
431 (NB: this is not the full ECCO environment)
432 o disabled some packages by default in genmake
433
434 checkpoint38
435 o see notes_c37_adj.txt
436 o corrected wrong layer index in external_forcing_t
437 o replaced the_main_loop/forward_step by the_main_loop
438 o removed forceoutput from write_state
439 (replaced criteria for initial/final state)
440 o added runtime flag for pre-C35 pickups: usePickupBeforeC35
441
442 checkpoint37
443 o mdsio.F routine split and packaged in pkg/mdsio
444 (mdsio.F and mdsio_gl.F still exist in eesupp/src but are not
445 used unless genmake -disable=mdsio)
446 o allow a more precise surface-geopotential gradient for the atmosphere
447 taking into account the change in space of Alpha (=1/rho) at the surface.
448 o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit]
449 (ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa])
450 o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and
451 Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential
452 [m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere).
453 o Time-Average diagnostics defined as a pseudo package "timeave".
454 o pickup files : old pickup (before c35) did not work with new code (c35
455 and after) unless activating 2 commented lines in initialise-varia.
456 o Non-Hydrostatic pickup file Pb fixed.
457 o bug with Rigid-lid version (since c35) fixed.
458
459 checkpoint36
460 o implement Crank-Nickelson barotropic time-stepping
461 o recover Time-Average diagnostics
462 o fix Pb in checkpoint (PR#19)
463 o AIM become a standard package ; clean unused CPP_kees
464
465 checkpoint35
466 o subtantial rewrite of dynamics.f
467 o allows staggered time-stepping
468 o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt
469 o added bottom drag (linear + quadratic)
470
471 checkpoint34
472 o Modified exchange routines for correct reverse simulation.
473 o Added verification output to comply with bug fix in impldiff.F
474 as of c33 (exp2, natl_box).
475 o Corrected store directives in dynamics.F
476 o Corrected array boundaries in impldiff.F
477 o Corrected array dimensions in gmredi.
478 Added temporary scalars to avoid storage by TAMC (gmredi, kpp).
479 o Added routine GLOBAL_SUM_INT to global_sum.F
480 o Added mdsio_gl.F for ECCO purposes.
481
482 checkpoint33
483 o Fixed bug in lower BC in impldiff.F
484 o Fixed confusion about units of forcing arrays in FFIELDS.h
485 namely Fu,Fv,Qnet,Qsw,EmPmR:
486 - Removed verification/natl_box/code/external_fields_scale.F
487 (did not differ from that in model/src)
488 - Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units
489 (see FFIELDS.h for description)
490 - Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F,
491 kpp_calc.F and kpp_transport_t.F
492 - Removed model/src/external_fields_scale.F and calls to it
493 - verification/natl_box uses flux data with "atmospheric" sign so
494 a special version of external_fields_load.F is used to
495 change the data as it's read in. This way, the arrays
496 have the right units and signs at all times tha a user could
497 possibly use them.
498 o Corrected genmake to delete a temporary file during configuration
499
500 checkpoint32
501 o Scaling of forcing fields moved from external_forcing.F to
502 external_fields_scale.F, called directly after loading fields.
503 o Surface relaxation terms added to surface tendency fields in
504 extra subroutine.
505 o impldiff.F changed to avoid storing by TAMC of huge intermediate
506 fields.
507 o Changes in GMRedi to comply with packaging structure.
508 o Modifications and bug fixes in KPP package.
509 o Verification experiment for KPP added (verification/nat_box/)
510
511 checkpoint31
512 o Packages interface brought in line with defined standard
513 -> new routines packages_...F
514 -> changes in initialise_fixed.F, initialise_varia.F
515 -> enables initialisation interface for ECCO package
516 o Rescaling of external forcing fields immediately after read
517 (removed from external_forcing.F)
518 -> new: surface_fields_scale.F
519 -> affects ini_foorcing.F, external_fields_load.F
520 o Computation of surface tendencies before tendency updates.
521 -> new: external_forcing_surf.F
522 o Change of variable names useGMRedi, useKPP, useECCO
523 o Further changes in dynamics.F, impldiff.F for TAMC
524 o Tested for experiments 0, 2, 4.
525 - not yet tested for GMRedi.
526 - not yet tested for KPP.
527
528 checkpoint30
529 o Updates for OBCs
530 o New experiment for test OBCs (internal_wave)
531 o New output.txt in verification/exp4/results/
532 o Updates for KPP: calculation of viscosity corrected, new variables
533 kpp_dumpFreq and kpp_taveFreq
534 o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.)
535 and entry for T90 in genmake
536
537 checkpoint29
538 o packaged KPP and GM/Redi
539
540 checkpoint28
541 o Corrected initialization of hFacMin for difference vertical coordinates
542 o Modified calculation of partial cell thickness to more robust algorithm
543 o config_summary.F: replaced write_1D_... by write_0D_...
544 read_write.F: added subroutines write_0D_...
545 o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho:
546 included some initialisations required for TAMC.
547 o routine calc_isoslopes: modified sqrt computation to make it
548 differentiable for zero argument.
549 o routines dynamics, impldiff:
550 included store directives and tape key computations required for TAMC.
551 o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC
552
553 checkpoint27
554 o fixed calc_isoslopes() to so that cancellation of terms in tensor
555 formulation works properly with variable resolution.
556 o restructured the calling tree between the_model_main() and dynamics()
557 o split initialise() into initialise_fixed() and initialise_varia()
558 o introduced initialization file pSurfInitFile for free surface (cg2d_x)
559 in new routine ini_psurf()
560
561 checkpoint26
562 o moved some #ifdef in optional routines to encompass everything
563 except the argument declarations. This was using up some memory.
564 o fixed macros like _ADT to work with both versions of Linux cpp
565 o cleaned up some unused and uninitialized variables
566 (helps when debugging with strict compile options)
567 o split up CPP_EEOPTIONS.h into options and macros
568 (macros are now in eesupp/inc/CPP_EEMACROS.h)
569 o patch for 2 processor JAM mode
570
571 checkpoint25
572 o updates for OBCs and NH
573 o dramatically reduced memory usage
574 o added "JAM" routines for use on Artic network
575 o parameterization of convection by implicit vertical diffusion
576 o added a diagnostic of convective index
577 o moved call to calc_divg_hat() from dynamics() to solve_for_pressure()
578 (this is was partly for OBCs and NH but also in anticipation of
579 an explicit free-surface option)
580 o initial state input files for U and V
581
582 checkpoint24
583 o Removed some spurious "REAL"s
584 o Updated KPP to latest version from JPL
585 o Added a COS(latitude) in horizontal viscosity
586
587 checkpoint23
588 o Added del^4 diffusion for salt and temperature
589 o Multiple minor fixes (implicit none's, arguments to global_sum, etc.)
590
591 checkpoint22
592 o Made many small changes: implicit none, format(i5), etc...
593 o Introduced KPP mixing scheme (compiles and runs but *not* tested)
594
595 checkpoint21
596 o Introduced new I/O package that supports direct-access records (mdsio.F)
597 o Split-up mid-level I/O routines
598 o Updated input data for experiments 0,1,2,4 and 5
599 o Finally removed the genmake.* scripts (everyone seems happy with genmake)
600
601 checkpoint20
602 o Tidied up open-boundaries some more
603 o Added non-hydrostatic code
604 o Fixed some input data
605 o Modified MPI start-up to work in "coupled" context.
606
607 checkpoint19
608 o Tidied up directory structure for verification experiments.
609 o Added new code for open boundaries.
610 o Corrected advective terms near boundaries.
611 o Added CPP flag for "old UV" geometry and corrected spherical geometry.
612 o Implemented free-slip/no-slip BCs and del^4 dissipation.
613 o Split default parameters out of ini_parms.F into set_defaults.F.
614
615 checkpoint18
616 o Further changes for optional code generation with
617 CPP - ugh!
618
619 checkpoint17
620 o Beginning to incorporating modularity
621 for supporting atmos. and ocean configs.
622 o Small changes for TAMC complinace
623 o New ultra simple test case. Barotropic box
624 configuration "exp0".
625
626 checkpoint16
627 o Minor changes to exchange routines to support
628 accumulation in reverse mode. Adjoint of an
629 assignment is an addition.
630 o Changes to support compilation by TAMC (LR(1)
631 syntax) and by g77 under Linux ( 72 character
632 limit ).
633
634 checkpoint15
635 Rewrote exchange routines to allow
636 o General tile <-> tile connectivity.
637 o TAMC reverse mode flag ( is this really needed? )
638 o Variable width overlap and exchange region widths.
639 o Hooks for sharing data via DMA, Arctic, Memory Channel,
640 shmput/shmget, VIA, SYSV shmem and every other cool
641 communication method.
642
643 checkpoint14
644 Consistent isomorphism chages made. These allow dynamical core
645 to support both pressure and meters as a vertical coordinate.
646
647 checkpoint13
648 Release which corrects global_max problem and a couple
649 of KGM time-averaging diagnostic errors. Also contains
650 a double-gyre experiment setup as well as the baseline
651 4 degree global template. The double gyre template is
652 organised to allow it to be applied automatically to
653 the baseline configuration.
654
655 branch-point-rdot
656 A few tidy-ups have been made bt the real point of this
657 check-point (excuse the pun) is to allow a branch to be
658 made for the purposes of adding the rDot alterations.
659 I don't want to commit the rDot to the main-trunk until
660 we've actually tested it...
661
662 checkpoint12
663 Tidy up and added generic genmake script (formerly
664 configure script).
665 Released to testers.
666
667 checkpoint11
668 Re-arranged initialise() and introduced ini_vertical_grid()
669 and ini_masks_etc().
670
671 checkpoint10
672 Introduced the configure script.
673 Separated out the diags package.
674 Added template for writing time-averages of tile/intermediate quantities.
675 Updated SIZE.h in exp2 and made the data big-endian.
676
677 checkpoint9
678 MPI fix. Filename changes (meta/data). salbin*y stuff.
679 General tidy-up.
680 SST.bin SSS.bin added to verification/exp2
681
682 checkpoint8
683 Inludes time-dependant forcing and time-averaging.
684 Works at 4x4 and 2.8125x2.8125 global
685
686 checkpoint7-4degree-ref
687 Branch from checkpoint7. Released for application to
688 global modeling and general modeling - process studies, regional
689 model etc..
690 Configured for verification/exp2 - 4 degree global, two process.
691
692 checkpoint7
693 Created by cnh
694 Simple 4 degree global simulation
695 configuration.
696 Includes climatological wind,
697 hydrography, bathymetry etc
698 Does not include Heat Flux and E-P
699
700 checkpoint6
701 Created by cnh
702 merged checkpoint5 with CD and
703 spherical polar code.
704 Still some problems with GM Redi
705 abd full topography.
706
707 checkpoint5
708 Created by AJA
709 contains updates to GM Redi
710 and reordered timestepping loop
711 for Implicit Diffusion.
712
713 checkpoint4
714 Created by cnh
715 Contains memory saving macros ( _rdxc etc..) for when
716 grid variations are limited.
717 Contains polynomial coeffs for EOS and knudsen program
718 for generation.
719
720 checkpoint3
721 Created by cnh
722 Added extra flags for runtime options
723 Added this file
724 Added implicit free-surface
725 Added pre-conditioner
726 Put compare01 into repository ( compare01/... )
727 Put data and eedata into repository ( verification/exp1 )
728
729 checkpoint2
730 Created by AJA
731 Added GM/Redi
732
733 checkpoint1
734 Created by AJA
735 Restructured kloop in dynamics.F
736 Added non-linear EOS
737
738 baseline
739 Original checked in code

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