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Revision 1.60 - (show annotations) (download)
Sun Feb 10 20:07:14 2002 UTC (22 years, 2 months ago) by jmc
Branch: MAIN
Changes since 1.59: +3 -1 lines
updated:
 o real fresh water flux implemented with non-linear free-surface.

1 $Header: /u/gcmpack/models/MITgcmUV/doc/tag-index,v 1.59 2002/02/08 22:41:59 jmc Exp $
2
3 Notes on tags used in MITgcmUV
4 ==============================
5
6 o real fresh water flux implemented with non-linear free-surface.
7
8 chkpt44c_pre,post
9 o few fix (mask in shap_s2, EmPmR in external_field_load,
10 USE_NATURAL_BCS in solve_for_P);
11 o add arguments myIter & myTime to S/R obcs_calc & solve_for_P
12
13 checkpoint44b_pre/_post
14 o merge of relevant stuff from the ecco-branch:
15 - genmake: removed $S64 overwrite for case SunOS
16 - pkg/exf: update and corrections for field swapping and obcs
17 - pkg/ecco: parameter lists for the_model_main, the_main_loop
18 harmonized between ECCO and MITgcm
19 - pkg/autodiff: added flow directives for obcs, mdsio_gl_slice
20 updated checkpointing_lev... lists for obcs
21 - model/src: minor changes in forward_step, plot_field
22 added directive for divided adjoint in the_main_loop
23 - pkg/mdsio: added mdsio_gl_slice
24
25 o check parameters & config (chkpt44a_pre,post)
26 o OBC and NonLin_FrSurf.
27
28 checkpoint44
29 o fix bug in mom_vi_del2uv
30 o select when filters are applied ; add options to zonal_filter (data.zonfilt)
31 o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection)
32 o update AIM experiments (NCEP input files)
33 o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf)
34 o added some stuff for AD
35
36 checkpoint43
37 o added two new advection tests
38 o added global 4x4 degree ocean test
39 o added test of H&S94 with free surface on cube
40 o some final mods for gradient check, adjoint,...
41
42 checkpoint42
43 Fixed AD-related problems:
44 o Store directives up-to-date with re-arranged Adams-Bashforth
45 (mainly thermodynamics.F)
46 o New store directives for multi-dim. advection schemes
47 * new CPP flag ALLOW_MULTI_DIM_ADVECTION
48 * new common block and key passkey
49 (mainly gad_advection.F)
50 o Modified store directives for split of dynamics/thermodynamics
51 for the case ALLOW_KPP
52 o Cleaned argument list for timestep_tracer.F
53
54 checkpoint41
55 o re-formatted/added comments in prologues of key subroutines
56 to work with protex
57
58 checkpoint40
59 o moved calc_gs, calc_gt and calc_tr1 back to model/src
60 o added FLT (floats) package from Arne along with demo. experiment
61 o re-arranged Adams-Bashforth scheme for tracers to allow easier
62 implementation of forward-in-time forcing terms
63 o more mods for non-linear free-surface including new variable
64 o modified multi-dim method to work on cube
65 o bug fix in KPP (from DM)
66
67 checkpoint40pre9
68 o added DST advection schemes
69 o fix MPI bug on SGI's
70 o modifications for non-linear free-surface
71 o fixed conditionals for fixed flow/passive tracer only mode
72 o added tension/strain form of stress tensor
73 o changes to commenting of arguments for TAF/TAMC
74 o added/updated many matlab scripts
75 o added multi-dimensional advection method for tracers
76
77 checkpoint40pre8
78 o new package rw/
79 Added method for dumping intermediate local arrays:
80 mdsio_writetile - same as mdsio_writefield except works from inside
81 bi,bj loop
82 mdsio_writelocal - same as mdsio_writetile except works for local
83 arrays
84 write_local_r? - higher-level wrapper for mdsio_writelocal
85 Controlled by diagFreq. Defaults to zero (ie. no dumps)
86 Example given at end of mom_vecinv.F that dumps some local arrays.
87 o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to
88 control flux-form versus vector invariant code.
89 Switch is runtime flag vectorInvariantMomentum (defaults to false)
90 or genmake -DISABLE ...
91 o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F
92 (additional storing is now needed for case vecinv;
93 currently nothing implemented to switch this storing off
94 in case fluxform is used since no CPP flag available).
95
96 checkpoint40pre7
97 o bug fix in dynamics.F
98 calc_viscosity called before k=1,Nr loop.
99 o added some #ifdef's ALLOW_PASSIVE_TRACER
100 o cleaned initialisations in ctrl_map_ini
101 related to TAF
102
103 checkpoint40pre6
104 o split dynamics into thermodynamics & dynamics
105 o corresponding split of calc_diffusivity into
106 calc_diffusivity, calc_viscosity
107 (kpp_calc_diff, kpp_calc_visc).
108 o Added diffkr, kapgm to control variables
109 o bug fix in gmredi_slope_limit for ldd97
110
111 checkpoint40pre5
112 o proper initialization of Adams-Bashforth time stepping
113 + uses forward step for very first step of model (iter=0)
114 o re-generated *all* output since almost all output is modified by this
115 change (sorry but we've been putting this one off for about 2 years)
116 + natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were
117 *not* regenerated since they are already out of date and I don't
118 want to create the impression that they are suddenly working.
119 o removed KAP stuff for DEC's
120 o modified/added many .cvsignore files in */code and */input
121 o added new expt "solid-body.cs-32x32x1"
122 + this uses an alternative form of ini_curvilinear_grid.F which
123 is not necessarily any better than the current one...
124
125 checkpoint40pre4
126 o added re-initialisations of utrans,vtrans,rtrans in
127 calc_common_factors which are crucial for TAF.
128 o extended iMin,jMin range for calc_common_factors,
129 calc_diffusivity
130 o added option ALLOW_PASSIVE_TRACER
131 o a few minor updates and fixes
132
133 checkpoint40pre3
134 o created calc_gtr1.F for gad package
135 o split the_main_loop and re-introduced forward_step
136 o some recomputations of nIter0 for TAMC
137
138 checkpoint40pre2
139 o Updated to latest branch of AJA, JMC
140 o Added gradient check package
141 o Added routines for passive tracer handling
142 o Added carbon sequestration sensitivity experiment
143
144 checkpoint39
145 o Modifications and fixes to support TAMC
146 (mainly missing or wrong directives)
147 o Corrected common blocks when fooling TAMC to produce adjoint I/O
148 in addummy_in_stepping
149 o Updated verification/vero/ (bug fixes in code/, correct pickups in input/)
150 o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs.
151 o Included following packages:
152 cal: calendar
153 exf: external forcing
154 ecco: essential routines to control use of cal, exf
155 (NB: this is not the full ECCO environment)
156 o disabled some packages by default in genmake
157
158 checkpoint38
159 o see notes_c37_adj.txt
160 o corrected wrong layer index in external_forcing_t
161 o replaced the_main_loop/forward_step by the_main_loop
162 o removed forceoutput from write_state
163 (replaced criteria for initial/final state)
164 o added runtime flag for pre-C35 pickups: usePickupBeforeC35
165
166 checkpoint37
167 o mdsio.F routine split and packaged in pkg/mdsio
168 (mdsio.F and mdsio_gl.F still exist in eesupp/src but are not
169 used unless genmake -disable=mdsio)
170 o allow a more precise surface-geopotential gradient for the atmosphere
171 taking into account the change in space of Alpha (=1/rho) at the surface.
172 o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit]
173 (ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa])
174 o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and
175 Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential
176 [m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere).
177 o Time-Average diagnostics defined as a pseudo package "timeave".
178 o pickup files : old pickup (before c35) did not work with new code (c35
179 and after) unless activating 2 commented lines in initialise-varia.
180 o Non-Hydrostatic pickup file Pb fixed.
181 o bug with Rigid-lid version (since c35) fixed.
182
183 checkpoint36
184 o implement Crank-Nickelson barotropic time-stepping
185 o recover Time-Average diagnostics
186 o fix Pb in checkpoint (PR#19)
187 o AIM become a standard package ; clean unused CPP_kees
188
189 checkpoint35
190 o subtantial rewrite of dynamics.f
191 o allows staggered time-stepping
192 o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt
193 o added bottom drag (linear + quadratic)
194
195 checkpoint34
196 o Modified exchange routines for correct reverse simulation.
197 o Added verification output to comply with bug fix in impldiff.F
198 as of c33 (exp2, natl_box).
199 o Corrected store directives in dynamics.F
200 o Corrected array boundaries in impldiff.F
201 o Corrected array dimensions in gmredi.
202 Added temporary scalars to avoid storage by TAMC (gmredi, kpp).
203 o Added routine GLOBAL_SUM_INT to global_sum.F
204 o Added mdsio_gl.F for ECCO purposes.
205
206 checkpoint33
207 o Fixed bug in lower BC in impldiff.F
208 o Fixed confusion about units of forcing arrays in FFIELDS.h
209 namely Fu,Fv,Qnet,Qsw,EmPmR:
210 - Removed verification/natl_box/code/external_fields_scale.F
211 (did not differ from that in model/src)
212 - Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units
213 (see FFIELDS.h for description)
214 - Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F,
215 kpp_calc.F and kpp_transport_t.F
216 - Removed model/src/external_fields_scale.F and calls to it
217 - verification/natl_box uses flux data with "atmospheric" sign so
218 a special version of external_fields_load.F is used to
219 change the data as it's read in. This way, the arrays
220 have the right units and signs at all times tha a user could
221 possibly use them.
222 o Corrected genmake to delete a temporary file during configuration
223
224 checkpoint32
225 o Scaling of forcing fields moved from external_forcing.F to
226 external_fields_scale.F, called directly after loading fields.
227 o Surface relaxation terms added to surface tendency fields in
228 extra subroutine.
229 o impldiff.F changed to avoid storing by TAMC of huge intermediate
230 fields.
231 o Changes in GMRedi to comply with packaging structure.
232 o Modifications and bug fixes in KPP package.
233 o Verification experiment for KPP added (verification/nat_box/)
234
235 checkpoint31
236 o Packages interface brought in line with defined standard
237 -> new routines packages_...F
238 -> changes in initialise_fixed.F, initialise_varia.F
239 -> enables initialisation interface for ECCO package
240 o Rescaling of external forcing fields immediately after read
241 (removed from external_forcing.F)
242 -> new: surface_fields_scale.F
243 -> affects ini_foorcing.F, external_fields_load.F
244 o Computation of surface tendencies before tendency updates.
245 -> new: external_forcing_surf.F
246 o Change of variable names useGMRedi, useKPP, useECCO
247 o Further changes in dynamics.F, impldiff.F for TAMC
248 o Tested for experiments 0, 2, 4.
249 - not yet tested for GMRedi.
250 - not yet tested for KPP.
251
252 checkpoint30
253 o Updates for OBCs
254 o New experiment for test OBCs (internal_wave)
255 o New output.txt in verification/exp4/results/
256 o Updates for KPP: calculation of viscosity corrected, new variables
257 kpp_dumpFreq and kpp_taveFreq
258 o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.)
259 and entry for T90 in genmake
260
261 checkpoint29
262 o packaged KPP and GM/Redi
263
264 checkpoint28
265 o Corrected initialization of hFacMin for difference vertical coordinates
266 o Modified calculation of partial cell thickness to more robust algorithm
267 o config_summary.F: replaced write_1D_... by write_0D_...
268 read_write.F: added subroutines write_0D_...
269 o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho:
270 included some initialisations required for TAMC.
271 o routine calc_isoslopes: modified sqrt computation to make it
272 differentiable for zero argument.
273 o routines dynamics, impldiff:
274 included store directives and tape key computations required for TAMC.
275 o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC
276
277 checkpoint27
278 o fixed calc_isoslopes() to so that cancellation of terms in tensor
279 formulation works properly with variable resolution.
280 o restructured the calling tree between the_model_main() and dynamics()
281 o split initialise() into initialise_fixed() and initialise_varia()
282 o introduced initialization file pSurfInitFile for free surface (cg2d_x)
283 in new routine ini_psurf()
284
285 checkpoint26
286 o moved some #ifdef in optional routines to encompass everything
287 except the argument declarations. This was using up some memory.
288 o fixed macros like _ADT to work with both versions of Linux cpp
289 o cleaned up some unused and uninitialized variables
290 (helps when debugging with strict compile options)
291 o split up CPP_EEOPTIONS.h into options and macros
292 (macros are now in eesupp/inc/CPP_EEMACROS.h)
293 o patch for 2 processor JAM mode
294
295 checkpoint25
296 o updates for OBCs and NH
297 o dramatically reduced memory usage
298 o added "JAM" routines for use on Artic network
299 o parameterization of convection by implicit vertical diffusion
300 o added a diagnostic of convective index
301 o moved call to calc_divg_hat() from dynamics() to solve_for_pressure()
302 (this is was partly for OBCs and NH but also in anticipation of
303 an explicit free-surface option)
304 o initial state input files for U and V
305
306 checkpoint24
307 o Removed some spurious "REAL"s
308 o Updated KPP to latest version from JPL
309 o Added a COS(latitude) in horizontal viscosity
310
311 checkpoint23
312 o Added del^4 diffusion for salt and temperature
313 o Multiple minor fixes (implicit none's, arguments to global_sum, etc.)
314
315 checkpoint22
316 o Made many small changes: implicit none, format(i5), etc...
317 o Introduced KPP mixing scheme (compiles and runs but *not* tested)
318
319 checkpoint21
320 o Introduced new I/O package that supports direct-access records (mdsio.F)
321 o Split-up mid-level I/O routines
322 o Updated input data for experiments 0,1,2,4 and 5
323 o Finally removed the genmake.* scripts (everyone seems happy with genmake)
324
325 checkpoint20
326 o Tidied up open-boundaries some more
327 o Added non-hydrostatic code
328 o Fixed some input data
329 o Modified MPI start-up to work in "coupled" context.
330
331 checkpoint19
332 o Tidied up directory structure for verification experiments.
333 o Added new code for open boundaries.
334 o Corrected advective terms near boundaries.
335 o Added CPP flag for "old UV" geometry and corrected spherical geometry.
336 o Implemented free-slip/no-slip BCs and del^4 dissipation.
337 o Split default parameters out of ini_parms.F into set_defaults.F.
338
339 checkpoint18
340 o Further changes for optional code generation with
341 CPP - ugh!
342
343 checkpoint17
344 o Beginning to incorporating modularity
345 for supporting atmos. and ocean configs.
346 o Small changes for TAMC complinace
347 o New ultra simple test case. Barotropic box
348 configuration "exp0".
349
350 checkpoint16
351 o Minor changes to exchange routines to support
352 accumulation in reverse mode. Adjoint of an
353 assignment is an addition.
354 o Changes to support compilation by TAMC (LR(1)
355 syntax) and by g77 under Linux ( 72 character
356 limit ).
357
358 checkpoint15
359 Rewrote exchange routines to allow
360 o General tile <-> tile connectivity.
361 o TAMC reverse mode flag ( is this really needed? )
362 o Variable width overlap and exchange region widths.
363 o Hooks for sharing data via DMA, Arctic, Memory Channel,
364 shmput/shmget, VIA, SYSV shmem and every other cool
365 communication method.
366
367 checkpoint14
368 Consistent isomorphism chages made. These allow dynamical core
369 to support both pressure and meters as a vertical coordinate.
370
371 checkpoint13
372 Release which corrects global_max problem and a couple
373 of KGM time-averaging diagnostic errors. Also contains
374 a double-gyre experiment setup as well as the baseline
375 4 degree global template. The double gyre template is
376 organised to allow it to be applied automatically to
377 the baseline configuration.
378
379 branch-point-rdot
380 A few tidy-ups have been made bt the real point of this
381 check-point (excuse the pun) is to allow a branch to be
382 made for the purposes of adding the rDot alterations.
383 I don't want to commit the rDot to the main-trunk until
384 we've actually tested it...
385
386 checkpoint12
387 Tidy up and added generic genmake script (formerly
388 configure script).
389 Released to testers.
390
391 checkpoint11
392 Re-arranged initialise() and introduced ini_vertical_grid()
393 and ini_masks_etc().
394
395 checkpoint10
396 Introduced the configure script.
397 Separated out the diags package.
398 Added template for writing time-averages of tile/intermediate quantities.
399 Updated SIZE.h in exp2 and made the data big-endian.
400
401 checkpoint9
402 MPI fix. Filename changes (meta/data). salbin*y stuff.
403 General tidy-up.
404 SST.bin SSS.bin added to verification/exp2
405
406 checkpoint8
407 Inludes time-dependant forcing and time-averaging.
408 Works at 4x4 and 2.8125x2.8125 global
409
410 checkpoint7-4degree-ref
411 Branch from checkpoint7. Released for application to
412 global modeling and general modeling - process studies, regional
413 model etc..
414 Configured for verification/exp2 - 4 degree global, two process.
415
416 checkpoint7
417 Created by cnh
418 Simple 4 degree global simulation
419 configuration.
420 Includes climatological wind,
421 hydrography, bathymetry etc
422 Does not include Heat Flux and E-P
423
424 checkpoint6
425 Created by cnh
426 merged checkpoint5 with CD and
427 spherical polar code.
428 Still some problems with GM Redi
429 abd full topography.
430
431 checkpoint5
432 Created by AJA
433 contains updates to GM Redi
434 and reordered timestepping loop
435 for Implicit Diffusion.
436
437 checkpoint4
438 Created by cnh
439 Contains memory saving macros ( _rdxc etc..) for when
440 grid variations are limited.
441 Contains polynomial coeffs for EOS and knudsen program
442 for generation.
443
444 checkpoint3
445 Created by cnh
446 Added extra flags for runtime options
447 Added this file
448 Added implicit free-surface
449 Added pre-conditioner
450 Put compare01 into repository ( compare01/... )
451 Put data and eedata into repository ( verification/exp1 )
452
453 checkpoint2
454 Created by AJA
455 Added GM/Redi
456
457 checkpoint1
458 Created by AJA
459 Restructured kloop in dynamics.F
460 Added non-linear EOS
461
462 baseline
463 Original checked in code

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