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Revision 1.53.2.8 - (show annotations) (download)
Thu May 30 22:21:06 2002 UTC (21 years, 11 months ago) by heimbach
Branch: release1
CVS Tags: release1_p4
Changes since 1.53.2.7: +9 -1 lines
Creating yet another patch: release1_p4

1 $Header: /u/gcmpack/MITgcm/doc/tag-index,v 1.53.2.7 2002/05/30 02:57:49 heimbach Exp $
2
3 Notes on tags used in MITgcmUV
4 ==============================
5
6 release1_p4
7 o Removed f90 comments ("!")
8 o Modified initialisations to enable exf package for MITgcm
9 (without invoking ECCO_PACKAGE).
10 o modifications to gradient check package (Martin Losch)
11 - enable centered differences
12 - modified format of standard output
13
14 release1_p3
15 o added tangent linear setup to verification/carbon/
16 o added adjoint sensitivity setup to verification/global_ocean...
17 o moved packages_init_variables before convective_adjustment
18 o output of verif. which use GMRedi brought up-to-date with
19 MAIN trunk (those were re-created after changes in GMRedi)
20 o included CPP option SINGLE_LAYER_MODE
21 to configure barotropic setup (Martin Losch).
22 o Removed auxiliary variable in impldiff
23 (caused numerical differences with MAIN trunk routine).
24 o Introduced CPP option ALLOW_AUTODIFF_MONITOR to
25 disable adcommon.h/g_common.h by default.
26 o Cleaned exchange calls in cg2d.
27
28 release1_p2
29 o fixed array boundary problem for adjoint
30 (related to partial recomputation within subroutine
31 related to dynamics -> calc_viscosity -> mom_...
32 o fixed recomputation in thermodynamics
33 o prepare (but not complete) recomputation problem in impldiff
34 o fixed problem for adjoint of global_max
35 o switched off sponge layer code in external_forcing
36
37 release1_p1
38 o merged necessary patches:
39 - AD-related changes for GMRedi
40 - fixes i KPP (delZ -> drF)
41 - hook to OBCS songe layer code in external_forcing
42 - errorMessageUnit non-zero in eeboot.F
43 - modified test cost function and carbon verif.
44
45 release1_chkpt44d_post = chkpt44d_post
46
47 chkpt44d_pre,post
48 o added missing EXCLUDE_MONITOR flags
49 o changed "e" to "_d" in gmredi_slope_limit, gmredi_slope_psi
50 (incompatible typ in MIN/MAX expressions caused problems
51 on IBM SP3)
52 o in genmake added variable MAKEDEPEND
53 plus resetting for case SunOS
54 o added timer_stats.c routine for IBM SP3
55 o removed variables in dynamics
56
57 o real fresh water flux implemented with non-linear free-surface.
58
59 chkpt44c_pre,post
60 o few fix (mask in shap_s2, EmPmR in external_field_load,
61 USE_NATURAL_BCS in solve_for_P);
62 o add arguments myIter & myTime to S/R obcs_calc & solve_for_P
63
64 checkpoint44b_pre/_post
65 o merge of relevant stuff from the ecco-branch:
66 - genmake: removed $S64 overwrite for case SunOS
67 - pkg/exf: update and corrections for field swapping and obcs
68 - pkg/ecco: parameter lists for the_model_main, the_main_loop
69 harmonized between ECCO and MITgcm
70 - pkg/autodiff: added flow directives for obcs, mdsio_gl_slice
71 updated checkpointing_lev... lists for obcs
72 - model/src: minor changes in forward_step, plot_field
73 added directive for divided adjoint in the_main_loop
74 - pkg/mdsio: added mdsio_gl_slice
75
76 o check parameters & config (chkpt44a_pre,post)
77 o OBC and NonLin_FrSurf.
78
79 checkpoint44
80 o fix bug in mom_vi_del2uv
81 o select when filters are applied ; add options to zonal_filter (data.zonfilt)
82 o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection)
83 o update AIM experiments (NCEP input files)
84 o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf)
85 o added some stuff for AD
86
87 checkpoint43
88 o added two new advection tests
89 o added global 4x4 degree ocean test
90 o added test of H&S94 with free surface on cube
91 o some final mods for gradient check, adjoint,...
92
93 checkpoint42
94 Fixed AD-related problems:
95 o Store directives up-to-date with re-arranged Adams-Bashforth
96 (mainly thermodynamics.F)
97 o New store directives for multi-dim. advection schemes
98 * new CPP flag ALLOW_MULTI_DIM_ADVECTION
99 * new common block and key passkey
100 (mainly gad_advection.F)
101 o Modified store directives for split of dynamics/thermodynamics
102 for the case ALLOW_KPP
103 o Cleaned argument list for timestep_tracer.F
104
105 checkpoint41
106 o re-formatted/added comments in prologues of key subroutines
107 to work with protex
108
109 checkpoint40
110 o moved calc_gs, calc_gt and calc_tr1 back to model/src
111 o added FLT (floats) package from Arne along with demo. experiment
112 o re-arranged Adams-Bashforth scheme for tracers to allow easier
113 implementation of forward-in-time forcing terms
114 o more mods for non-linear free-surface including new variable
115 o modified multi-dim method to work on cube
116 o bug fix in KPP (from DM)
117
118 checkpoint40pre9
119 o added DST advection schemes
120 o fix MPI bug on SGI's
121 o modifications for non-linear free-surface
122 o fixed conditionals for fixed flow/passive tracer only mode
123 o added tension/strain form of stress tensor
124 o changes to commenting of arguments for TAF/TAMC
125 o added/updated many matlab scripts
126 o added multi-dimensional advection method for tracers
127
128 checkpoint40pre8
129 o new package rw/
130 Added method for dumping intermediate local arrays:
131 mdsio_writetile - same as mdsio_writefield except works from inside
132 bi,bj loop
133 mdsio_writelocal - same as mdsio_writetile except works for local
134 arrays
135 write_local_r? - higher-level wrapper for mdsio_writelocal
136 Controlled by diagFreq. Defaults to zero (ie. no dumps)
137 Example given at end of mom_vecinv.F that dumps some local arrays.
138 o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to
139 control flux-form versus vector invariant code.
140 Switch is runtime flag vectorInvariantMomentum (defaults to false)
141 or genmake -DISABLE ...
142 o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F
143 (additional storing is now needed for case vecinv;
144 currently nothing implemented to switch this storing off
145 in case fluxform is used since no CPP flag available).
146
147 checkpoint40pre7
148 o bug fix in dynamics.F
149 calc_viscosity called before k=1,Nr loop.
150 o added some #ifdef's ALLOW_PASSIVE_TRACER
151 o cleaned initialisations in ctrl_map_ini
152 related to TAF
153
154 checkpoint40pre6
155 o split dynamics into thermodynamics & dynamics
156 o corresponding split of calc_diffusivity into
157 calc_diffusivity, calc_viscosity
158 (kpp_calc_diff, kpp_calc_visc).
159 o Added diffkr, kapgm to control variables
160 o bug fix in gmredi_slope_limit for ldd97
161
162 checkpoint40pre5
163 o proper initialization of Adams-Bashforth time stepping
164 + uses forward step for very first step of model (iter=0)
165 o re-generated *all* output since almost all output is modified by this
166 change (sorry but we've been putting this one off for about 2 years)
167 + natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were
168 *not* regenerated since they are already out of date and I don't
169 want to create the impression that they are suddenly working.
170 o removed KAP stuff for DEC's
171 o modified/added many .cvsignore files in */code and */input
172 o added new expt "solid-body.cs-32x32x1"
173 + this uses an alternative form of ini_curvilinear_grid.F which
174 is not necessarily any better than the current one...
175
176 checkpoint40pre4
177 o added re-initialisations of utrans,vtrans,rtrans in
178 calc_common_factors which are crucial for TAF.
179 o extended iMin,jMin range for calc_common_factors,
180 calc_diffusivity
181 o added option ALLOW_PASSIVE_TRACER
182 o a few minor updates and fixes
183
184 checkpoint40pre3
185 o created calc_gtr1.F for gad package
186 o split the_main_loop and re-introduced forward_step
187 o some recomputations of nIter0 for TAMC
188
189 checkpoint40pre2
190 o Updated to latest branch of AJA, JMC
191 o Added gradient check package
192 o Added routines for passive tracer handling
193 o Added carbon sequestration sensitivity experiment
194
195 checkpoint39
196 o Modifications and fixes to support TAMC
197 (mainly missing or wrong directives)
198 o Corrected common blocks when fooling TAMC to produce adjoint I/O
199 in addummy_in_stepping
200 o Updated verification/vero/ (bug fixes in code/, correct pickups in input/)
201 o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs.
202 o Included following packages:
203 cal: calendar
204 exf: external forcing
205 ecco: essential routines to control use of cal, exf
206 (NB: this is not the full ECCO environment)
207 o disabled some packages by default in genmake
208
209 checkpoint38
210 o see notes_c37_adj.txt
211 o corrected wrong layer index in external_forcing_t
212 o replaced the_main_loop/forward_step by the_main_loop
213 o removed forceoutput from write_state
214 (replaced criteria for initial/final state)
215 o added runtime flag for pre-C35 pickups: usePickupBeforeC35
216
217 checkpoint37
218 o mdsio.F routine split and packaged in pkg/mdsio
219 (mdsio.F and mdsio_gl.F still exist in eesupp/src but are not
220 used unless genmake -disable=mdsio)
221 o allow a more precise surface-geopotential gradient for the atmosphere
222 taking into account the change in space of Alpha (=1/rho) at the surface.
223 o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit]
224 (ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa])
225 o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and
226 Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential
227 [m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere).
228 o Time-Average diagnostics defined as a pseudo package "timeave".
229 o pickup files : old pickup (before c35) did not work with new code (c35
230 and after) unless activating 2 commented lines in initialise-varia.
231 o Non-Hydrostatic pickup file Pb fixed.
232 o bug with Rigid-lid version (since c35) fixed.
233
234 checkpoint36
235 o implement Crank-Nickelson barotropic time-stepping
236 o recover Time-Average diagnostics
237 o fix Pb in checkpoint (PR#19)
238 o AIM become a standard package ; clean unused CPP_kees
239
240 checkpoint35
241 o subtantial rewrite of dynamics.f
242 o allows staggered time-stepping
243 o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt
244 o added bottom drag (linear + quadratic)
245
246 checkpoint34
247 o Modified exchange routines for correct reverse simulation.
248 o Added verification output to comply with bug fix in impldiff.F
249 as of c33 (exp2, natl_box).
250 o Corrected store directives in dynamics.F
251 o Corrected array boundaries in impldiff.F
252 o Corrected array dimensions in gmredi.
253 Added temporary scalars to avoid storage by TAMC (gmredi, kpp).
254 o Added routine GLOBAL_SUM_INT to global_sum.F
255 o Added mdsio_gl.F for ECCO purposes.
256
257 checkpoint33
258 o Fixed bug in lower BC in impldiff.F
259 o Fixed confusion about units of forcing arrays in FFIELDS.h
260 namely Fu,Fv,Qnet,Qsw,EmPmR:
261 - Removed verification/natl_box/code/external_fields_scale.F
262 (did not differ from that in model/src)
263 - Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units
264 (see FFIELDS.h for description)
265 - Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F,
266 kpp_calc.F and kpp_transport_t.F
267 - Removed model/src/external_fields_scale.F and calls to it
268 - verification/natl_box uses flux data with "atmospheric" sign so
269 a special version of external_fields_load.F is used to
270 change the data as it's read in. This way, the arrays
271 have the right units and signs at all times tha a user could
272 possibly use them.
273 o Corrected genmake to delete a temporary file during configuration
274
275 checkpoint32
276 o Scaling of forcing fields moved from external_forcing.F to
277 external_fields_scale.F, called directly after loading fields.
278 o Surface relaxation terms added to surface tendency fields in
279 extra subroutine.
280 o impldiff.F changed to avoid storing by TAMC of huge intermediate
281 fields.
282 o Changes in GMRedi to comply with packaging structure.
283 o Modifications and bug fixes in KPP package.
284 o Verification experiment for KPP added (verification/nat_box/)
285
286 checkpoint31
287 o Packages interface brought in line with defined standard
288 -> new routines packages_...F
289 -> changes in initialise_fixed.F, initialise_varia.F
290 -> enables initialisation interface for ECCO package
291 o Rescaling of external forcing fields immediately after read
292 (removed from external_forcing.F)
293 -> new: surface_fields_scale.F
294 -> affects ini_foorcing.F, external_fields_load.F
295 o Computation of surface tendencies before tendency updates.
296 -> new: external_forcing_surf.F
297 o Change of variable names useGMRedi, useKPP, useECCO
298 o Further changes in dynamics.F, impldiff.F for TAMC
299 o Tested for experiments 0, 2, 4.
300 - not yet tested for GMRedi.
301 - not yet tested for KPP.
302
303 checkpoint30
304 o Updates for OBCs
305 o New experiment for test OBCs (internal_wave)
306 o New output.txt in verification/exp4/results/
307 o Updates for KPP: calculation of viscosity corrected, new variables
308 kpp_dumpFreq and kpp_taveFreq
309 o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.)
310 and entry for T90 in genmake
311
312 checkpoint29
313 o packaged KPP and GM/Redi
314
315 checkpoint28
316 o Corrected initialization of hFacMin for difference vertical coordinates
317 o Modified calculation of partial cell thickness to more robust algorithm
318 o config_summary.F: replaced write_1D_... by write_0D_...
319 read_write.F: added subroutines write_0D_...
320 o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho:
321 included some initialisations required for TAMC.
322 o routine calc_isoslopes: modified sqrt computation to make it
323 differentiable for zero argument.
324 o routines dynamics, impldiff:
325 included store directives and tape key computations required for TAMC.
326 o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC
327
328 checkpoint27
329 o fixed calc_isoslopes() to so that cancellation of terms in tensor
330 formulation works properly with variable resolution.
331 o restructured the calling tree between the_model_main() and dynamics()
332 o split initialise() into initialise_fixed() and initialise_varia()
333 o introduced initialization file pSurfInitFile for free surface (cg2d_x)
334 in new routine ini_psurf()
335
336 checkpoint26
337 o moved some #ifdef in optional routines to encompass everything
338 except the argument declarations. This was using up some memory.
339 o fixed macros like _ADT to work with both versions of Linux cpp
340 o cleaned up some unused and uninitialized variables
341 (helps when debugging with strict compile options)
342 o split up CPP_EEOPTIONS.h into options and macros
343 (macros are now in eesupp/inc/CPP_EEMACROS.h)
344 o patch for 2 processor JAM mode
345
346 checkpoint25
347 o updates for OBCs and NH
348 o dramatically reduced memory usage
349 o added "JAM" routines for use on Artic network
350 o parameterization of convection by implicit vertical diffusion
351 o added a diagnostic of convective index
352 o moved call to calc_divg_hat() from dynamics() to solve_for_pressure()
353 (this is was partly for OBCs and NH but also in anticipation of
354 an explicit free-surface option)
355 o initial state input files for U and V
356
357 checkpoint24
358 o Removed some spurious "REAL"s
359 o Updated KPP to latest version from JPL
360 o Added a COS(latitude) in horizontal viscosity
361
362 checkpoint23
363 o Added del^4 diffusion for salt and temperature
364 o Multiple minor fixes (implicit none's, arguments to global_sum, etc.)
365
366 checkpoint22
367 o Made many small changes: implicit none, format(i5), etc...
368 o Introduced KPP mixing scheme (compiles and runs but *not* tested)
369
370 checkpoint21
371 o Introduced new I/O package that supports direct-access records (mdsio.F)
372 o Split-up mid-level I/O routines
373 o Updated input data for experiments 0,1,2,4 and 5
374 o Finally removed the genmake.* scripts (everyone seems happy with genmake)
375
376 checkpoint20
377 o Tidied up open-boundaries some more
378 o Added non-hydrostatic code
379 o Fixed some input data
380 o Modified MPI start-up to work in "coupled" context.
381
382 checkpoint19
383 o Tidied up directory structure for verification experiments.
384 o Added new code for open boundaries.
385 o Corrected advective terms near boundaries.
386 o Added CPP flag for "old UV" geometry and corrected spherical geometry.
387 o Implemented free-slip/no-slip BCs and del^4 dissipation.
388 o Split default parameters out of ini_parms.F into set_defaults.F.
389
390 checkpoint18
391 o Further changes for optional code generation with
392 CPP - ugh!
393
394 checkpoint17
395 o Beginning to incorporating modularity
396 for supporting atmos. and ocean configs.
397 o Small changes for TAMC complinace
398 o New ultra simple test case. Barotropic box
399 configuration "exp0".
400
401 checkpoint16
402 o Minor changes to exchange routines to support
403 accumulation in reverse mode. Adjoint of an
404 assignment is an addition.
405 o Changes to support compilation by TAMC (LR(1)
406 syntax) and by g77 under Linux ( 72 character
407 limit ).
408
409 checkpoint15
410 Rewrote exchange routines to allow
411 o General tile <-> tile connectivity.
412 o TAMC reverse mode flag ( is this really needed? )
413 o Variable width overlap and exchange region widths.
414 o Hooks for sharing data via DMA, Arctic, Memory Channel,
415 shmput/shmget, VIA, SYSV shmem and every other cool
416 communication method.
417
418 checkpoint14
419 Consistent isomorphism chages made. These allow dynamical core
420 to support both pressure and meters as a vertical coordinate.
421
422 checkpoint13
423 Release which corrects global_max problem and a couple
424 of KGM time-averaging diagnostic errors. Also contains
425 a double-gyre experiment setup as well as the baseline
426 4 degree global template. The double gyre template is
427 organised to allow it to be applied automatically to
428 the baseline configuration.
429
430 branch-point-rdot
431 A few tidy-ups have been made bt the real point of this
432 check-point (excuse the pun) is to allow a branch to be
433 made for the purposes of adding the rDot alterations.
434 I don't want to commit the rDot to the main-trunk until
435 we've actually tested it...
436
437 checkpoint12
438 Tidy up and added generic genmake script (formerly
439 configure script).
440 Released to testers.
441
442 checkpoint11
443 Re-arranged initialise() and introduced ini_vertical_grid()
444 and ini_masks_etc().
445
446 checkpoint10
447 Introduced the configure script.
448 Separated out the diags package.
449 Added template for writing time-averages of tile/intermediate quantities.
450 Updated SIZE.h in exp2 and made the data big-endian.
451
452 checkpoint9
453 MPI fix. Filename changes (meta/data). salbin*y stuff.
454 General tidy-up.
455 SST.bin SSS.bin added to verification/exp2
456
457 checkpoint8
458 Inludes time-dependant forcing and time-averaging.
459 Works at 4x4 and 2.8125x2.8125 global
460
461 checkpoint7-4degree-ref
462 Branch from checkpoint7. Released for application to
463 global modeling and general modeling - process studies, regional
464 model etc..
465 Configured for verification/exp2 - 4 degree global, two process.
466
467 checkpoint7
468 Created by cnh
469 Simple 4 degree global simulation
470 configuration.
471 Includes climatological wind,
472 hydrography, bathymetry etc
473 Does not include Heat Flux and E-P
474
475 checkpoint6
476 Created by cnh
477 merged checkpoint5 with CD and
478 spherical polar code.
479 Still some problems with GM Redi
480 abd full topography.
481
482 checkpoint5
483 Created by AJA
484 contains updates to GM Redi
485 and reordered timestepping loop
486 for Implicit Diffusion.
487
488 checkpoint4
489 Created by cnh
490 Contains memory saving macros ( _rdxc etc..) for when
491 grid variations are limited.
492 Contains polynomial coeffs for EOS and knudsen program
493 for generation.
494
495 checkpoint3
496 Created by cnh
497 Added extra flags for runtime options
498 Added this file
499 Added implicit free-surface
500 Added pre-conditioner
501 Put compare01 into repository ( compare01/... )
502 Put data and eedata into repository ( verification/exp1 )
503
504 checkpoint2
505 Created by AJA
506 Added GM/Redi
507
508 checkpoint1
509 Created by AJA
510 Restructured kloop in dynamics.F
511 Added non-linear EOS
512
513 baseline
514 Original checked in code

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