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Revision 1.54 - (show annotations) (download)
Sat Oct 27 03:10:52 2001 UTC (21 years, 3 months ago) by jmc
Branch: MAIN
CVS Tags: checkpoint43a-release1mods, release1-branch_tutorials, release1-branch-end, release1-branch_branchpoint
Branch point for: release1-branch
Changes since 1.53: +4 -1 lines

1 $Header: /u/gcmpack/models/MITgcmUV/doc/tag-index,v 1.53 2001/09/28 17:53:37 adcroft Exp $
3 Notes on tags used in MITgcmUV
4 ==============================
5 next checkpoint
6 o apply Shapiro filter on T&S before calc_PhiHyd (stagger time stepping)
7 o fix bug in mom_vi_del2uv
9 checkpoint43
10 o added two new advection tests
11 o added global 4x4 degree ocean test
12 o added test of H&S94 with free surface on cube
13 o some final mods for gradient check, adjoint,...
15 checkpoint42
16 Fixed AD-related problems:
17 o Store directives up-to-date with re-arranged Adams-Bashforth
18 (mainly thermodynamics.F)
19 o New store directives for multi-dim. advection schemes
21 * new common block and key passkey
22 (mainly gad_advection.F)
23 o Modified store directives for split of dynamics/thermodynamics
24 for the case ALLOW_KPP
25 o Cleaned argument list for timestep_tracer.F
27 checkpoint41
28 o re-formatted/added comments in prologues of key subroutines
29 to work with protex
31 checkpoint40
32 o moved calc_gs, calc_gt and calc_tr1 back to model/src
33 o added FLT (floats) package from Arne along with demo. experiment
34 o re-arranged Adams-Bashforth scheme for tracers to allow easier
35 implementation of forward-in-time forcing terms
36 o more mods for non-linear free-surface including new variable
37 o modified multi-dim method to work on cube
38 o bug fix in KPP (from DM)
40 checkpoint40pre9
41 o added DST advection schemes
42 o fix MPI bug on SGI's
43 o modifications for non-linear free-surface
44 o fixed conditionals for fixed flow/passive tracer only mode
45 o added tension/strain form of stress tensor
46 o changes to commenting of arguments for TAF/TAMC
47 o added/updated many matlab scripts
48 o added multi-dimensional advection method for tracers
50 checkpoint40pre8
51 o new package rw/
52 Added method for dumping intermediate local arrays:
53 mdsio_writetile - same as mdsio_writefield except works from inside
54 bi,bj loop
55 mdsio_writelocal - same as mdsio_writetile except works for local
56 arrays
57 write_local_r? - higher-level wrapper for mdsio_writelocal
58 Controlled by diagFreq. Defaults to zero (ie. no dumps)
59 Example given at end of mom_vecinv.F that dumps some local arrays.
60 o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to
61 control flux-form versus vector invariant code.
62 Switch is runtime flag vectorInvariantMomentum (defaults to false)
63 or genmake -DISABLE ...
64 o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F
65 (additional storing is now needed for case vecinv;
66 currently nothing implemented to switch this storing off
67 in case fluxform is used since no CPP flag available).
69 checkpoint40pre7
70 o bug fix in dynamics.F
71 calc_viscosity called before k=1,Nr loop.
72 o added some #ifdef's ALLOW_PASSIVE_TRACER
73 o cleaned initialisations in ctrl_map_ini
74 related to TAF
76 checkpoint40pre6
77 o split dynamics into thermodynamics & dynamics
78 o corresponding split of calc_diffusivity into
79 calc_diffusivity, calc_viscosity
80 (kpp_calc_diff, kpp_calc_visc).
81 o Added diffkr, kapgm to control variables
82 o bug fix in gmredi_slope_limit for ldd97
84 checkpoint40pre5
85 o proper initialization of Adams-Bashforth time stepping
86 + uses forward step for very first step of model (iter=0)
87 o re-generated *all* output since almost all output is modified by this
88 change (sorry but we've been putting this one off for about 2 years)
89 + natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were
90 *not* regenerated since they are already out of date and I don't
91 want to create the impression that they are suddenly working.
92 o removed KAP stuff for DEC's
93 o modified/added many .cvsignore files in */code and */input
94 o added new expt "solid-body.cs-32x32x1"
95 + this uses an alternative form of ini_curvilinear_grid.F which
96 is not necessarily any better than the current one...
98 checkpoint40pre4
99 o added re-initialisations of utrans,vtrans,rtrans in
100 calc_common_factors which are crucial for TAF.
101 o extended iMin,jMin range for calc_common_factors,
102 calc_diffusivity
103 o added option ALLOW_PASSIVE_TRACER
104 o a few minor updates and fixes
106 checkpoint40pre3
107 o created calc_gtr1.F for gad package
108 o split the_main_loop and re-introduced forward_step
109 o some recomputations of nIter0 for TAMC
111 checkpoint40pre2
112 o Updated to latest branch of AJA, JMC
113 o Added gradient check package
114 o Added routines for passive tracer handling
115 o Added carbon sequestration sensitivity experiment
117 checkpoint39
118 o Modifications and fixes to support TAMC
119 (mainly missing or wrong directives)
120 o Corrected common blocks when fooling TAMC to produce adjoint I/O
121 in addummy_in_stepping
122 o Updated verification/vero/ (bug fixes in code/, correct pickups in input/)
123 o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs.
124 o Included following packages:
125 cal: calendar
126 exf: external forcing
127 ecco: essential routines to control use of cal, exf
128 (NB: this is not the full ECCO environment)
129 o disabled some packages by default in genmake
131 checkpoint38
132 o see notes_c37_adj.txt
133 o corrected wrong layer index in external_forcing_t
134 o replaced the_main_loop/forward_step by the_main_loop
135 o removed forceoutput from write_state
136 (replaced criteria for initial/final state)
137 o added runtime flag for pre-C35 pickups: usePickupBeforeC35
139 checkpoint37
140 o mdsio.F routine split and packaged in pkg/mdsio
141 (mdsio.F and mdsio_gl.F still exist in eesupp/src but are not
142 used unless genmake -disable=mdsio)
143 o allow a more precise surface-geopotential gradient for the atmosphere
144 taking into account the change in space of Alpha (=1/rho) at the surface.
145 o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit]
146 (ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa])
147 o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and
148 Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential
149 [m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere).
150 o Time-Average diagnostics defined as a pseudo package "timeave".
151 o pickup files : old pickup (before c35) did not work with new code (c35
152 and after) unless activating 2 commented lines in initialise-varia.
153 o Non-Hydrostatic pickup file Pb fixed.
154 o bug with Rigid-lid version (since c35) fixed.
156 checkpoint36
157 o implement Crank-Nickelson barotropic time-stepping
158 o recover Time-Average diagnostics
159 o fix Pb in checkpoint (PR#19)
160 o AIM become a standard package ; clean unused CPP_kees
162 checkpoint35
163 o subtantial rewrite of dynamics.f
164 o allows staggered time-stepping
165 o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt
166 o added bottom drag (linear + quadratic)
168 checkpoint34
169 o Modified exchange routines for correct reverse simulation.
170 o Added verification output to comply with bug fix in impldiff.F
171 as of c33 (exp2, natl_box).
172 o Corrected store directives in dynamics.F
173 o Corrected array boundaries in impldiff.F
174 o Corrected array dimensions in gmredi.
175 Added temporary scalars to avoid storage by TAMC (gmredi, kpp).
176 o Added routine GLOBAL_SUM_INT to global_sum.F
177 o Added mdsio_gl.F for ECCO purposes.
179 checkpoint33
180 o Fixed bug in lower BC in impldiff.F
181 o Fixed confusion about units of forcing arrays in FFIELDS.h
182 namely Fu,Fv,Qnet,Qsw,EmPmR:
183 - Removed verification/natl_box/code/external_fields_scale.F
184 (did not differ from that in model/src)
185 - Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units
186 (see FFIELDS.h for description)
187 - Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F,
188 kpp_calc.F and kpp_transport_t.F
189 - Removed model/src/external_fields_scale.F and calls to it
190 - verification/natl_box uses flux data with "atmospheric" sign so
191 a special version of external_fields_load.F is used to
192 change the data as it's read in. This way, the arrays
193 have the right units and signs at all times tha a user could
194 possibly use them.
195 o Corrected genmake to delete a temporary file during configuration
197 checkpoint32
198 o Scaling of forcing fields moved from external_forcing.F to
199 external_fields_scale.F, called directly after loading fields.
200 o Surface relaxation terms added to surface tendency fields in
201 extra subroutine.
202 o impldiff.F changed to avoid storing by TAMC of huge intermediate
203 fields.
204 o Changes in GMRedi to comply with packaging structure.
205 o Modifications and bug fixes in KPP package.
206 o Verification experiment for KPP added (verification/nat_box/)
208 checkpoint31
209 o Packages interface brought in line with defined standard
210 -> new routines packages_...F
211 -> changes in initialise_fixed.F, initialise_varia.F
212 -> enables initialisation interface for ECCO package
213 o Rescaling of external forcing fields immediately after read
214 (removed from external_forcing.F)
215 -> new: surface_fields_scale.F
216 -> affects ini_foorcing.F, external_fields_load.F
217 o Computation of surface tendencies before tendency updates.
218 -> new: external_forcing_surf.F
219 o Change of variable names useGMRedi, useKPP, useECCO
220 o Further changes in dynamics.F, impldiff.F for TAMC
221 o Tested for experiments 0, 2, 4.
222 - not yet tested for GMRedi.
223 - not yet tested for KPP.
225 checkpoint30
226 o Updates for OBCs
227 o New experiment for test OBCs (internal_wave)
228 o New output.txt in verification/exp4/results/
229 o Updates for KPP: calculation of viscosity corrected, new variables
230 kpp_dumpFreq and kpp_taveFreq
231 o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.)
232 and entry for T90 in genmake
234 checkpoint29
235 o packaged KPP and GM/Redi
237 checkpoint28
238 o Corrected initialization of hFacMin for difference vertical coordinates
239 o Modified calculation of partial cell thickness to more robust algorithm
240 o config_summary.F: replaced write_1D_... by write_0D_...
241 read_write.F: added subroutines write_0D_...
242 o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho:
243 included some initialisations required for TAMC.
244 o routine calc_isoslopes: modified sqrt computation to make it
245 differentiable for zero argument.
246 o routines dynamics, impldiff:
247 included store directives and tape key computations required for TAMC.
248 o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC
250 checkpoint27
251 o fixed calc_isoslopes() to so that cancellation of terms in tensor
252 formulation works properly with variable resolution.
253 o restructured the calling tree between the_model_main() and dynamics()
254 o split initialise() into initialise_fixed() and initialise_varia()
255 o introduced initialization file pSurfInitFile for free surface (cg2d_x)
256 in new routine ini_psurf()
258 checkpoint26
259 o moved some #ifdef in optional routines to encompass everything
260 except the argument declarations. This was using up some memory.
261 o fixed macros like _ADT to work with both versions of Linux cpp
262 o cleaned up some unused and uninitialized variables
263 (helps when debugging with strict compile options)
264 o split up CPP_EEOPTIONS.h into options and macros
265 (macros are now in eesupp/inc/CPP_EEMACROS.h)
266 o patch for 2 processor JAM mode
268 checkpoint25
269 o updates for OBCs and NH
270 o dramatically reduced memory usage
271 o added "JAM" routines for use on Artic network
272 o parameterization of convection by implicit vertical diffusion
273 o added a diagnostic of convective index
274 o moved call to calc_divg_hat() from dynamics() to solve_for_pressure()
275 (this is was partly for OBCs and NH but also in anticipation of
276 an explicit free-surface option)
277 o initial state input files for U and V
279 checkpoint24
280 o Removed some spurious "REAL"s
281 o Updated KPP to latest version from JPL
282 o Added a COS(latitude) in horizontal viscosity
284 checkpoint23
285 o Added del^4 diffusion for salt and temperature
286 o Multiple minor fixes (implicit none's, arguments to global_sum, etc.)
288 checkpoint22
289 o Made many small changes: implicit none, format(i5), etc...
290 o Introduced KPP mixing scheme (compiles and runs but *not* tested)
292 checkpoint21
293 o Introduced new I/O package that supports direct-access records (mdsio.F)
294 o Split-up mid-level I/O routines
295 o Updated input data for experiments 0,1,2,4 and 5
296 o Finally removed the genmake.* scripts (everyone seems happy with genmake)
298 checkpoint20
299 o Tidied up open-boundaries some more
300 o Added non-hydrostatic code
301 o Fixed some input data
302 o Modified MPI start-up to work in "coupled" context.
304 checkpoint19
305 o Tidied up directory structure for verification experiments.
306 o Added new code for open boundaries.
307 o Corrected advective terms near boundaries.
308 o Added CPP flag for "old UV" geometry and corrected spherical geometry.
309 o Implemented free-slip/no-slip BCs and del^4 dissipation.
310 o Split default parameters out of ini_parms.F into set_defaults.F.
312 checkpoint18
313 o Further changes for optional code generation with
314 CPP - ugh!
316 checkpoint17
317 o Beginning to incorporating modularity
318 for supporting atmos. and ocean configs.
319 o Small changes for TAMC complinace
320 o New ultra simple test case. Barotropic box
321 configuration "exp0".
323 checkpoint16
324 o Minor changes to exchange routines to support
325 accumulation in reverse mode. Adjoint of an
326 assignment is an addition.
327 o Changes to support compilation by TAMC (LR(1)
328 syntax) and by g77 under Linux ( 72 character
329 limit ).
331 checkpoint15
332 Rewrote exchange routines to allow
333 o General tile <-> tile connectivity.
334 o TAMC reverse mode flag ( is this really needed? )
335 o Variable width overlap and exchange region widths.
336 o Hooks for sharing data via DMA, Arctic, Memory Channel,
337 shmput/shmget, VIA, SYSV shmem and every other cool
338 communication method.
340 checkpoint14
341 Consistent isomorphism chages made. These allow dynamical core
342 to support both pressure and meters as a vertical coordinate.
344 checkpoint13
345 Release which corrects global_max problem and a couple
346 of KGM time-averaging diagnostic errors. Also contains
347 a double-gyre experiment setup as well as the baseline
348 4 degree global template. The double gyre template is
349 organised to allow it to be applied automatically to
350 the baseline configuration.
352 branch-point-rdot
353 A few tidy-ups have been made bt the real point of this
354 check-point (excuse the pun) is to allow a branch to be
355 made for the purposes of adding the rDot alterations.
356 I don't want to commit the rDot to the main-trunk until
357 we've actually tested it...
359 checkpoint12
360 Tidy up and added generic genmake script (formerly
361 configure script).
362 Released to testers.
364 checkpoint11
365 Re-arranged initialise() and introduced ini_vertical_grid()
366 and ini_masks_etc().
368 checkpoint10
369 Introduced the configure script.
370 Separated out the diags package.
371 Added template for writing time-averages of tile/intermediate quantities.
372 Updated SIZE.h in exp2 and made the data big-endian.
374 checkpoint9
375 MPI fix. Filename changes (meta/data). salbin*y stuff.
376 General tidy-up.
377 SST.bin SSS.bin added to verification/exp2
379 checkpoint8
380 Inludes time-dependant forcing and time-averaging.
381 Works at 4x4 and 2.8125x2.8125 global
383 checkpoint7-4degree-ref
384 Branch from checkpoint7. Released for application to
385 global modeling and general modeling - process studies, regional
386 model etc..
387 Configured for verification/exp2 - 4 degree global, two process.
389 checkpoint7
390 Created by cnh
391 Simple 4 degree global simulation
392 configuration.
393 Includes climatological wind,
394 hydrography, bathymetry etc
395 Does not include Heat Flux and E-P
397 checkpoint6
398 Created by cnh
399 merged checkpoint5 with CD and
400 spherical polar code.
401 Still some problems with GM Redi
402 abd full topography.
404 checkpoint5
405 Created by AJA
406 contains updates to GM Redi
407 and reordered timestepping loop
408 for Implicit Diffusion.
410 checkpoint4
411 Created by cnh
412 Contains memory saving macros ( _rdxc etc..) for when
413 grid variations are limited.
414 Contains polynomial coeffs for EOS and knudsen program
415 for generation.
417 checkpoint3
418 Created by cnh
419 Added extra flags for runtime options
420 Added this file
421 Added implicit free-surface
422 Added pre-conditioner
423 Put compare01 into repository ( compare01/... )
424 Put data and eedata into repository ( verification/exp1 )
426 checkpoint2
427 Created by AJA
428 Added GM/Redi
430 checkpoint1
431 Created by AJA
432 Restructured kloop in dynamics.F
433 Added non-linear EOS
435 baseline
436 Original checked in code

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