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Revision 1.56 - (hide annotations) (download)
Thu Jan 31 05:04:03 2002 UTC (22 years, 3 months ago) by jmc
Branch: MAIN
CVS Tags: chkpt44a_pre
Changes since 1.55: +7 -2 lines
updated

1 jmc 1.56 $Header: /u/gcmpack/models/MITgcmUV/doc/tag-index,v 1.55 2002/01/18 22:13:27 heimbach Exp $
2 cnh 1.1
3     Notes on tags used in MITgcmUV
4     ==============================
5 jmc 1.56 o OBC and NonLin_FrSurf.
6    
7 heimbach 1.55 checkpoint44
8 jmc 1.54 o fix bug in mom_vi_del2uv
9 jmc 1.56 o select when filters are applied ; add options to zonal_filter (data.zonfilt)
10     o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection)
11     o update AIM experiments (NCEP input files)
12     o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf)
13 heimbach 1.55 o added some stuff for AD
14 adcroft 1.53
15     checkpoint43
16     o added two new advection tests
17     o added global 4x4 degree ocean test
18     o added test of H&S94 with free surface on cube
19     o some final mods for gradient check, adjoint,...
20 heimbach 1.52
21     checkpoint42
22     Fixed AD-related problems:
23     o Store directives up-to-date with re-arranged Adams-Bashforth
24     (mainly thermodynamics.F)
25     o New store directives for multi-dim. advection schemes
26     * new CPP flag ALLOW_MULTI_DIM_ADVECTION
27     * new common block and key passkey
28     (mainly gad_advection.F)
29     o Modified store directives for split of dynamics/thermodynamics
30     for the case ALLOW_KPP
31     o Cleaned argument list for timestep_tracer.F
32 adcroft 1.51
33     checkpoint41
34     o re-formatted/added comments in prologues of key subroutines
35     to work with protex
36 heimbach 1.47
37 adcroft 1.50 checkpoint40
38     o moved calc_gs, calc_gt and calc_tr1 back to model/src
39     o added FLT (floats) package from Arne along with demo. experiment
40     o re-arranged Adams-Bashforth scheme for tracers to allow easier
41     implementation of forward-in-time forcing terms
42     o more mods for non-linear free-surface including new variable
43     o modified multi-dim method to work on cube
44     o bug fix in KPP (from DM)
45    
46 adcroft 1.49 checkpoint40pre9
47     o added DST advection schemes
48     o fix MPI bug on SGI's
49     o modifications for non-linear free-surface
50     o fixed conditionals for fixed flow/passive tracer only mode
51     o added tension/strain form of stress tensor
52     o changes to commenting of arguments for TAF/TAMC
53     o added/updated many matlab scripts
54 adcroft 1.50 o added multi-dimensional advection method for tracers
55 adcroft 1.49
56 adcroft 1.48 checkpoint40pre8
57 heimbach 1.47 o new package rw/
58     Added method for dumping intermediate local arrays:
59     mdsio_writetile - same as mdsio_writefield except works from inside
60     bi,bj loop
61     mdsio_writelocal - same as mdsio_writetile except works for local
62     arrays
63     write_local_r? - higher-level wrapper for mdsio_writelocal
64     Controlled by diagFreq. Defaults to zero (ie. no dumps)
65     Example given at end of mom_vecinv.F that dumps some local arrays.
66     o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to
67     control flux-form versus vector invariant code.
68     Switch is runtime flag vectorInvariantMomentum (defaults to false)
69     or genmake -DISABLE ...
70     o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F
71     (additional storing is now needed for case vecinv;
72     currently nothing implemented to switch this storing off
73     in case fluxform is used since no CPP flag available).
74 heimbach 1.46
75     checkpoint40pre7
76     o bug fix in dynamics.F
77     calc_viscosity called before k=1,Nr loop.
78     o added some #ifdef's ALLOW_PASSIVE_TRACER
79     o cleaned initialisations in ctrl_map_ini
80     related to TAF
81 heimbach 1.45
82     checkpoint40pre6
83     o split dynamics into thermodynamics & dynamics
84     o corresponding split of calc_diffusivity into
85     calc_diffusivity, calc_viscosity
86     (kpp_calc_diff, kpp_calc_visc).
87     o Added diffkr, kapgm to control variables
88     o bug fix in gmredi_slope_limit for ldd97
89 adcroft 1.44
90     checkpoint40pre5
91     o proper initialization of Adams-Bashforth time stepping
92     + uses forward step for very first step of model (iter=0)
93     o re-generated *all* output since almost all output is modified by this
94     change (sorry but we've been putting this one off for about 2 years)
95     + natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were
96     *not* regenerated since they are already out of date and I don't
97     want to create the impression that they are suddenly working.
98     o removed KAP stuff for DEC's
99     o modified/added many .cvsignore files in */code and */input
100     o added new expt "solid-body.cs-32x32x1"
101     + this uses an alternative form of ini_curvilinear_grid.F which
102     is not necessarily any better than the current one...
103 heimbach 1.43
104     checkpoint40pre4
105     o added re-initialisations of utrans,vtrans,rtrans in
106     calc_common_factors which are crucial for TAF.
107     o extended iMin,jMin range for calc_common_factors,
108     calc_diffusivity
109     o added option ALLOW_PASSIVE_TRACER
110     o a few minor updates and fixes
111    
112 heimbach 1.42 checkpoint40pre3
113     o created calc_gtr1.F for gad package
114     o split the_main_loop and re-introduced forward_step
115     o some recomputations of nIter0 for TAMC
116    
117 heimbach 1.41 checkpoint40pre2
118     o Updated to latest branch of AJA, JMC
119     o Added gradient check package
120     o Added routines for passive tracer handling
121     o Added carbon sequestration sensitivity experiment
122    
123 heimbach 1.39 checkpoint39
124     o Modifications and fixes to support TAMC
125     (mainly missing or wrong directives)
126     o Corrected common blocks when fooling TAMC to produce adjoint I/O
127     in addummy_in_stepping
128     o Updated verification/vero/ (bug fixes in code/, correct pickups in input/)
129     o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs.
130     o Included following packages:
131     cal: calendar
132     exf: external forcing
133     ecco: essential routines to control use of cal, exf
134     (NB: this is not the full ECCO environment)
135 heimbach 1.40 o disabled some packages by default in genmake
136 heimbach 1.39
137 heimbach 1.38 checkpoint38
138     o see notes_c37_adj.txt
139     o corrected wrong layer index in external_forcing_t
140     o replaced the_main_loop/forward_step by the_main_loop
141     o removed forceoutput from write_state
142     (replaced criteria for initial/final state)
143     o added runtime flag for pre-C35 pickups: usePickupBeforeC35
144 jmc 1.36
145 jmc 1.37 checkpoint37
146     o mdsio.F routine split and packaged in pkg/mdsio
147     (mdsio.F and mdsio_gl.F still exist in eesupp/src but are not
148     used unless genmake -disable=mdsio)
149     o allow a more precise surface-geopotential gradient for the atmosphere
150     taking into account the change in space of Alpha (=1/rho) at the surface.
151     o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit]
152     (ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa])
153     o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and
154     Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential
155     [m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere).
156     o Time-Average diagnostics defined as a pseudo package "timeave".
157     o pickup files : old pickup (before c35) did not work with new code (c35
158     and after) unless activating 2 commented lines in initialise-varia.
159     o Non-Hydrostatic pickup file Pb fixed.
160     o bug with Rigid-lid version (since c35) fixed.
161    
162 jmc 1.36 checkpoint36
163 jmc 1.37 o implement Crank-Nickelson barotropic time-stepping
164 jmc 1.36 o recover Time-Average diagnostics
165     o fix Pb in checkpoint (PR#19)
166     o AIM become a standard package ; clean unused CPP_kees
167 jmc 1.35
168     checkpoint35
169     o subtantial rewrite of dynamics.f
170     o allows staggered time-stepping
171     o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt
172     o added bottom drag (linear + quadratic)
173 heimbach 1.33
174     checkpoint34
175     o Modified exchange routines for correct reverse simulation.
176     o Added verification output to comply with bug fix in impldiff.F
177     as of c33 (exp2, natl_box).
178     o Corrected store directives in dynamics.F
179     o Corrected array boundaries in impldiff.F
180     o Corrected array dimensions in gmredi.
181     Added temporary scalars to avoid storage by TAMC (gmredi, kpp).
182 heimbach 1.34 o Added routine GLOBAL_SUM_INT to global_sum.F
183 heimbach 1.33 o Added mdsio_gl.F for ECCO purposes.
184 adcroft 1.32
185     checkpoint33
186     o Fixed bug in lower BC in impldiff.F
187     o Fixed confusion about units of forcing arrays in FFIELDS.h
188     namely Fu,Fv,Qnet,Qsw,EmPmR:
189     - Removed verification/natl_box/code/external_fields_scale.F
190     (did not differ from that in model/src)
191     - Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units
192     (see FFIELDS.h for description)
193     - Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F,
194     kpp_calc.F and kpp_transport_t.F
195     - Removed model/src/external_fields_scale.F and calls to it
196     - verification/natl_box uses flux data with "atmospheric" sign so
197     a special version of external_fields_load.F is used to
198     change the data as it's read in. This way, the arrays
199     have the right units and signs at all times tha a user could
200     possibly use them.
201     o Corrected genmake to delete a temporary file during configuration
202 heimbach 1.31
203     checkpoint32
204     o Scaling of forcing fields moved from external_forcing.F to
205     external_fields_scale.F, called directly after loading fields.
206     o Surface relaxation terms added to surface tendency fields in
207     extra subroutine.
208     o impldiff.F changed to avoid storing by TAMC of huge intermediate
209     fields.
210     o Changes in GMRedi to comply with packaging structure.
211     o Modifications and bug fixes in KPP package.
212     o Verification experiment for KPP added (verification/nat_box/)
213 heimbach 1.30
214     checkpoint31
215     o Packages interface brought in line with defined standard
216     -> new routines packages_...F
217     -> changes in initialise_fixed.F, initialise_varia.F
218     -> enables initialisation interface for ECCO package
219     o Rescaling of external forcing fields immediately after read
220     (removed from external_forcing.F)
221     -> new: surface_fields_scale.F
222     -> affects ini_foorcing.F, external_fields_load.F
223     o Computation of surface tendencies before tendency updates.
224     -> new: external_forcing_surf.F
225     o Change of variable names useGMRedi, useKPP, useECCO
226     o Further changes in dynamics.F, impldiff.F for TAMC
227     o Tested for experiments 0, 2, 4.
228     - not yet tested for GMRedi.
229     - not yet tested for KPP.
230 adcroft 1.29
231     checkpoint30
232     o Updates for OBCs
233     o New experiment for test OBCs (internal_wave)
234     o New output.txt in verification/exp4/results/
235     o Updates for KPP: calculation of viscosity corrected, new variables
236     kpp_dumpFreq and kpp_taveFreq
237     o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.)
238     and entry for T90 in genmake
239 adcroft 1.28
240     checkpoint29
241     o packaged KPP and GM/Redi
242 heimbach 1.27
243     checkpoint28
244     o Corrected initialization of hFacMin for difference vertical coordinates
245     o Modified calculation of partial cell thickness to more robust algorithm
246     o config_summary.F: replaced write_1D_... by write_0D_...
247     read_write.F: added subroutines write_0D_...
248     o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho:
249     included some initialisations required for TAMC.
250     o routine calc_isoslopes: modified sqrt computation to make it
251     differentiable for zero argument.
252     o routines dynamics, impldiff:
253     included store directives and tape key computations required for TAMC.
254     o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC
255 adcroft 1.26
256     checkpoint27
257     o fixed calc_isoslopes() to so that cancellation of terms in tensor
258     formulation works properly with variable resolution.
259     o restructured the calling tree between the_model_main() and dynamics()
260     o split initialise() into initialise_fixed() and initialise_varia()
261     o introduced initialization file pSurfInitFile for free surface (cg2d_x)
262     in new routine ini_psurf()
263 adcroft 1.25
264     checkpoint26
265     o moved some #ifdef in optional routines to encompass everything
266     except the argument declarations. This was using up some memory.
267     o fixed macros like _ADT to work with both versions of Linux cpp
268     o cleaned up some unused and uninitialized variables
269     (helps when debugging with strict compile options)
270     o split up CPP_EEOPTIONS.h into options and macros
271     (macros are now in eesupp/inc/CPP_EEMACROS.h)
272     o patch for 2 processor JAM mode
273 adcroft 1.24
274     checkpoint25
275     o updates for OBCs and NH
276     o dramatically reduced memory usage
277     o added "JAM" routines for use on Artic network
278     o parameterization of convection by implicit vertical diffusion
279     o added a diagnostic of convective index
280     o moved call to calc_divg_hat() from dynamics() to solve_for_pressure()
281     (this is was partly for OBCs and NH but also in anticipation of
282     an explicit free-surface option)
283     o initial state input files for U and V
284 adcroft 1.23
285     checkpoint24
286     o Removed some spurious "REAL"s
287     o Updated KPP to latest version from JPL
288     o Added a COS(latitude) in horizontal viscosity
289 adcroft 1.22
290     checkpoint23
291     o Added del^4 diffusion for salt and temperature
292     o Multiple minor fixes (implicit none's, arguments to global_sum, etc.)
293 adcroft 1.21
294     checkpoint22
295     o Made many small changes: implicit none, format(i5), etc...
296     o Introduced KPP mixing scheme (compiles and runs but *not* tested)
297 adcroft 1.20
298     checkpoint21
299     o Introduced new I/O package that supports direct-access records (mdsio.F)
300     o Split-up mid-level I/O routines
301     o Updated input data for experiments 0,1,2,4 and 5
302     o Finally removed the genmake.* scripts (everyone seems happy with genmake)
303 adcroft 1.18
304 adcroft 1.19 checkpoint20
305     o Tidied up open-boundaries some more
306     o Added non-hydrostatic code
307     o Fixed some input data
308     o Modified MPI start-up to work in "coupled" context.
309    
310 adcroft 1.18 checkpoint19
311     o Tidied up directory structure for verification experiments.
312     o Added new code for open boundaries.
313     o Corrected advective terms near boundaries.
314     o Added CPP flag for "old UV" geometry and corrected spherical geometry.
315     o Implemented free-slip/no-slip BCs and del^4 dissipation.
316 adcroft 1.19 o Split default parameters out of ini_parms.F into set_defaults.F.
317 cnh 1.17
318     checkpoint18
319     o Further changes for optional code generation with
320     CPP - ugh!
321 cnh 1.16
322     checkpoint17
323     o Beginning to incorporating modularity
324     for supporting atmos. and ocean configs.
325     o Small changes for TAMC complinace
326     o New ultra simple test case. Barotropic box
327     configuration "exp0".
328 cnh 1.15
329     checkpoint16
330     o Minor changes to exchange routines to support
331     accumulation in reverse mode. Adjoint of an
332     assignment is an addition.
333     o Changes to support compilation by TAMC (LR(1)
334     syntax) and by g77 under Linux ( 72 character
335     limit ).
336 cnh 1.14
337     checkpoint15
338     Rewrote exchange routines to allow
339     o General tile <-> tile connectivity.
340     o TAMC reverse mode flag ( is this really needed? )
341     o Variable width overlap and exchange region widths.
342     o Hooks for sharing data via DMA, Arctic, Memory Channel,
343     shmput/shmget, VIA, SYSV shmem and every other cool
344     communication method.
345 cnh 1.13
346     checkpoint14
347     Consistent isomorphism chages made. These allow dynamical core
348     to support both pressure and meters as a vertical coordinate.
349 cnh 1.12
350     checkpoint13
351     Release which corrects global_max problem and a couple
352     of KGM time-averaging diagnostic errors. Also contains
353     a double-gyre experiment setup as well as the baseline
354     4 degree global template. The double gyre template is
355     organised to allow it to be applied automatically to
356     the baseline configuration.
357 adcroft 1.11
358     branch-point-rdot
359     A few tidy-ups have been made bt the real point of this
360     check-point (excuse the pun) is to allow a branch to be
361     made for the purposes of adding the rDot alterations.
362     I don't want to commit the rDot to the main-trunk until
363     we've actually tested it...
364 cnh 1.10
365     checkpoint12
366     Tidy up and added generic genmake script (formerly
367     configure script).
368     Released to testers.
369 adcroft 1.9
370     checkpoint11
371     Re-arranged initialise() and introduced ini_vertical_grid()
372     and ini_masks_etc().
373 adcroft 1.8
374     checkpoint10
375     Introduced the configure script.
376     Separated out the diags package.
377     Added template for writing time-averages of tile/intermediate quantities.
378     Updated SIZE.h in exp2 and made the data big-endian.
379 adcroft 1.7
380     checkpoint9
381     MPI fix. Filename changes (meta/data). salbin*y stuff.
382     General tidy-up.
383     SST.bin SSS.bin added to verification/exp2
384 adcroft 1.6
385     checkpoint8
386     Inludes time-dependant forcing and time-averaging.
387     Works at 4x4 and 2.8125x2.8125 global
388    
389     checkpoint7-4degree-ref
390     Branch from checkpoint7. Released for application to
391     global modeling and general modeling - process studies, regional
392     model etc..
393     Configured for verification/exp2 - 4 degree global, two process.
394 cnh 1.5
395     checkpoint7
396     Created by cnh
397     Simple 4 degree global simulation
398     configuration.
399     Includes climatological wind,
400     hydrography, bathymetry etc
401     Does not include Heat Flux and E-P
402 cnh 1.4
403     checkpoint6
404     Created by cnh
405     merged checkpoint5 with CD and
406     spherical polar code.
407     Still some problems with GM Redi
408     abd full topography.
409 cnh 1.3
410     checkpoint5
411     Created by AJA
412     contains updates to GM Redi
413     and reordered timestepping loop
414     for Implicit Diffusion.
415 cnh 1.2
416     checkpoint4
417     Created by cnh
418     Contains memory saving macros ( _rdxc etc..) for when
419     grid variations are limited.
420     Contains polynomial coeffs for EOS and knudsen program
421     for generation.
422    
423 cnh 1.1 checkpoint3
424     Created by cnh
425     Added extra flags for runtime options
426     Added this file
427     Added implicit free-surface
428     Added pre-conditioner
429     Put compare01 into repository ( compare01/... )
430     Put data and eedata into repository ( verification/exp1 )
431    
432     checkpoint2
433     Created by AJA
434     Added GM/Redi
435    
436     checkpoint1
437     Created by AJA
438     Restructured kloop in dynamics.F
439     Added non-linear EOS
440    
441 cnh 1.2 baseline
442     Original checked in code
443 cnh 1.1

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