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Revision 1.62 - (hide annotations) (download)
Wed Feb 27 21:19:59 2002 UTC (22 years, 2 months ago) by adcroft
Branch: MAIN
CVS Tags: checkpoint44e_post
Changes since 1.61: +7 -1 lines
Document checkpoint44e_pre,post

1 adcroft 1.62 $Header: /u/gcmpack/MITgcm/doc/tag-index,v 1.61 2002/02/15 21:31:57 heimbach Exp $
2 cnh 1.1
3     Notes on tags used in MITgcmUV
4     ==============================
5 jmc 1.60
6     o real fresh water flux implemented with non-linear free-surface.
7 adcroft 1.62
8     checkpoint44e_pre,post
9     o re-wrote convective adjustment to use pre-calculated weights
10     Affects: model/src/convective_adjustment.F, convective_adjustment_ini.F
11     Adds: model/src/convective_weights.F, convectively_mixtracer.F
12     Original calls to convect() still in place.
13 heimbach 1.61
14     chkpt44d_pre,post
15     o added missing EXCLUDE_MONITOR flags
16     o changed "e" to "_d" in gmredi_slope_limit, gmredi_slope_psi
17     (incompatible typ in MIN/MAX expressions caused problems
18     on IBM SP3)
19     o in genmake added variable MAKEDEPEND
20     plus resetting for case SunOS
21     o added timer_stats.c routine for IBM SP3
22     o removed variables in dynamics
23     !!! I forgot to create tag chkpt44d_pre !!!
24     !!! But chkpt44d_pre = chkpt44c_post !!!
25 heimbach 1.58
26 jmc 1.59 chkpt44c_pre,post
27     o few fix (mask in shap_s2, EmPmR in external_field_load,
28     USE_NATURAL_BCS in solve_for_P);
29     o add arguments myIter & myTime to S/R obcs_calc & solve_for_P
30    
31 heimbach 1.58 checkpoint44b_pre/_post
32     o merge of relevant stuff from the ecco-branch:
33     - genmake: removed $S64 overwrite for case SunOS
34     - pkg/exf: update and corrections for field swapping and obcs
35     - pkg/ecco: parameter lists for the_model_main, the_main_loop
36     harmonized between ECCO and MITgcm
37     - pkg/autodiff: added flow directives for obcs, mdsio_gl_slice
38     updated checkpointing_lev... lists for obcs
39     - model/src: minor changes in forward_step, plot_field
40     added directive for divided adjoint in the_main_loop
41     - pkg/mdsio: added mdsio_gl_slice
42 jmc 1.57
43     o check parameters & config (chkpt44a_pre,post)
44 jmc 1.56 o OBC and NonLin_FrSurf.
45    
46 heimbach 1.55 checkpoint44
47 jmc 1.54 o fix bug in mom_vi_del2uv
48 jmc 1.56 o select when filters are applied ; add options to zonal_filter (data.zonfilt)
49     o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection)
50     o update AIM experiments (NCEP input files)
51     o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf)
52 heimbach 1.55 o added some stuff for AD
53 adcroft 1.53
54     checkpoint43
55     o added two new advection tests
56     o added global 4x4 degree ocean test
57     o added test of H&S94 with free surface on cube
58     o some final mods for gradient check, adjoint,...
59 heimbach 1.52
60     checkpoint42
61     Fixed AD-related problems:
62     o Store directives up-to-date with re-arranged Adams-Bashforth
63     (mainly thermodynamics.F)
64     o New store directives for multi-dim. advection schemes
65     * new CPP flag ALLOW_MULTI_DIM_ADVECTION
66     * new common block and key passkey
67     (mainly gad_advection.F)
68     o Modified store directives for split of dynamics/thermodynamics
69     for the case ALLOW_KPP
70     o Cleaned argument list for timestep_tracer.F
71 adcroft 1.51
72     checkpoint41
73     o re-formatted/added comments in prologues of key subroutines
74     to work with protex
75 heimbach 1.47
76 adcroft 1.50 checkpoint40
77     o moved calc_gs, calc_gt and calc_tr1 back to model/src
78     o added FLT (floats) package from Arne along with demo. experiment
79     o re-arranged Adams-Bashforth scheme for tracers to allow easier
80     implementation of forward-in-time forcing terms
81     o more mods for non-linear free-surface including new variable
82     o modified multi-dim method to work on cube
83     o bug fix in KPP (from DM)
84    
85 adcroft 1.49 checkpoint40pre9
86     o added DST advection schemes
87     o fix MPI bug on SGI's
88     o modifications for non-linear free-surface
89     o fixed conditionals for fixed flow/passive tracer only mode
90     o added tension/strain form of stress tensor
91     o changes to commenting of arguments for TAF/TAMC
92     o added/updated many matlab scripts
93 adcroft 1.50 o added multi-dimensional advection method for tracers
94 adcroft 1.49
95 adcroft 1.48 checkpoint40pre8
96 heimbach 1.47 o new package rw/
97     Added method for dumping intermediate local arrays:
98     mdsio_writetile - same as mdsio_writefield except works from inside
99     bi,bj loop
100     mdsio_writelocal - same as mdsio_writetile except works for local
101     arrays
102     write_local_r? - higher-level wrapper for mdsio_writelocal
103     Controlled by diagFreq. Defaults to zero (ie. no dumps)
104     Example given at end of mom_vecinv.F that dumps some local arrays.
105     o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to
106     control flux-form versus vector invariant code.
107     Switch is runtime flag vectorInvariantMomentum (defaults to false)
108     or genmake -DISABLE ...
109     o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F
110     (additional storing is now needed for case vecinv;
111     currently nothing implemented to switch this storing off
112     in case fluxform is used since no CPP flag available).
113 heimbach 1.46
114     checkpoint40pre7
115     o bug fix in dynamics.F
116     calc_viscosity called before k=1,Nr loop.
117     o added some #ifdef's ALLOW_PASSIVE_TRACER
118     o cleaned initialisations in ctrl_map_ini
119     related to TAF
120 heimbach 1.45
121     checkpoint40pre6
122     o split dynamics into thermodynamics & dynamics
123     o corresponding split of calc_diffusivity into
124     calc_diffusivity, calc_viscosity
125     (kpp_calc_diff, kpp_calc_visc).
126     o Added diffkr, kapgm to control variables
127     o bug fix in gmredi_slope_limit for ldd97
128 adcroft 1.44
129     checkpoint40pre5
130     o proper initialization of Adams-Bashforth time stepping
131     + uses forward step for very first step of model (iter=0)
132     o re-generated *all* output since almost all output is modified by this
133     change (sorry but we've been putting this one off for about 2 years)
134     + natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were
135     *not* regenerated since they are already out of date and I don't
136     want to create the impression that they are suddenly working.
137     o removed KAP stuff for DEC's
138     o modified/added many .cvsignore files in */code and */input
139     o added new expt "solid-body.cs-32x32x1"
140     + this uses an alternative form of ini_curvilinear_grid.F which
141     is not necessarily any better than the current one...
142 heimbach 1.43
143     checkpoint40pre4
144     o added re-initialisations of utrans,vtrans,rtrans in
145     calc_common_factors which are crucial for TAF.
146     o extended iMin,jMin range for calc_common_factors,
147     calc_diffusivity
148     o added option ALLOW_PASSIVE_TRACER
149     o a few minor updates and fixes
150    
151 heimbach 1.42 checkpoint40pre3
152     o created calc_gtr1.F for gad package
153     o split the_main_loop and re-introduced forward_step
154     o some recomputations of nIter0 for TAMC
155    
156 heimbach 1.41 checkpoint40pre2
157     o Updated to latest branch of AJA, JMC
158     o Added gradient check package
159     o Added routines for passive tracer handling
160     o Added carbon sequestration sensitivity experiment
161    
162 heimbach 1.39 checkpoint39
163     o Modifications and fixes to support TAMC
164     (mainly missing or wrong directives)
165     o Corrected common blocks when fooling TAMC to produce adjoint I/O
166     in addummy_in_stepping
167     o Updated verification/vero/ (bug fixes in code/, correct pickups in input/)
168     o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs.
169     o Included following packages:
170     cal: calendar
171     exf: external forcing
172     ecco: essential routines to control use of cal, exf
173     (NB: this is not the full ECCO environment)
174 heimbach 1.40 o disabled some packages by default in genmake
175 heimbach 1.39
176 heimbach 1.38 checkpoint38
177     o see notes_c37_adj.txt
178     o corrected wrong layer index in external_forcing_t
179     o replaced the_main_loop/forward_step by the_main_loop
180     o removed forceoutput from write_state
181     (replaced criteria for initial/final state)
182     o added runtime flag for pre-C35 pickups: usePickupBeforeC35
183 jmc 1.36
184 jmc 1.37 checkpoint37
185     o mdsio.F routine split and packaged in pkg/mdsio
186     (mdsio.F and mdsio_gl.F still exist in eesupp/src but are not
187     used unless genmake -disable=mdsio)
188     o allow a more precise surface-geopotential gradient for the atmosphere
189     taking into account the change in space of Alpha (=1/rho) at the surface.
190     o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit]
191     (ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa])
192     o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and
193     Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential
194     [m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere).
195     o Time-Average diagnostics defined as a pseudo package "timeave".
196     o pickup files : old pickup (before c35) did not work with new code (c35
197     and after) unless activating 2 commented lines in initialise-varia.
198     o Non-Hydrostatic pickup file Pb fixed.
199     o bug with Rigid-lid version (since c35) fixed.
200    
201 jmc 1.36 checkpoint36
202 jmc 1.37 o implement Crank-Nickelson barotropic time-stepping
203 jmc 1.36 o recover Time-Average diagnostics
204     o fix Pb in checkpoint (PR#19)
205     o AIM become a standard package ; clean unused CPP_kees
206 jmc 1.35
207     checkpoint35
208     o subtantial rewrite of dynamics.f
209     o allows staggered time-stepping
210     o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt
211     o added bottom drag (linear + quadratic)
212 heimbach 1.33
213     checkpoint34
214     o Modified exchange routines for correct reverse simulation.
215     o Added verification output to comply with bug fix in impldiff.F
216     as of c33 (exp2, natl_box).
217     o Corrected store directives in dynamics.F
218     o Corrected array boundaries in impldiff.F
219     o Corrected array dimensions in gmredi.
220     Added temporary scalars to avoid storage by TAMC (gmredi, kpp).
221 heimbach 1.34 o Added routine GLOBAL_SUM_INT to global_sum.F
222 heimbach 1.33 o Added mdsio_gl.F for ECCO purposes.
223 adcroft 1.32
224     checkpoint33
225     o Fixed bug in lower BC in impldiff.F
226     o Fixed confusion about units of forcing arrays in FFIELDS.h
227     namely Fu,Fv,Qnet,Qsw,EmPmR:
228     - Removed verification/natl_box/code/external_fields_scale.F
229     (did not differ from that in model/src)
230     - Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units
231     (see FFIELDS.h for description)
232     - Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F,
233     kpp_calc.F and kpp_transport_t.F
234     - Removed model/src/external_fields_scale.F and calls to it
235     - verification/natl_box uses flux data with "atmospheric" sign so
236     a special version of external_fields_load.F is used to
237     change the data as it's read in. This way, the arrays
238     have the right units and signs at all times tha a user could
239     possibly use them.
240     o Corrected genmake to delete a temporary file during configuration
241 heimbach 1.31
242     checkpoint32
243     o Scaling of forcing fields moved from external_forcing.F to
244     external_fields_scale.F, called directly after loading fields.
245     o Surface relaxation terms added to surface tendency fields in
246     extra subroutine.
247     o impldiff.F changed to avoid storing by TAMC of huge intermediate
248     fields.
249     o Changes in GMRedi to comply with packaging structure.
250     o Modifications and bug fixes in KPP package.
251     o Verification experiment for KPP added (verification/nat_box/)
252 heimbach 1.30
253     checkpoint31
254     o Packages interface brought in line with defined standard
255     -> new routines packages_...F
256     -> changes in initialise_fixed.F, initialise_varia.F
257     -> enables initialisation interface for ECCO package
258     o Rescaling of external forcing fields immediately after read
259     (removed from external_forcing.F)
260     -> new: surface_fields_scale.F
261     -> affects ini_foorcing.F, external_fields_load.F
262     o Computation of surface tendencies before tendency updates.
263     -> new: external_forcing_surf.F
264     o Change of variable names useGMRedi, useKPP, useECCO
265     o Further changes in dynamics.F, impldiff.F for TAMC
266     o Tested for experiments 0, 2, 4.
267     - not yet tested for GMRedi.
268     - not yet tested for KPP.
269 adcroft 1.29
270     checkpoint30
271     o Updates for OBCs
272     o New experiment for test OBCs (internal_wave)
273     o New output.txt in verification/exp4/results/
274     o Updates for KPP: calculation of viscosity corrected, new variables
275     kpp_dumpFreq and kpp_taveFreq
276     o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.)
277     and entry for T90 in genmake
278 adcroft 1.28
279     checkpoint29
280     o packaged KPP and GM/Redi
281 heimbach 1.27
282     checkpoint28
283     o Corrected initialization of hFacMin for difference vertical coordinates
284     o Modified calculation of partial cell thickness to more robust algorithm
285     o config_summary.F: replaced write_1D_... by write_0D_...
286     read_write.F: added subroutines write_0D_...
287     o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho:
288     included some initialisations required for TAMC.
289     o routine calc_isoslopes: modified sqrt computation to make it
290     differentiable for zero argument.
291     o routines dynamics, impldiff:
292     included store directives and tape key computations required for TAMC.
293     o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC
294 adcroft 1.26
295     checkpoint27
296     o fixed calc_isoslopes() to so that cancellation of terms in tensor
297     formulation works properly with variable resolution.
298     o restructured the calling tree between the_model_main() and dynamics()
299     o split initialise() into initialise_fixed() and initialise_varia()
300     o introduced initialization file pSurfInitFile for free surface (cg2d_x)
301     in new routine ini_psurf()
302 adcroft 1.25
303     checkpoint26
304     o moved some #ifdef in optional routines to encompass everything
305     except the argument declarations. This was using up some memory.
306     o fixed macros like _ADT to work with both versions of Linux cpp
307     o cleaned up some unused and uninitialized variables
308     (helps when debugging with strict compile options)
309     o split up CPP_EEOPTIONS.h into options and macros
310     (macros are now in eesupp/inc/CPP_EEMACROS.h)
311     o patch for 2 processor JAM mode
312 adcroft 1.24
313     checkpoint25
314     o updates for OBCs and NH
315     o dramatically reduced memory usage
316     o added "JAM" routines for use on Artic network
317     o parameterization of convection by implicit vertical diffusion
318     o added a diagnostic of convective index
319     o moved call to calc_divg_hat() from dynamics() to solve_for_pressure()
320     (this is was partly for OBCs and NH but also in anticipation of
321     an explicit free-surface option)
322     o initial state input files for U and V
323 adcroft 1.23
324     checkpoint24
325     o Removed some spurious "REAL"s
326     o Updated KPP to latest version from JPL
327     o Added a COS(latitude) in horizontal viscosity
328 adcroft 1.22
329     checkpoint23
330     o Added del^4 diffusion for salt and temperature
331     o Multiple minor fixes (implicit none's, arguments to global_sum, etc.)
332 adcroft 1.21
333     checkpoint22
334     o Made many small changes: implicit none, format(i5), etc...
335     o Introduced KPP mixing scheme (compiles and runs but *not* tested)
336 adcroft 1.20
337     checkpoint21
338     o Introduced new I/O package that supports direct-access records (mdsio.F)
339     o Split-up mid-level I/O routines
340     o Updated input data for experiments 0,1,2,4 and 5
341     o Finally removed the genmake.* scripts (everyone seems happy with genmake)
342 adcroft 1.18
343 adcroft 1.19 checkpoint20
344     o Tidied up open-boundaries some more
345     o Added non-hydrostatic code
346     o Fixed some input data
347     o Modified MPI start-up to work in "coupled" context.
348    
349 adcroft 1.18 checkpoint19
350     o Tidied up directory structure for verification experiments.
351     o Added new code for open boundaries.
352     o Corrected advective terms near boundaries.
353     o Added CPP flag for "old UV" geometry and corrected spherical geometry.
354     o Implemented free-slip/no-slip BCs and del^4 dissipation.
355 adcroft 1.19 o Split default parameters out of ini_parms.F into set_defaults.F.
356 cnh 1.17
357     checkpoint18
358     o Further changes for optional code generation with
359     CPP - ugh!
360 cnh 1.16
361     checkpoint17
362     o Beginning to incorporating modularity
363     for supporting atmos. and ocean configs.
364     o Small changes for TAMC complinace
365     o New ultra simple test case. Barotropic box
366     configuration "exp0".
367 cnh 1.15
368     checkpoint16
369     o Minor changes to exchange routines to support
370     accumulation in reverse mode. Adjoint of an
371     assignment is an addition.
372     o Changes to support compilation by TAMC (LR(1)
373     syntax) and by g77 under Linux ( 72 character
374     limit ).
375 cnh 1.14
376     checkpoint15
377     Rewrote exchange routines to allow
378     o General tile <-> tile connectivity.
379     o TAMC reverse mode flag ( is this really needed? )
380     o Variable width overlap and exchange region widths.
381     o Hooks for sharing data via DMA, Arctic, Memory Channel,
382     shmput/shmget, VIA, SYSV shmem and every other cool
383     communication method.
384 cnh 1.13
385     checkpoint14
386     Consistent isomorphism chages made. These allow dynamical core
387     to support both pressure and meters as a vertical coordinate.
388 cnh 1.12
389     checkpoint13
390     Release which corrects global_max problem and a couple
391     of KGM time-averaging diagnostic errors. Also contains
392     a double-gyre experiment setup as well as the baseline
393     4 degree global template. The double gyre template is
394     organised to allow it to be applied automatically to
395     the baseline configuration.
396 adcroft 1.11
397     branch-point-rdot
398     A few tidy-ups have been made bt the real point of this
399     check-point (excuse the pun) is to allow a branch to be
400     made for the purposes of adding the rDot alterations.
401     I don't want to commit the rDot to the main-trunk until
402     we've actually tested it...
403 cnh 1.10
404     checkpoint12
405     Tidy up and added generic genmake script (formerly
406     configure script).
407     Released to testers.
408 adcroft 1.9
409     checkpoint11
410     Re-arranged initialise() and introduced ini_vertical_grid()
411     and ini_masks_etc().
412 adcroft 1.8
413     checkpoint10
414     Introduced the configure script.
415     Separated out the diags package.
416     Added template for writing time-averages of tile/intermediate quantities.
417     Updated SIZE.h in exp2 and made the data big-endian.
418 adcroft 1.7
419     checkpoint9
420     MPI fix. Filename changes (meta/data). salbin*y stuff.
421     General tidy-up.
422     SST.bin SSS.bin added to verification/exp2
423 adcroft 1.6
424     checkpoint8
425     Inludes time-dependant forcing and time-averaging.
426     Works at 4x4 and 2.8125x2.8125 global
427    
428     checkpoint7-4degree-ref
429     Branch from checkpoint7. Released for application to
430     global modeling and general modeling - process studies, regional
431     model etc..
432     Configured for verification/exp2 - 4 degree global, two process.
433 cnh 1.5
434     checkpoint7
435     Created by cnh
436     Simple 4 degree global simulation
437     configuration.
438     Includes climatological wind,
439     hydrography, bathymetry etc
440     Does not include Heat Flux and E-P
441 cnh 1.4
442     checkpoint6
443     Created by cnh
444     merged checkpoint5 with CD and
445     spherical polar code.
446     Still some problems with GM Redi
447     abd full topography.
448 cnh 1.3
449     checkpoint5
450     Created by AJA
451     contains updates to GM Redi
452     and reordered timestepping loop
453     for Implicit Diffusion.
454 cnh 1.2
455     checkpoint4
456     Created by cnh
457     Contains memory saving macros ( _rdxc etc..) for when
458     grid variations are limited.
459     Contains polynomial coeffs for EOS and knudsen program
460     for generation.
461    
462 cnh 1.1 checkpoint3
463     Created by cnh
464     Added extra flags for runtime options
465     Added this file
466     Added implicit free-surface
467     Added pre-conditioner
468     Put compare01 into repository ( compare01/... )
469     Put data and eedata into repository ( verification/exp1 )
470    
471     checkpoint2
472     Created by AJA
473     Added GM/Redi
474    
475     checkpoint1
476     Created by AJA
477     Restructured kloop in dynamics.F
478     Added non-linear EOS
479    
480 cnh 1.2 baseline
481     Original checked in code
482 cnh 1.1

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