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Revision 1.53.2.4 - (hide annotations) (download)
Wed Apr 17 01:48:17 2002 UTC (22 years, 1 month ago) by heimbach
Branch: release1
CVS Tags: release1_p2
Changes since 1.53.2.3: +10 -2 lines
Creating release1_p2
o partial recomputation bug fix for adjoint (kappar...)
o switched-off sponge layer code
o recomputation fix in thermodynamics

1 heimbach 1.53.2.4 $Header: /u/gcmpack/MITgcm/doc/tag-index,v 1.53.2.3 2002/04/08 20:27:12 heimbach Exp $
2 cnh 1.1
3     Notes on tags used in MITgcmUV
4     ==============================
5 heimbach 1.53.2.2
6 heimbach 1.53.2.4 release1_p2
7     o fixed array boundary problem for adjoint
8     (related to partial recomputation within subroutine
9     related to dynamics -> calc_viscosity -> mom_...
10     o fixed recomputation in thermodynamics
11     o prepare (but not complete) recomputation problem in impldiff
12     o fixed problem for adjoint of global_max
13     o switched off sponge layer code in external_forcing
14 heimbach 1.53.2.3
15 heimbach 1.53.2.4 release1_p1
16 heimbach 1.53.2.3 o merged necessary patches:
17     - AD-related changes for GMRedi
18     - fixes i KPP (delZ -> drF)
19     - hook to OBCS songe layer code in external_forcing
20     - errorMessageUnit non-zero in eeboot.F
21     - modified test cost function and carbon verif.
22    
23     release1_chkpt44d_post = chkpt44d_post
24 heimbach 1.53.2.2
25     chkpt44d_pre,post
26     o added missing EXCLUDE_MONITOR flags
27     o changed "e" to "_d" in gmredi_slope_limit, gmredi_slope_psi
28     (incompatible typ in MIN/MAX expressions caused problems
29     on IBM SP3)
30     o in genmake added variable MAKEDEPEND
31     plus resetting for case SunOS
32     o added timer_stats.c routine for IBM SP3
33     o removed variables in dynamics
34    
35 heimbach 1.53.2.3 o real fresh water flux implemented with non-linear free-surface.
36 heimbach 1.53.2.2
37     chkpt44c_pre,post
38     o few fix (mask in shap_s2, EmPmR in external_field_load,
39     USE_NATURAL_BCS in solve_for_P);
40     o add arguments myIter & myTime to S/R obcs_calc & solve_for_P
41    
42     checkpoint44b_pre/_post
43     o merge of relevant stuff from the ecco-branch:
44     - genmake: removed $S64 overwrite for case SunOS
45     - pkg/exf: update and corrections for field swapping and obcs
46     - pkg/ecco: parameter lists for the_model_main, the_main_loop
47     harmonized between ECCO and MITgcm
48     - pkg/autodiff: added flow directives for obcs, mdsio_gl_slice
49     updated checkpointing_lev... lists for obcs
50     - model/src: minor changes in forward_step, plot_field
51     added directive for divided adjoint in the_main_loop
52     - pkg/mdsio: added mdsio_gl_slice
53    
54     o check parameters & config (chkpt44a_pre,post)
55     o OBC and NonLin_FrSurf.
56    
57     checkpoint44
58 adcroft 1.53.2.1 o fix bug in mom_vi_del2uv
59 heimbach 1.53.2.2 o select when filters are applied ; add options to zonal_filter (data.zonfilt)
60     o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection)
61     o update AIM experiments (NCEP input files)
62     o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf)
63     o added some stuff for AD
64 adcroft 1.53
65     checkpoint43
66     o added two new advection tests
67     o added global 4x4 degree ocean test
68     o added test of H&S94 with free surface on cube
69     o some final mods for gradient check, adjoint,...
70 heimbach 1.52
71     checkpoint42
72     Fixed AD-related problems:
73     o Store directives up-to-date with re-arranged Adams-Bashforth
74     (mainly thermodynamics.F)
75     o New store directives for multi-dim. advection schemes
76     * new CPP flag ALLOW_MULTI_DIM_ADVECTION
77     * new common block and key passkey
78     (mainly gad_advection.F)
79     o Modified store directives for split of dynamics/thermodynamics
80     for the case ALLOW_KPP
81     o Cleaned argument list for timestep_tracer.F
82 adcroft 1.51
83     checkpoint41
84     o re-formatted/added comments in prologues of key subroutines
85     to work with protex
86 heimbach 1.47
87 adcroft 1.50 checkpoint40
88     o moved calc_gs, calc_gt and calc_tr1 back to model/src
89     o added FLT (floats) package from Arne along with demo. experiment
90     o re-arranged Adams-Bashforth scheme for tracers to allow easier
91     implementation of forward-in-time forcing terms
92     o more mods for non-linear free-surface including new variable
93     o modified multi-dim method to work on cube
94     o bug fix in KPP (from DM)
95    
96 adcroft 1.49 checkpoint40pre9
97     o added DST advection schemes
98     o fix MPI bug on SGI's
99     o modifications for non-linear free-surface
100     o fixed conditionals for fixed flow/passive tracer only mode
101     o added tension/strain form of stress tensor
102     o changes to commenting of arguments for TAF/TAMC
103     o added/updated many matlab scripts
104 adcroft 1.50 o added multi-dimensional advection method for tracers
105 adcroft 1.49
106 adcroft 1.48 checkpoint40pre8
107 heimbach 1.47 o new package rw/
108     Added method for dumping intermediate local arrays:
109     mdsio_writetile - same as mdsio_writefield except works from inside
110     bi,bj loop
111     mdsio_writelocal - same as mdsio_writetile except works for local
112     arrays
113     write_local_r? - higher-level wrapper for mdsio_writelocal
114     Controlled by diagFreq. Defaults to zero (ie. no dumps)
115     Example given at end of mom_vecinv.F that dumps some local arrays.
116     o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to
117     control flux-form versus vector invariant code.
118     Switch is runtime flag vectorInvariantMomentum (defaults to false)
119     or genmake -DISABLE ...
120     o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F
121     (additional storing is now needed for case vecinv;
122     currently nothing implemented to switch this storing off
123     in case fluxform is used since no CPP flag available).
124 heimbach 1.46
125     checkpoint40pre7
126     o bug fix in dynamics.F
127     calc_viscosity called before k=1,Nr loop.
128     o added some #ifdef's ALLOW_PASSIVE_TRACER
129     o cleaned initialisations in ctrl_map_ini
130     related to TAF
131 heimbach 1.45
132     checkpoint40pre6
133     o split dynamics into thermodynamics & dynamics
134     o corresponding split of calc_diffusivity into
135     calc_diffusivity, calc_viscosity
136     (kpp_calc_diff, kpp_calc_visc).
137     o Added diffkr, kapgm to control variables
138     o bug fix in gmredi_slope_limit for ldd97
139 adcroft 1.44
140     checkpoint40pre5
141     o proper initialization of Adams-Bashforth time stepping
142     + uses forward step for very first step of model (iter=0)
143     o re-generated *all* output since almost all output is modified by this
144     change (sorry but we've been putting this one off for about 2 years)
145     + natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were
146     *not* regenerated since they are already out of date and I don't
147     want to create the impression that they are suddenly working.
148     o removed KAP stuff for DEC's
149     o modified/added many .cvsignore files in */code and */input
150     o added new expt "solid-body.cs-32x32x1"
151     + this uses an alternative form of ini_curvilinear_grid.F which
152     is not necessarily any better than the current one...
153 heimbach 1.43
154     checkpoint40pre4
155     o added re-initialisations of utrans,vtrans,rtrans in
156     calc_common_factors which are crucial for TAF.
157     o extended iMin,jMin range for calc_common_factors,
158     calc_diffusivity
159     o added option ALLOW_PASSIVE_TRACER
160     o a few minor updates and fixes
161    
162 heimbach 1.42 checkpoint40pre3
163     o created calc_gtr1.F for gad package
164     o split the_main_loop and re-introduced forward_step
165     o some recomputations of nIter0 for TAMC
166    
167 heimbach 1.41 checkpoint40pre2
168     o Updated to latest branch of AJA, JMC
169     o Added gradient check package
170     o Added routines for passive tracer handling
171     o Added carbon sequestration sensitivity experiment
172    
173 heimbach 1.39 checkpoint39
174     o Modifications and fixes to support TAMC
175     (mainly missing or wrong directives)
176     o Corrected common blocks when fooling TAMC to produce adjoint I/O
177     in addummy_in_stepping
178     o Updated verification/vero/ (bug fixes in code/, correct pickups in input/)
179     o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs.
180     o Included following packages:
181     cal: calendar
182     exf: external forcing
183     ecco: essential routines to control use of cal, exf
184     (NB: this is not the full ECCO environment)
185 heimbach 1.40 o disabled some packages by default in genmake
186 heimbach 1.39
187 heimbach 1.38 checkpoint38
188     o see notes_c37_adj.txt
189     o corrected wrong layer index in external_forcing_t
190     o replaced the_main_loop/forward_step by the_main_loop
191     o removed forceoutput from write_state
192     (replaced criteria for initial/final state)
193     o added runtime flag for pre-C35 pickups: usePickupBeforeC35
194 jmc 1.36
195 jmc 1.37 checkpoint37
196     o mdsio.F routine split and packaged in pkg/mdsio
197     (mdsio.F and mdsio_gl.F still exist in eesupp/src but are not
198     used unless genmake -disable=mdsio)
199     o allow a more precise surface-geopotential gradient for the atmosphere
200     taking into account the change in space of Alpha (=1/rho) at the surface.
201     o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit]
202     (ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa])
203     o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and
204     Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential
205     [m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere).
206     o Time-Average diagnostics defined as a pseudo package "timeave".
207     o pickup files : old pickup (before c35) did not work with new code (c35
208     and after) unless activating 2 commented lines in initialise-varia.
209     o Non-Hydrostatic pickup file Pb fixed.
210     o bug with Rigid-lid version (since c35) fixed.
211    
212 jmc 1.36 checkpoint36
213 jmc 1.37 o implement Crank-Nickelson barotropic time-stepping
214 jmc 1.36 o recover Time-Average diagnostics
215     o fix Pb in checkpoint (PR#19)
216     o AIM become a standard package ; clean unused CPP_kees
217 jmc 1.35
218     checkpoint35
219     o subtantial rewrite of dynamics.f
220     o allows staggered time-stepping
221     o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt
222     o added bottom drag (linear + quadratic)
223 heimbach 1.33
224     checkpoint34
225     o Modified exchange routines for correct reverse simulation.
226     o Added verification output to comply with bug fix in impldiff.F
227     as of c33 (exp2, natl_box).
228     o Corrected store directives in dynamics.F
229     o Corrected array boundaries in impldiff.F
230     o Corrected array dimensions in gmredi.
231     Added temporary scalars to avoid storage by TAMC (gmredi, kpp).
232 heimbach 1.34 o Added routine GLOBAL_SUM_INT to global_sum.F
233 heimbach 1.33 o Added mdsio_gl.F for ECCO purposes.
234 adcroft 1.32
235     checkpoint33
236     o Fixed bug in lower BC in impldiff.F
237     o Fixed confusion about units of forcing arrays in FFIELDS.h
238     namely Fu,Fv,Qnet,Qsw,EmPmR:
239     - Removed verification/natl_box/code/external_fields_scale.F
240     (did not differ from that in model/src)
241     - Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units
242     (see FFIELDS.h for description)
243     - Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F,
244     kpp_calc.F and kpp_transport_t.F
245     - Removed model/src/external_fields_scale.F and calls to it
246     - verification/natl_box uses flux data with "atmospheric" sign so
247     a special version of external_fields_load.F is used to
248     change the data as it's read in. This way, the arrays
249     have the right units and signs at all times tha a user could
250     possibly use them.
251     o Corrected genmake to delete a temporary file during configuration
252 heimbach 1.31
253     checkpoint32
254     o Scaling of forcing fields moved from external_forcing.F to
255     external_fields_scale.F, called directly after loading fields.
256     o Surface relaxation terms added to surface tendency fields in
257     extra subroutine.
258     o impldiff.F changed to avoid storing by TAMC of huge intermediate
259     fields.
260     o Changes in GMRedi to comply with packaging structure.
261     o Modifications and bug fixes in KPP package.
262     o Verification experiment for KPP added (verification/nat_box/)
263 heimbach 1.30
264     checkpoint31
265     o Packages interface brought in line with defined standard
266     -> new routines packages_...F
267     -> changes in initialise_fixed.F, initialise_varia.F
268     -> enables initialisation interface for ECCO package
269     o Rescaling of external forcing fields immediately after read
270     (removed from external_forcing.F)
271     -> new: surface_fields_scale.F
272     -> affects ini_foorcing.F, external_fields_load.F
273     o Computation of surface tendencies before tendency updates.
274     -> new: external_forcing_surf.F
275     o Change of variable names useGMRedi, useKPP, useECCO
276     o Further changes in dynamics.F, impldiff.F for TAMC
277     o Tested for experiments 0, 2, 4.
278     - not yet tested for GMRedi.
279     - not yet tested for KPP.
280 adcroft 1.29
281     checkpoint30
282     o Updates for OBCs
283     o New experiment for test OBCs (internal_wave)
284     o New output.txt in verification/exp4/results/
285     o Updates for KPP: calculation of viscosity corrected, new variables
286     kpp_dumpFreq and kpp_taveFreq
287     o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.)
288     and entry for T90 in genmake
289 adcroft 1.28
290     checkpoint29
291     o packaged KPP and GM/Redi
292 heimbach 1.27
293     checkpoint28
294     o Corrected initialization of hFacMin for difference vertical coordinates
295     o Modified calculation of partial cell thickness to more robust algorithm
296     o config_summary.F: replaced write_1D_... by write_0D_...
297     read_write.F: added subroutines write_0D_...
298     o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho:
299     included some initialisations required for TAMC.
300     o routine calc_isoslopes: modified sqrt computation to make it
301     differentiable for zero argument.
302     o routines dynamics, impldiff:
303     included store directives and tape key computations required for TAMC.
304     o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC
305 adcroft 1.26
306     checkpoint27
307     o fixed calc_isoslopes() to so that cancellation of terms in tensor
308     formulation works properly with variable resolution.
309     o restructured the calling tree between the_model_main() and dynamics()
310     o split initialise() into initialise_fixed() and initialise_varia()
311     o introduced initialization file pSurfInitFile for free surface (cg2d_x)
312     in new routine ini_psurf()
313 adcroft 1.25
314     checkpoint26
315     o moved some #ifdef in optional routines to encompass everything
316     except the argument declarations. This was using up some memory.
317     o fixed macros like _ADT to work with both versions of Linux cpp
318     o cleaned up some unused and uninitialized variables
319     (helps when debugging with strict compile options)
320     o split up CPP_EEOPTIONS.h into options and macros
321     (macros are now in eesupp/inc/CPP_EEMACROS.h)
322     o patch for 2 processor JAM mode
323 adcroft 1.24
324     checkpoint25
325     o updates for OBCs and NH
326     o dramatically reduced memory usage
327     o added "JAM" routines for use on Artic network
328     o parameterization of convection by implicit vertical diffusion
329     o added a diagnostic of convective index
330     o moved call to calc_divg_hat() from dynamics() to solve_for_pressure()
331     (this is was partly for OBCs and NH but also in anticipation of
332     an explicit free-surface option)
333     o initial state input files for U and V
334 adcroft 1.23
335     checkpoint24
336     o Removed some spurious "REAL"s
337     o Updated KPP to latest version from JPL
338     o Added a COS(latitude) in horizontal viscosity
339 adcroft 1.22
340     checkpoint23
341     o Added del^4 diffusion for salt and temperature
342     o Multiple minor fixes (implicit none's, arguments to global_sum, etc.)
343 adcroft 1.21
344     checkpoint22
345     o Made many small changes: implicit none, format(i5), etc...
346     o Introduced KPP mixing scheme (compiles and runs but *not* tested)
347 adcroft 1.20
348     checkpoint21
349     o Introduced new I/O package that supports direct-access records (mdsio.F)
350     o Split-up mid-level I/O routines
351     o Updated input data for experiments 0,1,2,4 and 5
352     o Finally removed the genmake.* scripts (everyone seems happy with genmake)
353 adcroft 1.18
354 adcroft 1.19 checkpoint20
355     o Tidied up open-boundaries some more
356     o Added non-hydrostatic code
357     o Fixed some input data
358     o Modified MPI start-up to work in "coupled" context.
359    
360 adcroft 1.18 checkpoint19
361     o Tidied up directory structure for verification experiments.
362     o Added new code for open boundaries.
363     o Corrected advective terms near boundaries.
364     o Added CPP flag for "old UV" geometry and corrected spherical geometry.
365     o Implemented free-slip/no-slip BCs and del^4 dissipation.
366 adcroft 1.19 o Split default parameters out of ini_parms.F into set_defaults.F.
367 cnh 1.17
368     checkpoint18
369     o Further changes for optional code generation with
370     CPP - ugh!
371 cnh 1.16
372     checkpoint17
373     o Beginning to incorporating modularity
374     for supporting atmos. and ocean configs.
375     o Small changes for TAMC complinace
376     o New ultra simple test case. Barotropic box
377     configuration "exp0".
378 cnh 1.15
379     checkpoint16
380     o Minor changes to exchange routines to support
381     accumulation in reverse mode. Adjoint of an
382     assignment is an addition.
383     o Changes to support compilation by TAMC (LR(1)
384     syntax) and by g77 under Linux ( 72 character
385     limit ).
386 cnh 1.14
387     checkpoint15
388     Rewrote exchange routines to allow
389     o General tile <-> tile connectivity.
390     o TAMC reverse mode flag ( is this really needed? )
391     o Variable width overlap and exchange region widths.
392     o Hooks for sharing data via DMA, Arctic, Memory Channel,
393     shmput/shmget, VIA, SYSV shmem and every other cool
394     communication method.
395 cnh 1.13
396     checkpoint14
397     Consistent isomorphism chages made. These allow dynamical core
398     to support both pressure and meters as a vertical coordinate.
399 cnh 1.12
400     checkpoint13
401     Release which corrects global_max problem and a couple
402     of KGM time-averaging diagnostic errors. Also contains
403     a double-gyre experiment setup as well as the baseline
404     4 degree global template. The double gyre template is
405     organised to allow it to be applied automatically to
406     the baseline configuration.
407 adcroft 1.11
408     branch-point-rdot
409     A few tidy-ups have been made bt the real point of this
410     check-point (excuse the pun) is to allow a branch to be
411     made for the purposes of adding the rDot alterations.
412     I don't want to commit the rDot to the main-trunk until
413     we've actually tested it...
414 cnh 1.10
415     checkpoint12
416     Tidy up and added generic genmake script (formerly
417     configure script).
418     Released to testers.
419 adcroft 1.9
420     checkpoint11
421     Re-arranged initialise() and introduced ini_vertical_grid()
422     and ini_masks_etc().
423 adcroft 1.8
424     checkpoint10
425     Introduced the configure script.
426     Separated out the diags package.
427     Added template for writing time-averages of tile/intermediate quantities.
428     Updated SIZE.h in exp2 and made the data big-endian.
429 adcroft 1.7
430     checkpoint9
431     MPI fix. Filename changes (meta/data). salbin*y stuff.
432     General tidy-up.
433     SST.bin SSS.bin added to verification/exp2
434 adcroft 1.6
435     checkpoint8
436     Inludes time-dependant forcing and time-averaging.
437     Works at 4x4 and 2.8125x2.8125 global
438    
439     checkpoint7-4degree-ref
440     Branch from checkpoint7. Released for application to
441     global modeling and general modeling - process studies, regional
442     model etc..
443     Configured for verification/exp2 - 4 degree global, two process.
444 cnh 1.5
445     checkpoint7
446     Created by cnh
447     Simple 4 degree global simulation
448     configuration.
449     Includes climatological wind,
450     hydrography, bathymetry etc
451     Does not include Heat Flux and E-P
452 cnh 1.4
453     checkpoint6
454     Created by cnh
455     merged checkpoint5 with CD and
456     spherical polar code.
457     Still some problems with GM Redi
458     abd full topography.
459 cnh 1.3
460     checkpoint5
461     Created by AJA
462     contains updates to GM Redi
463     and reordered timestepping loop
464     for Implicit Diffusion.
465 cnh 1.2
466     checkpoint4
467     Created by cnh
468     Contains memory saving macros ( _rdxc etc..) for when
469     grid variations are limited.
470     Contains polynomial coeffs for EOS and knudsen program
471     for generation.
472    
473 cnh 1.1 checkpoint3
474     Created by cnh
475     Added extra flags for runtime options
476     Added this file
477     Added implicit free-surface
478     Added pre-conditioner
479     Put compare01 into repository ( compare01/... )
480     Put data and eedata into repository ( verification/exp1 )
481    
482     checkpoint2
483     Created by AJA
484     Added GM/Redi
485    
486     checkpoint1
487     Created by AJA
488     Restructured kloop in dynamics.F
489     Added non-linear EOS
490    
491 cnh 1.2 baseline
492     Original checked in code
493 cnh 1.1

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