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revision 1.3 by cnh, Mon Jun 8 19:25:25 1998 UTC revision 1.53.2.8 by heimbach, Thu May 30 22:21:06 2002 UTC
# Line 3  $Header$ Line 3  $Header$
3      Notes on tags used in MITgcmUV      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  checkpoint5
483   Created by AJA   Created by AJA
484   contains updates to GM Redi   contains updates to GM Redi

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