/[MITgcm]/MITgcm/doc/tag-index
ViewVC logotype

Diff of /MITgcm/doc/tag-index

Parent Directory Parent Directory | Revision Log Revision Log | View Revision Graph Revision Graph | View Patch Patch

revision 1.20 by adcroft, Tue May 18 15:43:59 1999 UTC revision 1.77 by jmc, Fri Jul 12 21:00:23 2002 UTC
# Line 2  $Header$ Line 2  $Header$
2    
3      Notes on tags used in MITgcmUV      Notes on tags used in MITgcmUV
4      ==============================      ==============================
5    checkpoint45d_post
6    o import 2 fixes from release1_p5 (CG2D.h & packages_readparms.F)
7    o use recip_dx*,recip_dy* instead of /dx*,/dy* in orlanski_E,W,N,S
8      (affects plume_on_slope "cg2d" output)
9    o add new parameter deltaTfreesurf for free-surface time stepping
10    o exchange gT,gS when using staggerTimeStep & GM & Oly<4
11    o NONLIN_FRSURF: rescale gNm1 to get a better conservation with A-B
12    o change phiMin in exp1 (to agree with documentation)
13    o add new flags:
14     - T,S forcing inside/outside Adams-Bashforth
15     - turn off temp,salt advection and/or forcing
16     - for each tracer, define internal flag for multiDimAdvection & A-B
17    o monitor: change definition of KE to check conservation of Energy
18    
19    checkpoint45c_post
20    o Removed f90 comments ("!")
21    o Modified initialisations to enable exf package for MITgcm
22      (without invoking ECCO_PACKAGE).
23    o modifications to gradient check package (Martin Losch)
24      - enable centered differences
25      - modified format of standard output
26    
27    checkpoint45b_post
28    o cleaned exchange calls in cg2d
29    o Included CPP option ALLOW_AUTODIFF_MONITOR in forward_step
30    o included CPP option SINGLE_LAYER_MODE in thermodynamics
31      to configure barotropic setup (Martin Losch)
32    o moved some initialisations within bi,bj loop in dynamics
33      (TAF flow dependency)
34    o in initialise_varia, moved call packages_init_variables
35      before convective_adjustment_init
36      (corresponding adjustment of TAF tape initialisation).
37    o in calc_diffusivity/calc_viscosity extended domain to full overlap.
38    
39    checkpoint45a_post
40    o compute Rho over the whole domain (extend iMin,jMin indices)
41    o specific exchange for X-slice domain (case Ny=1)
42    o argument futureIter of S/R obcs_calc missing in exp4 & internal_wave /code
43    o solve_for_pressure : set cg2d_x to zero where OBCS are applied
44    
45    checkpoint44h_post = checkpoint45
46    o Fix to restore differentiability:
47      place at which packages_init_variables is called in
48      initialise_varia is crucial for reverse control flow.
49    o modifications in GMRedi to enable stable adjoint
50      (corresponding modif's in thermodynamics, dynamics)
51    o added missing hook for sponge layer code in external_forcing
52    o modified test cost functions
53    o storing in gad_advection (plus removal of write(0,*)!
54    o missing headers TR1.h added in convective_adjustment routines
55    o errorMessageUnit set non-equal zero in eeboot
56      (conflict on some platforms, e.g. IBM SP3)
57    o modified carbon verif.
58    
59    checkpoint44h_pre
60    o vertical grid option: allow to put the Interface at the middle between
61      2 cell-centers ; replace delZ in pkg/kpp by drF.
62    o GM Advective form: Tracers are advected using the residual transport (=
63      Euler+GM-bolus); set param GM_AdvSeparate=T to return to previous form.
64    
65    checkpoint44g_post
66    o fix surface correction term in multiDimAdvection (affects plume_on_slope
67      results) ; ifdef missing in thermodynamics.F
68    
69    checkpoint44f_pre,checkpoint44f_post
70    o added PTRACERS package
71      This allows an arbitrary number of passive tracers to be integrated
72      forward simultaneously with the dynamicaly model.
73      + Implemented so far:
74        - basic forward algorithm (time-stepping, advection, diffusion, convection)
75        - I/O and checkpointing
76        - GM/Redi  *but*  using the GM/Redi coefficient of Salt
77      + Not implemented so far:
78        - KPP
79        - OBCS
80      + No specific example supplied (yet) but global_ocean.90x40x15 has the
81        necessary data.ptracer file. Simply use -enable=ptracers and uncomment
82        line in data.pkg.
83      + This package is disabled by default since it increases storage.
84    
85    
86    o testscript: added -cleanup option
87    o Shap_filt: a) new shap_filt S/R to use no-slip BC with S2 filter
88                 b) enable to filter 2D fields.
89    
90    checkpoint44e_pre,post
91    o re-wrote convective adjustment to use pre-calculated weights
92      Affects: model/src/convective_adjustment.F, convective_adjustment_ini.F
93      Adds:    model/src/convective_weights.F, convectively_mixtracer.F
94      Original calls to convect() still in place.
95    
96    chkpt44d_pre,post
97    o added missing EXCLUDE_MONITOR flags
98    o changed "e" to "_d" in gmredi_slope_limit, gmredi_slope_psi
99      (incompatible typ in MIN/MAX expressions caused problems
100      on IBM SP3)
101    o in genmake added variable MAKEDEPEND
102      plus resetting for case SunOS
103    o added timer_stats.c routine for IBM SP3
104    o removed variables in dynamics
105    !!! I forgot to create tag chkpt44d_pre !!!
106    !!! But chkpt44d_pre = chkpt44c_post    !!!
107    
108    o real fresh water flux implemented with non-linear free-surface.
109    
110    chkpt44c_pre,post
111    o few fix (mask in shap_s2, EmPmR in external_field_load,
112      USE_NATURAL_BCS in solve_for_P);
113    o add arguments myIter & myTime to S/R obcs_calc & solve_for_P
114    
115    checkpoint44b_pre/_post
116    o merge of relevant stuff from the ecco-branch:
117      - genmake: removed $S64 overwrite for case SunOS
118      - pkg/exf: update and corrections for field swapping and obcs
119      - pkg/ecco: parameter lists for the_model_main, the_main_loop
120                  harmonized between ECCO and MITgcm
121      - pkg/autodiff: added flow directives for obcs, mdsio_gl_slice
122                      updated checkpointing_lev... lists for obcs
123      - model/src: minor changes in forward_step, plot_field
124                   added directive for divided adjoint in the_main_loop
125      - pkg/mdsio: added mdsio_gl_slice
126    
127    o check parameters & config (chkpt44a_pre,post)
128    o OBC and NonLin_FrSurf.
129    
130    checkpoint44
131    o fix bug in mom_vi_del2uv
132    o select when filters are applied ; add options to zonal_filter (data.zonfilt)
133    o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection)
134    o update AIM experiments (NCEP input files)
135    o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf)
136    o added some stuff for AD
137    
138    checkpoint43
139    o added two new advection tests
140    o added global 4x4 degree ocean test
141    o added test of H&S94 with free surface on cube
142    o some final mods for gradient check, adjoint,...
143    
144    checkpoint42
145      Fixed AD-related problems:
146    o Store directives up-to-date with re-arranged Adams-Bashforth
147      (mainly thermodynamics.F)
148    o New store directives for multi-dim. advection schemes
149      * new CPP flag ALLOW_MULTI_DIM_ADVECTION
150      * new common block and key passkey
151      (mainly gad_advection.F)
152    o Modified store directives for split of dynamics/thermodynamics
153      for the case ALLOW_KPP
154    o Cleaned argument list for timestep_tracer.F
155    
156    checkpoint41
157    o re-formatted/added comments in prologues of key subroutines
158      to work with protex
159    
160    checkpoint40
161    o moved calc_gs, calc_gt and calc_tr1 back to model/src
162    o added FLT (floats) package from Arne along with demo. experiment
163    o re-arranged Adams-Bashforth scheme for tracers to allow easier
164      implementation of forward-in-time forcing terms
165    o more mods for non-linear free-surface including new variable
166    o modified multi-dim method to work on cube
167    o bug fix in KPP (from DM)
168    
169    checkpoint40pre9
170    o added DST advection schemes
171    o fix MPI bug on SGI's
172    o modifications for non-linear free-surface
173    o fixed conditionals for fixed flow/passive tracer only mode
174    o added tension/strain form of stress tensor
175    o changes to commenting of arguments for TAF/TAMC
176    o added/updated many matlab scripts
177    o added multi-dimensional advection method for tracers
178      
179    checkpoint40pre8
180    o new package rw/
181      Added method for dumping intermediate local arrays:
182      mdsio_writetile - same as mdsio_writefield except works from inside
183                        bi,bj loop
184      mdsio_writelocal - same as mdsio_writetile except works for local
185                         arrays
186      write_local_r? - higher-level wrapper for mdsio_writelocal
187      Controlled by diagFreq. Defaults to zero (ie. no dumps)
188      Example given at end of mom_vecinv.F that dumps some local arrays.
189    o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to
190      control flux-form versus vector invariant code.
191      Switch is runtime flag vectorInvariantMomentum (defaults to false)
192      or genmake -DISABLE ...
193    o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F
194      (additional storing is now needed for case vecinv;
195      currently nothing implemented to switch this storing off
196      in case fluxform is used since no CPP flag available).
197    
198    checkpoint40pre7
199    o bug fix in dynamics.F
200      calc_viscosity called before k=1,Nr loop.
201    o added some #ifdef's ALLOW_PASSIVE_TRACER
202    o cleaned initialisations in ctrl_map_ini
203      related to TAF
204    
205    checkpoint40pre6
206    o split dynamics into thermodynamics & dynamics
207    o corresponding split of calc_diffusivity into
208      calc_diffusivity, calc_viscosity
209      (kpp_calc_diff, kpp_calc_visc).
210    o Added diffkr, kapgm to control variables
211    o bug fix in gmredi_slope_limit for ldd97
212    
213    checkpoint40pre5
214    o proper initialization of Adams-Bashforth time stepping
215      + uses forward step for very first step of model (iter=0)
216    o re-generated *all* output since almost all output is modified by this
217      change (sorry but we've been putting this one off for about 2 years)
218      + natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were
219        *not* regenerated since they are already out of date and I don't
220        want to create the impression that they are suddenly working.
221    o removed KAP stuff for DEC's
222    o modified/added many .cvsignore files in */code and */input
223    o added new expt "solid-body.cs-32x32x1"
224      + this uses an alternative form of ini_curvilinear_grid.F which
225        is not necessarily any better than the current one...
226    
227    checkpoint40pre4
228    o added re-initialisations of utrans,vtrans,rtrans in
229      calc_common_factors which are crucial for TAF.
230    o extended iMin,jMin range for calc_common_factors,
231      calc_diffusivity
232    o added option ALLOW_PASSIVE_TRACER
233    o a few minor updates and fixes
234    
235    checkpoint40pre3
236    o created calc_gtr1.F for gad package
237    o split the_main_loop and re-introduced forward_step
238    o some recomputations of nIter0 for TAMC
239    
240    checkpoint40pre2
241    o Updated to latest branch of AJA, JMC
242    o Added gradient check package
243    o Added routines for passive tracer handling
244    o Added carbon sequestration sensitivity experiment
245    
246    checkpoint39
247     o Modifications and fixes to support TAMC
248       (mainly missing or wrong directives)
249     o Corrected common blocks when fooling TAMC to produce adjoint I/O
250       in addummy_in_stepping
251     o Updated verification/vero/ (bug fixes in code/, correct pickups in input/)
252     o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs.
253     o Included following packages:
254       cal: calendar
255       exf: external forcing
256       ecco: essential routines to control use of cal, exf
257             (NB: this is not the full ECCO environment)
258     o disabled some packages by default in genmake
259    
260    checkpoint38
261     o see notes_c37_adj.txt
262     o corrected wrong layer index in external_forcing_t
263     o replaced the_main_loop/forward_step by the_main_loop
264     o removed forceoutput from write_state
265       (replaced criteria for initial/final state)
266     o added runtime flag for pre-C35 pickups: usePickupBeforeC35
267    
268    checkpoint37
269     o mdsio.F routine split and packaged in pkg/mdsio
270       (mdsio.F and mdsio_gl.F still exist in eesupp/src but are not
271        used unless genmake -disable=mdsio)
272     o allow a more precise surface-geopotential gradient for the atmosphere
273       taking into account the change in space of Alpha (=1/rho) at the surface.
274     o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit]
275       (ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa])
276     o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and
277       Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential
278       [m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere).
279     o Time-Average diagnostics defined as a pseudo package "timeave".
280     o pickup files : old pickup (before c35) did not work with new code (c35
281       and after) unless activating 2 commented lines in initialise-varia.
282     o Non-Hydrostatic pickup file Pb fixed.
283     o bug with Rigid-lid version (since c35) fixed.  
284    
285    checkpoint36
286     o implement Crank-Nickelson barotropic time-stepping
287     o recover Time-Average diagnostics
288     o fix Pb in checkpoint (PR#19)
289     o AIM become a standard package ; clean unused CPP_kees
290    
291    checkpoint35
292     o subtantial rewrite of dynamics.f
293     o allows staggered time-stepping
294     o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt
295     o added bottom drag (linear + quadratic)
296    
297    checkpoint34
298     o Modified exchange routines for correct reverse simulation.
299     o Added verification output to comply with bug fix in impldiff.F
300       as of c33 (exp2, natl_box).
301     o Corrected store directives in dynamics.F
302     o Corrected array boundaries in impldiff.F
303     o Corrected array dimensions in gmredi.
304       Added temporary scalars to avoid storage by TAMC (gmredi, kpp).
305     o Added routine GLOBAL_SUM_INT to global_sum.F
306     o Added mdsio_gl.F for ECCO purposes.
307    
308    checkpoint33
309     o Fixed bug in lower BC in impldiff.F
310     o Fixed confusion about units of forcing arrays in FFIELDS.h
311       namely Fu,Fv,Qnet,Qsw,EmPmR:
312       - Removed verification/natl_box/code/external_fields_scale.F
313         (did not differ from that in model/src)
314       - Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units
315         (see FFIELDS.h for description)
316       - Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F,
317         kpp_calc.F and kpp_transport_t.F
318       - Removed model/src/external_fields_scale.F and calls to it
319       - verification/natl_box uses flux data with "atmospheric" sign so
320         a special version of external_fields_load.F is used to
321         change the data as it's read in. This way, the arrays
322         have the right units and signs at all times tha a user could
323         possibly use them.
324     o Corrected genmake to delete a temporary file during configuration
325    
326    checkpoint32
327     o Scaling of forcing fields moved from external_forcing.F to
328       external_fields_scale.F, called directly after loading fields.
329     o Surface relaxation terms added to surface tendency fields in
330       extra subroutine.
331     o impldiff.F changed to avoid storing by TAMC of huge intermediate
332       fields.
333     o Changes in GMRedi to comply with packaging structure.
334     o Modifications and bug fixes in KPP package.
335     o Verification experiment for KPP added (verification/nat_box/)
336    
337    checkpoint31
338     o Packages interface brought in line with defined standard
339       -> new routines packages_...F
340       -> changes in initialise_fixed.F, initialise_varia.F
341       -> enables initialisation interface for ECCO package
342     o Rescaling of external forcing fields immediately after read
343       (removed from external_forcing.F)
344       -> new: surface_fields_scale.F
345       -> affects ini_foorcing.F, external_fields_load.F
346     o Computation of surface tendencies before tendency updates.
347       -> new: external_forcing_surf.F
348     o Change of variable names useGMRedi, useKPP, useECCO
349     o Further changes in dynamics.F, impldiff.F for TAMC
350     o Tested for experiments 0, 2, 4.
351       - not yet tested for GMRedi.
352       - not yet tested for KPP.
353    
354    checkpoint30
355     o Updates for OBCs
356     o New experiment for test OBCs (internal_wave)
357     o New output.txt in verification/exp4/results/
358     o Updates for KPP: calculation of viscosity corrected, new variables
359       kpp_dumpFreq and kpp_taveFreq
360     o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.)
361       and entry for T90 in genmake
362    
363    checkpoint29
364     o packaged KPP and GM/Redi
365    
366    checkpoint28
367     o Corrected initialization of hFacMin for difference vertical coordinates
368     o Modified calculation of partial cell thickness to more robust algorithm
369     o config_summary.F: replaced write_1D_... by write_0D_...
370       read_write.F: added subroutines write_0D_...
371     o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho:
372       included some initialisations required for TAMC.
373     o routine calc_isoslopes: modified sqrt computation to make it
374       differentiable for zero argument.
375     o routines dynamics, impldiff:
376       included store directives and tape key computations required for TAMC.
377     o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC
378    
379    checkpoint27
380     o fixed calc_isoslopes() to so that cancellation of terms in tensor
381       formulation works properly with variable resolution.
382     o restructured the calling tree between the_model_main() and dynamics()
383     o split initialise() into initialise_fixed() and initialise_varia()
384     o introduced initialization file pSurfInitFile for free surface (cg2d_x)
385       in new routine ini_psurf()
386    
387    checkpoint26
388     o moved some #ifdef in optional routines to encompass everything
389       except the argument declarations. This was using up some memory.
390     o fixed macros like _ADT to work with both versions of Linux cpp
391     o cleaned up some unused and uninitialized variables
392       (helps when debugging with strict compile options)
393     o split up CPP_EEOPTIONS.h into options and macros
394       (macros are now in eesupp/inc/CPP_EEMACROS.h)
395     o patch for 2 processor JAM mode
396    
397    checkpoint25
398     o updates for OBCs and NH
399     o dramatically reduced memory usage
400     o added "JAM" routines for use on Artic network
401     o parameterization of convection by implicit vertical diffusion
402     o added a diagnostic of convective index
403     o moved call to calc_divg_hat() from dynamics() to solve_for_pressure()
404       (this is was partly for OBCs and NH but also in anticipation of
405        an explicit free-surface option)
406     o initial state input files for U and V
407    
408    checkpoint24
409     o Removed some spurious "REAL"s
410     o Updated KPP to latest version from JPL
411     o Added a COS(latitude) in horizontal viscosity
412    
413    checkpoint23
414     o Added del^4 diffusion for salt and temperature
415     o Multiple minor fixes (implicit none's, arguments to global_sum, etc.)
416    
417    checkpoint22
418     o Made many small changes: implicit none, format(i5), etc...
419     o Introduced KPP mixing scheme (compiles and runs but *not* tested)
420    
421  checkpoint21  checkpoint21
422   o Introduced new I/O package that supports direct-access records (mdsio.F)   o Introduced new I/O package that supports direct-access records (mdsio.F)

Legend:
Removed from v.1.20  
changed lines
  Added in v.1.77

  ViewVC Help
Powered by ViewVC 1.1.22