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$Header: /u/gcmpack/MITgcm/doc/tag-index,v 1.53.4.50 2003/06/24 23:22:31 heimbach Exp $ |
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|
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Notes on tags used in MITgcmUV |
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============================== |
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|
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untagged |
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o Modifications to pkg/seaice, verification/lab_sea, and |
8 |
verification/natl_box_adjoint for testing sea-ice adjoint code. |
9 |
|
10 |
ecco_c51_e34 |
11 |
o merging c51 into ecco-branch |
12 |
|
13 |
ecco_c50_e33a |
14 |
o first step in c51 merge |
15 |
- redundant update in model/src/ |
16 |
- merge back's in autodiff, ctrl, kpp, seaice |
17 |
|
18 |
ecco_c50_e33 |
19 |
o minor changes to pkg/seaice pkg/cost/cost_ice.F |
20 |
and verification/natl_box_adjoint/README |
21 |
o Modif's to enable tangent linear run in ECCO environment |
22 |
including time-dependent forcing |
23 |
* main problem is missing call mdsreadfield out of exf_set_gen |
24 |
(i.e. computation of trajectory in TLM mode) |
25 |
* incorrect g_active_write_... |
26 |
* (re-) init of bar files and g_bar files |
27 |
o Reverted back to 3-dim. tbar, sbar for SST, SSS bar files. |
28 |
o MERGES: |
29 |
* obcs/ ctrl/ G. Gebbie code |
30 |
(major changes in ctrl handling, volume flux balancing etc.) |
31 |
* cost/ ctrl/ A. Koehl code |
32 |
- new cost contributions (new data types) |
33 |
- efficient pack/unpack for time-dependent 2-d fields |
34 |
o replaced mutiple ctrl_get... by single generic ctrl_get_gen.F |
35 |
(except obcs) |
36 |
o somewhat cleaned package initialisation sequence for |
37 |
ctrl/ cost/ ecco/ |
38 |
o extended grdchk to enable obcs gradient checks |
39 |
o some generalizations for easier TLM <-> ADM switches |
40 |
o added configuration example for parallel divided adjoint |
41 |
(see verification/natl_box_adjoint/code_diva_mpi/README ) |
42 |
o started verification exp. for obcs control |
43 |
(still needs checking) |
44 |
|
45 |
ecco_c50_e32 |
46 |
o Patrick's adjoint-model storage directives for pkg/seaice |
47 |
o merged with checkpoint50g_post (pkg/seaice and verification/lab_sea) |
48 |
- added SEAICE_MULTILEVEL for 8-category sea-ice thermodynamics |
49 |
- LSR sea-ice dynamic solver moved to SouthWest B-grid location and |
50 |
made the default because of faster convergence than ADI |
51 |
o Modifications for adjoint of SEAICE_ALLOW_DYNAMICS |
52 |
- extended state in checkpoint_lev... |
53 |
- in lsr.F, replaced GO TO by fixed loop index (also avoid DO WHILE) |
54 |
- YEAH: in lsr.F, (first) successful use of CADJ LOOP = ITERATION |
55 |
- avoid stoing in S/R budget for now |
56 |
- in dynsolver.F, avoid NPSEUDO loop for adjoint |
57 |
- new comlev1_lsr in the_main_loop |
58 |
o Small modif's in lsopt/, optim/ to ease compilation |
59 |
New script to run optim (lsopt) |
60 |
|
61 |
ecco_c50_e31 |
62 |
o exf totally restructured |
63 |
- replaced all exf_set_ routines by one generic exf_set_gen.F |
64 |
and made sure it's still differentiable |
65 |
- split exf_getffields.F into new exf_bulkformulae.F |
66 |
- exf_inscal_/exf_outscal_ suffixes consistent with field names |
67 |
o New cost function: Tini-Tfin to do model spinup optimization. |
68 |
o Started new verification exp for Tini-Tfin optimization. |
69 |
|
70 |
ecco_c50_e30 |
71 |
o corrected CPP option mismatch in exf_Bulk... functions for case |
72 |
#define ALLOW_ATM_WIND && #undef ALLOW_ATM_TEMP |
73 |
o Merging from release1_p13 and from icebear5 |
74 |
- bug fix for pkg/seaice dynamic solver |
75 |
- Added SEAICE_initialHEFF to pkg/seaice |
76 |
- Additional options for pkg/cost/cost_ice.F |
77 |
- Updates to verification/natl_box_adjoint |
78 |
- pkg/ctrl/ctrl_init.F |
79 |
Fix for determination of startrec and endrec. |
80 |
- pkg/cal/cal_toseconds.F |
81 |
Fix for negative intervals shorter than 1 day. |
82 |
|
83 |
ecco_c50_e29 |
84 |
Bug fix for merging between c50 and KPP. |
85 |
ikey was passed from thermodynamics to kpp_calc via |
86 |
common block rather than being recomputed in kpp_calc, |
87 |
in contradiction with new key itdkey. |
88 |
New key ikppkey created, and tamc.h headers updated. |
89 |
|
90 |
ecco_c50_e28 |
91 |
o major merge: |
92 |
ecco-branch merged with checkpoint50 |
93 |
gmredi now available, grdchk, DIVA up-to-date for MPI |
94 |
However, two outstanding problems: |
95 |
- kpp adjoint is broken, needs fixing! |
96 |
- a few minor modif's in handling of CPP option |
97 |
ALLOW_TANGENTLINEAR_RUN in conjunction with |
98 |
ALLOW_ECCO_OPTIMIZATION are necessary to enable |
99 |
TLM runs with ECCO setup |
100 |
|
101 |
ecco_c44_e27 |
102 |
o exf: |
103 |
- Enable initialisation of forcing fields to constant |
104 |
(runtime) values. |
105 |
- in exf_getffields.F |
106 |
Reduce i-/j-loop to interior domain, discarding overlaps. |
107 |
That also fixes wrong TAF-key computations for key_1, key_2 |
108 |
with bulf formulae. |
109 |
- exf_init.F modify #ifdef for exf_init_evap |
110 |
- exf_getffieldrec.F, ctrl_getrec.F |
111 |
The following INT-usages are not safe: |
112 |
fldsecs = int(fldsecs/fldperiod)*fldperiod |
113 |
fldcount = int(fldsecs/fldperiod) + 1 |
114 |
and were modified. |
115 |
- added repeatPeriod (from MAIN branch) |
116 |
o grdchk: updated and merged |
117 |
- has both ADM and TLM checks |
118 |
- works for single- and multi-proc. |
119 |
- output cleaned |
120 |
- worked successfully for parallel DIVA |
121 |
Needed one update in EEPARAMS.h and updates in ctrl package |
122 |
More modif's may be necessary for ECCO code to support TLM. |
123 |
o autodiff: checkpoint_lev... |
124 |
- updated storing for bulk formulae (some arrays were missing) |
125 |
- added state for seaice package |
126 |
- synchronized with main branch |
127 |
o DIVA: |
128 |
Modif.s in |
129 |
- cost_init.F |
130 |
- cost_averagesfields.F |
131 |
- ecco_the_main_loop.F |
132 |
- ecco_the_model_main.F |
133 |
and added cost_final_restore.F cost_final_store.F |
134 |
o With these changes, it is possible to fully separate |
135 |
the first forward run to compute the cost function (mdthe_main_loop) |
136 |
and adjoint runs over individual DIVA intervals (adthe_main_loop) |
137 |
into separate model executions. |
138 |
This enables better tuning of DIVA to given queue sizes. |
139 |
o Loss of cost function value in consecutive DIVA runs is |
140 |
fixed by storing to 'costfinal' file. |
141 |
o Appropriate call of ctrl_unpack/_pack,grdchk_main at |
142 |
beginning/end of adjoint integration is accounted for. |
143 |
The current changes apply to TAF-1.4.26. |
144 |
TAF has one remaining bug, requiring one manual change |
145 |
(see MITgcm manual). |
146 |
o bug fix plus modif for ubar, vbar in cost_averagesfields |
147 |
o cal: synchronized between MAIN and ecco-branch |
148 |
|
149 |
icebear4 |
150 |
o Added cost_ice for sea-ice volume sensitivity experiment. |
151 |
o ecco_the_model_main.F: SEAICE_WRITE_PICKUP must precede WRITE_CHECKPOINT |
152 |
o Reduced derivative singularities in pkg/seaice. |
153 |
o Updated verification/natl_box_adjoint |
154 |
|
155 |
icebear3 |
156 |
o Removed spurious iikey and idkey |
157 |
o pkg/exf |
158 |
- bug fix in treatment of downward radiation |
159 |
o pkg/seaice |
160 |
- added initial sea-ice thickness parameter SEAICE_initialHEFF |
161 |
o updated verification/natl_box_adjoint |
162 |
|
163 |
icebear2 |
164 |
o Added missing /* */ to CPP comments in pkg/seaice, pkg/exf, |
165 |
kpp_transport_t.F,and ecco_the_main_loop.F |
166 |
o adjoint-friendly modifications to pkg/seaice |
167 |
o added verification/lab_sea as per release1_p12_pre |
168 |
|
169 |
ecco_c44_e26 |
170 |
o Merging pkg/exf and pkg/seaice from cvs tag ecco_ice2 |
171 |
o exf: Modifications to correctly handle evap field for adjoint |
172 |
o grdchk: |
173 |
Added code to perform gradient checks for bulk formulae/atmos. state |
174 |
(atemp, aqh, uwind, vwind). |
175 |
NOTE: |
176 |
This package is out of synch with c48 package. |
177 |
The latter also has the tangent linear gradient checks. |
178 |
Need to be merged. |
179 |
o verification/natl_box_adjoint: |
180 |
* added new setup: code_bulk/, input_bulk, results_bulk |
181 |
(Experiment 2, described in README) |
182 |
uses bulk formulae and atmos. state as control instead of |
183 |
air-sea fluxes. |
184 |
Performs gradient checks for first 4 elements of atemp control. |
185 |
* changed standard verification to perform |
186 |
gradient checks on first 4 elements on hflux control. |
187 |
* gmredi switched off (will come after merge with c48). |
188 |
|
189 |
ecco_c44_e25 |
190 |
o Merging some GM changes from main trunk (c47) to ecco-branch. |
191 |
o Updating verif. natl_box_adjoint with GMRedi. |
192 |
o Adding setup with explicit differentiaton of pressure solver. |
193 |
o Bug fix: missing OBCS_OPTIONS.h for sponge layer code. |
194 |
o (Re-?) Commiting old bug fixes in kpp to ecco-branch |
195 |
(kpp_calc.F, kpp_routines.F) |
196 |
o exf: |
197 |
updated external forcing package |
198 |
- cleaned old exfa stuff |
199 |
- bug fixes |
200 |
(missing OBCS_OPTIONS.h in two routines) |
201 |
- enable easy to use "no forcing". |
202 |
- added exf I/O for atmospheric loading |
203 |
- added exf I/O for runoff data |
204 |
- transfered scaling between exf <-> MITgcm to exf namelist |
205 |
|
206 |
ecco_c44_e24 |
207 |
o modifications to gradient check package (Martin Losch) |
208 |
- enable centered differences |
209 |
- modified format of standard output |
210 |
o bug fix for nwettile contents |
211 |
so far assumed global sum in first entry (1,1,k), |
212 |
needed for global control vector |
213 |
-> introduced new variable nwet[c/w/s]global(nr) |
214 |
o shifts of calls to cal/exf package to be accessible |
215 |
in MITgcm stand-alone |
216 |
o shifted packages_init_variables before convective_adjustment_ini |
217 |
(corresponding update of TAF tape initialisation). |
218 |
o removed auxiliary field in impldiff |
219 |
(caused numerical differences for GMRedi cases) |
220 |
o updated obcs control part (G. Gebbie) |
221 |
o removed some f90 comments ("!") |
222 |
o Bug fixes and updates in cost package |
223 |
* cost_final: correct multiplier mult_tauv, mult_sflux |
224 |
* cost_hyd: added call cost_ssh |
225 |
* cost_init_barfiles.F: replaced arrays by tmpfld's |
226 |
* cost_readtopexmean.F: ersmask -> tpmeanmask |
227 |
* cost_weights.F: corrected wtheta[2], wsalt[2] |
228 |
o cleaned exchanges in cg2d.F |
229 |
|
230 |
ecco_c44_e23 |
231 |
merged patches between release1_p1 and release1_p2: |
232 |
o fixed array boundary problem for adjoint |
233 |
(related to partial recomputation within subroutine |
234 |
related to dynamics -> calc_viscosity -> mom_... |
235 |
o fixed recomputation in thermodynamics |
236 |
o prepare (but not complete) recomputation problem in impldiff |
237 |
o fixed problem for adjoint of global_max |
238 |
o switched off sponge layer code in external_forcing |
239 |
Bug fix in ctrl_mask_set_yz (spotted by G. Gebbie) |
240 |
|
241 |
ecco_c44_e22 |
242 |
o Finally, the merges with the Scripps cost function terms: |
243 |
Various additions, modifications, quality checks. |
244 |
o Plus: Included switch ALLOW_AUTODIFF_MONITOR to handle |
245 |
monitoring of adjoint state. |
246 |
o Plus: removed comm_stats, ini_communication_patterns from diff. list |
247 |
(no more need to "keep" MPI headers for adjoint generation) |
248 |
o Plus: exf changes: |
249 |
o added run-off routine |
250 |
o additional storing needed for ustress,vstess |
251 |
because of state-dependent quality check |
252 |
o added missing initialisations |
253 |
o Plus: genmake with MAKEDEPEND variable was still missing in ecco-branch |
254 |
NB: - verification/natl_box_adjoint/ 240 steps run |
255 |
* looks ok under Linux (twain.lcs.mit.edu) |
256 |
* looks ok on MIT SUN's (fjord.mit.edu) |
257 |
* NaN in reverse mode on Scripps SUN's at iter=214 |
258 |
* NaN in reverse mode on IBM SP3 (BlueHorizon) at iter=204 |
259 |
- 1 year forward int. global 2x2 deg. produces similar cost functions |
260 |
* all cost terms of new code are slightly smaller (0.5 to 3%). |
261 |
|
262 |
ecco_c44_e21 |
263 |
o reversed order of ctrl/cost initialisation |
264 |
o gmredi_slope_psi.F: Inconsistent types in MIN/MAX expressions |
265 |
o modified to enable ctrl field swapping |
266 |
o bug fix for global sum of ncvarlength in ctrl_init |
267 |
o no more call to ctrl_unpack from ctrl_init |
268 |
o no more write of ctrl vector in ctrl_pack |
269 |
however, init. of control vector from ctrl_unpack |
270 |
o various bug fixes & consistent nobcs handling in |
271 |
ctrl_pack/unpack routines (by G. Gebbie) |
272 |
o optim package: Added obcs control part for lsopt I/O |
273 |
(by G. Gebbie) |
274 |
o missing call to obcs_diags |
275 |
o moved calls in packages_init_fixed to packages_readparms |
276 |
because some quantities are needed earlier. |
277 |
|
278 |
ecco_c44_e20 |
279 |
o before major merges from the Scripps setup |
280 |
here are two small updates: |
281 |
- field swapping for surface flux controls enabled |
282 |
(remains t.b.d. for atmos. state plus obcs) |
283 |
- bug fix in active_file.F for xz-/yz- routines |
284 |
- added missing xz-/yz- routines to active_file_ad.F |
285 |
|
286 |
ecco_c44_e19 |
287 |
o merged necessary patches: |
288 |
- AD-related changes for GMRedi |
289 |
- fixes i KPP (delZ -> drF) |
290 |
- hook to OBCS songe layer code in external_forcing |
291 |
- errorMessageUnit non-zero in eeboot.F |
292 |
- included GMREDI, EXACT_CONSERV to natl_box_adjoint verif. |
293 |
|
294 |
ecco_c44_e18 |
295 |
o sponge layer code for obcs was missing |
296 |
- added hook in external_forcing.F |
297 |
- added storing for TAF |
298 |
o new routine cost_init_barfiles to initialise |
299 |
adjoint fields adtbar, adsbar, adpsbar |
300 |
(needed in conjunction with corrected ladinit for active I/O) |
301 |
o cleaned up and corrected order in packages_readparms, ecco_readparms |
302 |
o corrected and simplified weights for obcs controls |
303 |
- weight fields simplified |
304 |
- bug fix in ctrl_pack |
305 |
- no more write of control vector in ctrl_pack |
306 |
o i/j index bug fixes in cost_ssh_mean |
307 |
|
308 |
ecco_c44_e17 |
309 |
o bug fixes in cost package |
310 |
* wrong identifier for active I/O of monthly mean psbar |
311 |
(cost_averagesfields, cost_ssh) xx_psbar_dummy |
312 |
* cleaned all identifier for active I/O of monthly fields |
313 |
* wrong ladinit in various cost routines |
314 |
o merge with interval (chkpt44c_post - chkpt44d_post) |
315 |
* added missing EXCLUDE_MONITOR flags |
316 |
* changed "e" to "_d" in gmredi_slope_limit, gmredi_slope_psi |
317 |
(incompatible typ in MIN/MAX expressions caused problems |
318 |
on IBM SP3) |
319 |
* in genmake added variable MAKEDEPEND |
320 |
plus resetting for case SunOS |
321 |
added timer_stats.c routine for IBM SP3 |
322 |
* removed variables in dynamics |
323 |
|
324 |
ecco_c44_e16 |
325 |
o new ECCO checkpoint, the first since ecco_c43_e15 |
326 |
which is branched from MITgcm. |
327 |
All changes were merged in between (see ecco-branch-mod? tags). |
328 |
o last changes: |
329 |
* assuming path for TAF and TAMC are known (e.g. in $path) |
330 |
* genmake: |
331 |
- added tools/xmakedepend to circumvene shortcoming of |
332 |
SUN's makedepend (size too small) |
333 |
- invoking ../tools/xmakedepend instead of makedepend |
334 |
- changed compiler flags for case SunOS |
335 |
|
336 |
ecco-branch-mod5 |
337 |
o mod's to reproduce open boundary run |
338 |
o enable field swapping for OB's and climatology |
339 |
o update store directives for OB control |
340 |
o added option ALLOW_OBCS_PRESCRIBE |
341 |
o call of getobcs now out of obcs_calc (param. list modified) |
342 |
|
343 |
ecco-branch-mod4 |
344 |
o this is the second part of changes necessary to reconcile |
345 |
the natl_box_adjoint verification (with and without grdchk). |
346 |
>>>!!! CHANGES BETWEEN THE TAGS ecco-branch-mod3 !!!<<< |
347 |
>>>!!! AND ecco-branch-mod4 !!!<<< |
348 |
>>>!!! SHOULD BE MERGED INTO THE MAIN TRUNK !!!<<< |
349 |
- genmake: removed $S64 overwrite for case SunOS |
350 |
- pkg/exf: update and corrections for field swapping and obcs |
351 |
- pkg/ecco: parameter lists for the_model_main, the_main_loop |
352 |
harmonized between ECCO and MITgcm |
353 |
- pkg/autodiff: added flow directives for obcs, mdsio_gl_slice |
354 |
updated checkpointing_lev... lists for obcs |
355 |
- model/src: minor changes in forward_step, plot_field |
356 |
- pkg/mdsio: added mdsio_gl_slice |
357 |
|
358 |
ecco-branch-mod3 |
359 |
o this is the first part of changes necessary to reconcile |
360 |
natl_box_adjoint verification (with and without grdchk). |
361 |
This set of changes is relevant for ECCO only. |
362 |
The next set/tag of changes (ecco-branch-mod4) |
363 |
should be merged into the main trunk. |
364 |
- update some options |
365 |
- parameter lists of ecco_the_model_main and ecco_the_main_loop |
366 |
differed from those of the MITgcm counterparts. |
367 |
|
368 |
ecco-branch-mod2 |
369 |
o update ecco-branch-mod1 to checkpoint44 |
370 |
o exclude from updates: |
371 |
- verification/ |
372 |
- adjoint/ |
373 |
- pkg/cost |
374 |
- pkg/ctrl |
375 |
- pkg/ecco |
376 |
- pkg/obcs |
377 |
- model/src/the_model_main.F |
378 |
- model/src/the_main_loop.F |
379 |
|
380 |
checkpoint44 |
381 |
o apply Shapiro filter on T&S before calc_PhiHyd (stagger time stepping) |
382 |
o fix bug in mom_vi_del2uv |
383 |
o added some stuff for AD |
384 |
|
385 |
ecco-branch-mod1 |
386 |
o based on c43 |
387 |
o replaced packages cost, ctrl, ecco, obcs |
388 |
o removed MITgcm verif.'s, added ECCO verif.'s |
389 |
o added lsopt, optim for line search optimization. |
390 |
|
391 |
checkpoint43 |
392 |
o added two new advection tests |
393 |
o added global 4x4 degree ocean test |
394 |
o added test of H&S94 with free surface on cube |
395 |
o some final mods for gradient check, adjoint,... |
396 |
|
397 |
checkpoint42 |
398 |
Fixed AD-related problems: |
399 |
o Store directives up-to-date with re-arranged Adams-Bashforth |
400 |
(mainly thermodynamics.F) |
401 |
o New store directives for multi-dim. advection schemes |
402 |
* new CPP flag ALLOW_MULTI_DIM_ADVECTION |
403 |
* new common block and key passkey |
404 |
(mainly gad_advection.F) |
405 |
o Modified store directives for split of dynamics/thermodynamics |
406 |
for the case ALLOW_KPP |
407 |
o Cleaned argument list for timestep_tracer.F |
408 |
|
409 |
checkpoint41 |
410 |
o re-formatted/added comments in prologues of key subroutines |
411 |
to work with protex |
412 |
|
413 |
checkpoint40 |
414 |
o moved calc_gs, calc_gt and calc_tr1 back to model/src |
415 |
o added FLT (floats) package from Arne along with demo. experiment |
416 |
o re-arranged Adams-Bashforth scheme for tracers to allow easier |
417 |
implementation of forward-in-time forcing terms |
418 |
o more mods for non-linear free-surface including new variable |
419 |
o modified multi-dim method to work on cube |
420 |
o bug fix in KPP (from DM) |
421 |
|
422 |
checkpoint40pre9 |
423 |
o added DST advection schemes |
424 |
o fix MPI bug on SGI's |
425 |
o modifications for non-linear free-surface |
426 |
o fixed conditionals for fixed flow/passive tracer only mode |
427 |
o added tension/strain form of stress tensor |
428 |
o changes to commenting of arguments for TAF/TAMC |
429 |
o added/updated many matlab scripts |
430 |
o added multi-dimensional advection method for tracers |
431 |
|
432 |
checkpoint40pre8 |
433 |
o new package rw/ |
434 |
Added method for dumping intermediate local arrays: |
435 |
mdsio_writetile - same as mdsio_writefield except works from inside |
436 |
bi,bj loop |
437 |
mdsio_writelocal - same as mdsio_writetile except works for local |
438 |
arrays |
439 |
write_local_r? - higher-level wrapper for mdsio_writelocal |
440 |
Controlled by diagFreq. Defaults to zero (ie. no dumps) |
441 |
Example given at end of mom_vecinv.F that dumps some local arrays. |
442 |
o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to |
443 |
control flux-form versus vector invariant code. |
444 |
Switch is runtime flag vectorInvariantMomentum (defaults to false) |
445 |
or genmake -DISABLE ... |
446 |
o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F |
447 |
(additional storing is now needed for case vecinv; |
448 |
currently nothing implemented to switch this storing off |
449 |
in case fluxform is used since no CPP flag available). |
450 |
|
451 |
checkpoint40pre7 |
452 |
o bug fix in dynamics.F |
453 |
calc_viscosity called before k=1,Nr loop. |
454 |
o added some #ifdef's ALLOW_PASSIVE_TRACER |
455 |
o cleaned initialisations in ctrl_map_ini |
456 |
related to TAF |
457 |
|
458 |
checkpoint40pre6 |
459 |
o split dynamics into thermodynamics & dynamics |
460 |
o corresponding split of calc_diffusivity into |
461 |
calc_diffusivity, calc_viscosity |
462 |
(kpp_calc_diff, kpp_calc_visc). |
463 |
o Added diffkr, kapgm to control variables |
464 |
o bug fix in gmredi_slope_limit for ldd97 |
465 |
|
466 |
checkpoint40pre5 |
467 |
o proper initialization of Adams-Bashforth time stepping |
468 |
+ uses forward step for very first step of model (iter=0) |
469 |
o re-generated *all* output since almost all output is modified by this |
470 |
change (sorry but we've been putting this one off for about 2 years) |
471 |
+ natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were |
472 |
*not* regenerated since they are already out of date and I don't |
473 |
want to create the impression that they are suddenly working. |
474 |
o removed KAP stuff for DEC's |
475 |
o modified/added many .cvsignore files in */code and */input |
476 |
o added new expt "solid-body.cs-32x32x1" |
477 |
+ this uses an alternative form of ini_curvilinear_grid.F which |
478 |
is not necessarily any better than the current one... |
479 |
|
480 |
checkpoint40pre4 |
481 |
o added re-initialisations of utrans,vtrans,rtrans in |
482 |
calc_common_factors which are crucial for TAF. |
483 |
o extended iMin,jMin range for calc_common_factors, |
484 |
calc_diffusivity |
485 |
o added option ALLOW_PASSIVE_TRACER |
486 |
o a few minor updates and fixes |
487 |
|
488 |
checkpoint40pre3 |
489 |
o created calc_gtr1.F for gad package |
490 |
o split the_main_loop and re-introduced forward_step |
491 |
o some recomputations of nIter0 for TAMC |
492 |
|
493 |
checkpoint40pre2 |
494 |
o Updated to latest branch of AJA, JMC |
495 |
o Added gradient check package |
496 |
o Added routines for passive tracer handling |
497 |
o Added carbon sequestration sensitivity experiment |
498 |
|
499 |
checkpoint39 |
500 |
o Modifications and fixes to support TAMC |
501 |
(mainly missing or wrong directives) |
502 |
o Corrected common blocks when fooling TAMC to produce adjoint I/O |
503 |
in addummy_in_stepping |
504 |
o Updated verification/vero/ (bug fixes in code/, correct pickups in input/) |
505 |
o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs. |
506 |
o Included following packages: |
507 |
cal: calendar |
508 |
exf: external forcing |
509 |
ecco: essential routines to control use of cal, exf |
510 |
(NB: this is not the full ECCO environment) |
511 |
o disabled some packages by default in genmake |
512 |
|
513 |
checkpoint38 |
514 |
o see notes_c37_adj.txt |
515 |
o corrected wrong layer index in external_forcing_t |
516 |
o replaced the_main_loop/forward_step by the_main_loop |
517 |
o removed forceoutput from write_state |
518 |
(replaced criteria for initial/final state) |
519 |
o added runtime flag for pre-C35 pickups: usePickupBeforeC35 |
520 |
|
521 |
checkpoint37 |
522 |
o mdsio.F routine split and packaged in pkg/mdsio |
523 |
(mdsio.F and mdsio_gl.F still exist in eesupp/src but are not |
524 |
used unless genmake -disable=mdsio) |
525 |
o allow a more precise surface-geopotential gradient for the atmosphere |
526 |
taking into account the change in space of Alpha (=1/rho) at the surface. |
527 |
o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit] |
528 |
(ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa]) |
529 |
o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and |
530 |
Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential |
531 |
[m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere). |
532 |
o Time-Average diagnostics defined as a pseudo package "timeave". |
533 |
o pickup files : old pickup (before c35) did not work with new code (c35 |
534 |
and after) unless activating 2 commented lines in initialise-varia. |
535 |
o Non-Hydrostatic pickup file Pb fixed. |
536 |
o bug with Rigid-lid version (since c35) fixed. |
537 |
|
538 |
checkpoint36 |
539 |
o implement Crank-Nickelson barotropic time-stepping |
540 |
o recover Time-Average diagnostics |
541 |
o fix Pb in checkpoint (PR#19) |
542 |
o AIM become a standard package ; clean unused CPP_kees |
543 |
|
544 |
checkpoint35 |
545 |
o subtantial rewrite of dynamics.f |
546 |
o allows staggered time-stepping |
547 |
o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt |
548 |
o added bottom drag (linear + quadratic) |
549 |
|
550 |
checkpoint34 |
551 |
o Modified exchange routines for correct reverse simulation. |
552 |
o Added verification output to comply with bug fix in impldiff.F |
553 |
as of c33 (exp2, natl_box). |
554 |
o Corrected store directives in dynamics.F |
555 |
o Corrected array boundaries in impldiff.F |
556 |
o Corrected array dimensions in gmredi. |
557 |
Added temporary scalars to avoid storage by TAMC (gmredi, kpp). |
558 |
o Added routine GLOBAL_SUM_INT to global_sum.F |
559 |
o Added mdsio_gl.F for ECCO purposes. |
560 |
|
561 |
checkpoint33 |
562 |
o Fixed bug in lower BC in impldiff.F |
563 |
o Fixed confusion about units of forcing arrays in FFIELDS.h |
564 |
namely Fu,Fv,Qnet,Qsw,EmPmR: |
565 |
- Removed verification/natl_box/code/external_fields_scale.F |
566 |
(did not differ from that in model/src) |
567 |
- Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units |
568 |
(see FFIELDS.h for description) |
569 |
- Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F, |
570 |
kpp_calc.F and kpp_transport_t.F |
571 |
- Removed model/src/external_fields_scale.F and calls to it |
572 |
- verification/natl_box uses flux data with "atmospheric" sign so |
573 |
a special version of external_fields_load.F is used to |
574 |
change the data as it's read in. This way, the arrays |
575 |
have the right units and signs at all times tha a user could |
576 |
possibly use them. |
577 |
o Corrected genmake to delete a temporary file during configuration |
578 |
|
579 |
checkpoint32 |
580 |
o Scaling of forcing fields moved from external_forcing.F to |
581 |
external_fields_scale.F, called directly after loading fields. |
582 |
o Surface relaxation terms added to surface tendency fields in |
583 |
extra subroutine. |
584 |
o impldiff.F changed to avoid storing by TAMC of huge intermediate |
585 |
fields. |
586 |
o Changes in GMRedi to comply with packaging structure. |
587 |
o Modifications and bug fixes in KPP package. |
588 |
o Verification experiment for KPP added (verification/nat_box/) |
589 |
|
590 |
checkpoint31 |
591 |
o Packages interface brought in line with defined standard |
592 |
-> new routines packages_...F |
593 |
-> changes in initialise_fixed.F, initialise_varia.F |
594 |
-> enables initialisation interface for ECCO package |
595 |
o Rescaling of external forcing fields immediately after read |
596 |
(removed from external_forcing.F) |
597 |
-> new: surface_fields_scale.F |
598 |
-> affects ini_foorcing.F, external_fields_load.F |
599 |
o Computation of surface tendencies before tendency updates. |
600 |
-> new: external_forcing_surf.F |
601 |
o Change of variable names useGMRedi, useKPP, useECCO |
602 |
o Further changes in dynamics.F, impldiff.F for TAMC |
603 |
o Tested for experiments 0, 2, 4. |
604 |
- not yet tested for GMRedi. |
605 |
- not yet tested for KPP. |
606 |
|
607 |
checkpoint30 |
608 |
o Updates for OBCs |
609 |
o New experiment for test OBCs (internal_wave) |
610 |
o New output.txt in verification/exp4/results/ |
611 |
o Updates for KPP: calculation of viscosity corrected, new variables |
612 |
kpp_dumpFreq and kpp_taveFreq |
613 |
o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.) |
614 |
and entry for T90 in genmake |
615 |
|
616 |
checkpoint29 |
617 |
o packaged KPP and GM/Redi |
618 |
|
619 |
checkpoint28 |
620 |
o Corrected initialization of hFacMin for difference vertical coordinates |
621 |
o Modified calculation of partial cell thickness to more robust algorithm |
622 |
o config_summary.F: replaced write_1D_... by write_0D_... |
623 |
read_write.F: added subroutines write_0D_... |
624 |
o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho: |
625 |
included some initialisations required for TAMC. |
626 |
o routine calc_isoslopes: modified sqrt computation to make it |
627 |
differentiable for zero argument. |
628 |
o routines dynamics, impldiff: |
629 |
included store directives and tape key computations required for TAMC. |
630 |
o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC |
631 |
|
632 |
checkpoint27 |
633 |
o fixed calc_isoslopes() to so that cancellation of terms in tensor |
634 |
formulation works properly with variable resolution. |
635 |
o restructured the calling tree between the_model_main() and dynamics() |
636 |
o split initialise() into initialise_fixed() and initialise_varia() |
637 |
o introduced initialization file pSurfInitFile for free surface (cg2d_x) |
638 |
in new routine ini_psurf() |
639 |
|
640 |
checkpoint26 |
641 |
o moved some #ifdef in optional routines to encompass everything |
642 |
except the argument declarations. This was using up some memory. |
643 |
o fixed macros like _ADT to work with both versions of Linux cpp |
644 |
o cleaned up some unused and uninitialized variables |
645 |
(helps when debugging with strict compile options) |
646 |
o split up CPP_EEOPTIONS.h into options and macros |
647 |
(macros are now in eesupp/inc/CPP_EEMACROS.h) |
648 |
o patch for 2 processor JAM mode |
649 |
|
650 |
checkpoint25 |
651 |
o updates for OBCs and NH |
652 |
o dramatically reduced memory usage |
653 |
o added "JAM" routines for use on Artic network |
654 |
o parameterization of convection by implicit vertical diffusion |
655 |
o added a diagnostic of convective index |
656 |
o moved call to calc_divg_hat() from dynamics() to solve_for_pressure() |
657 |
(this is was partly for OBCs and NH but also in anticipation of |
658 |
an explicit free-surface option) |
659 |
o initial state input files for U and V |
660 |
|
661 |
checkpoint24 |
662 |
o Removed some spurious "REAL"s |
663 |
o Updated KPP to latest version from JPL |
664 |
o Added a COS(latitude) in horizontal viscosity |
665 |
|
666 |
checkpoint23 |
667 |
o Added del^4 diffusion for salt and temperature |
668 |
o Multiple minor fixes (implicit none's, arguments to global_sum, etc.) |
669 |
|
670 |
checkpoint22 |
671 |
o Made many small changes: implicit none, format(i5), etc... |
672 |
o Introduced KPP mixing scheme (compiles and runs but *not* tested) |
673 |
|
674 |
checkpoint21 |
675 |
o Introduced new I/O package that supports direct-access records (mdsio.F) |
676 |
o Split-up mid-level I/O routines |
677 |
o Updated input data for experiments 0,1,2,4 and 5 |
678 |
o Finally removed the genmake.* scripts (everyone seems happy with genmake) |
679 |
|
680 |
checkpoint20 |
681 |
o Tidied up open-boundaries some more |
682 |
o Added non-hydrostatic code |
683 |
o Fixed some input data |
684 |
o Modified MPI start-up to work in "coupled" context. |
685 |
|
686 |
checkpoint19 |
687 |
o Tidied up directory structure for verification experiments. |
688 |
o Added new code for open boundaries. |
689 |
o Corrected advective terms near boundaries. |
690 |
o Added CPP flag for "old UV" geometry and corrected spherical geometry. |
691 |
o Implemented free-slip/no-slip BCs and del^4 dissipation. |
692 |
o Split default parameters out of ini_parms.F into set_defaults.F. |
693 |
|
694 |
checkpoint18 |
695 |
o Further changes for optional code generation with |
696 |
CPP - ugh! |
697 |
|
698 |
checkpoint17 |
699 |
o Beginning to incorporating modularity |
700 |
for supporting atmos. and ocean configs. |
701 |
o Small changes for TAMC complinace |
702 |
o New ultra simple test case. Barotropic box |
703 |
configuration "exp0". |
704 |
|
705 |
checkpoint16 |
706 |
o Minor changes to exchange routines to support |
707 |
accumulation in reverse mode. Adjoint of an |
708 |
assignment is an addition. |
709 |
o Changes to support compilation by TAMC (LR(1) |
710 |
syntax) and by g77 under Linux ( 72 character |
711 |
limit ). |
712 |
|
713 |
checkpoint15 |
714 |
Rewrote exchange routines to allow |
715 |
o General tile <-> tile connectivity. |
716 |
o TAMC reverse mode flag ( is this really needed? ) |
717 |
o Variable width overlap and exchange region widths. |
718 |
o Hooks for sharing data via DMA, Arctic, Memory Channel, |
719 |
shmput/shmget, VIA, SYSV shmem and every other cool |
720 |
communication method. |
721 |
|
722 |
checkpoint14 |
723 |
Consistent isomorphism chages made. These allow dynamical core |
724 |
to support both pressure and meters as a vertical coordinate. |
725 |
|
726 |
checkpoint13 |
727 |
Release which corrects global_max problem and a couple |
728 |
of KGM time-averaging diagnostic errors. Also contains |
729 |
a double-gyre experiment setup as well as the baseline |
730 |
4 degree global template. The double gyre template is |
731 |
organised to allow it to be applied automatically to |
732 |
the baseline configuration. |
733 |
|
734 |
branch-point-rdot |
735 |
A few tidy-ups have been made bt the real point of this |
736 |
check-point (excuse the pun) is to allow a branch to be |
737 |
made for the purposes of adding the rDot alterations. |
738 |
I don't want to commit the rDot to the main-trunk until |
739 |
we've actually tested it... |
740 |
|
741 |
checkpoint12 |
742 |
Tidy up and added generic genmake script (formerly |
743 |
configure script). |
744 |
Released to testers. |
745 |
|
746 |
checkpoint11 |
747 |
Re-arranged initialise() and introduced ini_vertical_grid() |
748 |
and ini_masks_etc(). |
749 |
|
750 |
checkpoint10 |
751 |
Introduced the configure script. |
752 |
Separated out the diags package. |
753 |
Added template for writing time-averages of tile/intermediate quantities. |
754 |
Updated SIZE.h in exp2 and made the data big-endian. |
755 |
|
756 |
checkpoint9 |
757 |
MPI fix. Filename changes (meta/data). salbin*y stuff. |
758 |
General tidy-up. |
759 |
SST.bin SSS.bin added to verification/exp2 |
760 |
|
761 |
checkpoint8 |
762 |
Inludes time-dependant forcing and time-averaging. |
763 |
Works at 4x4 and 2.8125x2.8125 global |
764 |
|
765 |
checkpoint7-4degree-ref |
766 |
Branch from checkpoint7. Released for application to |
767 |
global modeling and general modeling - process studies, regional |
768 |
model etc.. |
769 |
Configured for verification/exp2 - 4 degree global, two process. |
770 |
|
771 |
checkpoint7 |
772 |
Created by cnh |
773 |
Simple 4 degree global simulation |
774 |
configuration. |
775 |
Includes climatological wind, |
776 |
hydrography, bathymetry etc |
777 |
Does not include Heat Flux and E-P |
778 |
|
779 |
checkpoint6 |
780 |
Created by cnh |
781 |
merged checkpoint5 with CD and |
782 |
spherical polar code. |
783 |
Still some problems with GM Redi |
784 |
abd full topography. |
785 |
|
786 |
checkpoint5 |
787 |
Created by AJA |
788 |
contains updates to GM Redi |
789 |
and reordered timestepping loop |
790 |
for Implicit Diffusion. |
791 |
|
792 |
checkpoint4 |
793 |
Created by cnh |
794 |
Contains memory saving macros ( _rdxc etc..) for when |
795 |
grid variations are limited. |
796 |
Contains polynomial coeffs for EOS and knudsen program |
797 |
for generation. |
798 |
|
799 |
checkpoint3 |
800 |
Created by cnh |
801 |
Added extra flags for runtime options |
802 |
Added this file |
803 |
Added implicit free-surface |
804 |
Added pre-conditioner |
805 |
Put compare01 into repository ( compare01/... ) |
806 |
Put data and eedata into repository ( verification/exp1 ) |
807 |
|
808 |
checkpoint2 |
809 |
Created by AJA |
810 |
Added GM/Redi |
811 |
|
812 |
checkpoint1 |
813 |
Created by AJA |
814 |
Restructured kloop in dynamics.F |
815 |
Added non-linear EOS |
816 |
|
817 |
baseline |
818 |
Original checked in code |