3 |
Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
4 |
============================== |
============================== |
5 |
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|
6 |
|
o modified W2_EXCH2_TOPOLOGY.h to reflect current topology generator |
7 |
|
o genmake2: add build & execute test for NetCDF code |
8 |
|
o modded aim.5l_cs and global_ocean.cs32x15 to use exch2, removed |
9 |
|
old grid files, moved CPP_EEMACROS.h to pkg/exch2 |
10 |
|
o added useSingleCPUIO flag to monitor.F and mon_out.F |
11 |
|
o added temporary hack for sea-ice dynamics on the cube: |
12 |
|
metric terms are ignored and it is assumed that |
13 |
|
there is no sea-ice on cube faces 1, 2, 4, and 5. |
14 |
|
|
15 |
|
checkpoint52f_post |
16 |
|
o added exch2 cube routines to pkg/exch2 |
17 |
|
o modified hs94.cs-32x32x5 to use it |
18 |
|
o added new grid files to hs94.cs-32x32x5 |
19 |
|
checkpoint52f_pre |
20 |
|
|
21 |
|
checkpoint52e_post |
22 |
|
o first attempt to solve vertical advection (momemtum & T,S) Implicitly |
23 |
|
for now, only implemented with Lax-Wendroff (tracer) and VectInv (mom) |
24 |
|
o step.1 : rewrite (as in MultiDimAdvec) explicit tracer stepping (gad_calc_rhs.F) |
25 |
|
to work with implicit vertical advection and AB ; |
26 |
|
o Implic. vert. advect. implemented with flux-limiter, c2, u3 and c4 scheme. |
27 |
|
o update output (gad_calc_rhs.F changes affect truncation error) of exp: |
28 |
|
front_relax, global_ocean .cs32x15 & _pressure, internal_wave, lab_sea, natl_box |
29 |
|
checkpoint52e_pre |
30 |
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|
31 |
|
o fix bug in impldiff when Nr=1 or Nr=2. |
32 |
|
o change the albedo in pkg/thsice (as GISS model); update output_thsice.txt |
33 |
|
o little changes (fftpack, aim/phy_suflux ...) to pass the "checkbounds" test. |
34 |
|
o fix deltaTfreesurf in update_cg2d.F (left from c45d_post): affects 2 |
35 |
|
ocean exp. that use NLFS: global_ocean.cs32x15 & global_ocean_pressure |
36 |
|
o added exf_offset_atemp for Celsius to Kelvin conversion of atemp |
37 |
|
o eesupp/inc/EEPARAMS.h: MAX_NO_PROCS=1024 |
38 |
|
o pkg/cal/cal_toseconds.F fix for long (>60 years) integrations |
39 |
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|
40 |
|
checkpoint52d_post |
41 |
|
o re-tiled many expts to allow comparison in multi-processor mode |
42 |
|
- updated output accordingly |
43 |
|
- changed hs94.128x64x5 to use intial T from file rather than use the |
44 |
|
random number generator |
45 |
|
o add infrastructure in model routines for fizhi and gridalt packages |
46 |
|
o change global_ocean.cs32x15 because of Pb with GM on CS-grid. |
47 |
|
o changes to permit hi-res, cubed-sphere, configuration |
48 |
|
- added useSingleCpuIO capability to mdsio_readfield.F and exf_interp.F |
49 |
|
- added "#undef ALLOW_USE_MPI" support to eesupp/src/scatter_2d.F |
50 |
|
- added pkg/exf/exf_set_uv.F for on-the-fly interpolation and rotation |
51 |
|
of surface winds for the cube |
52 |
|
(A verification experiment, based on global_ocean.cs32x15, but with |
53 |
|
pkg/seaice turned on and with on-the-fly interpolation from the NCEP |
54 |
|
Gaussian grid is described in MITgcm_contrib/high_res_cube/README_ice, |
55 |
|
complete with example surface forcing files and matlab scripts to look |
56 |
|
at the output and compare it with that of global_ocean.cs32x15.) |
57 |
|
o packages pickup: $PKG_write_pickup called from packages_write_pickup ; |
58 |
|
but call to $PKG_read_pickup remains in $PKG_ini_vars: change CD_code |
59 |
|
to conform to the common rule. |
60 |
|
o check-in the first version of the coupler + interfaces for multi-components |
61 |
|
set-up (Chris's version, adapted to work on cubed-sphere grid); use MPI. |
62 |
|
- imply modification in eesupp (MPI_COMM_MODEL < MPI_COMM_WORLD). |
63 |
|
- atmosphere: use pkg aim_v23 ; no sea-ice for now. |
64 |
|
- ocean and atmos. share the same horizontal grid (no interpolation). |
65 |
|
- exchanges between component and coupler is done in forward_step |
66 |
|
o new verification experiment, cpl_aim+ocn: |
67 |
|
coupled ocean - AIM atmosphere on cs32 grid. |
68 |
|
|
69 |
|
checkpoint52d_pre |
70 |
|
o surface flux time-av diagnostic modified for NLFS & RealFreshWater |
71 |
|
o add call to AIM pendant S/R in external_forcing & external_fields_load.F |
72 |
|
|
73 |
|
checkpoint52c_post |
74 |
|
o Fixing OPTIONS files for use of exf: |
75 |
|
- ALLOW_ECCO not needed |
76 |
|
- ECCO_CPPOPTIONS.h should not be included from |
77 |
|
EXF_OPTIONS.h/CAL_OPTIONS.h, but from CPP_OPTIONS.h |
78 |
|
as has been the case in the past |
79 |
|
- All cal/exf related options are currently set in |
80 |
|
single header file. Should remain so until we |
81 |
|
agree on a consistent new policy. |
82 |
|
o Removed all CPP options for cal package. |
83 |
|
cal has no more CPP options. |
84 |
|
o modified STOREs in GAD_ADVECTION |
85 |
|
o corrected key comp. for passkey |
86 |
|
|
87 |
|
checkpoint52b_post |
88 |
|
o new version: "thsice" of thermodynamic sea-ice pkg: |
89 |
|
- only 1 call from "forward_step"; conserve energy, fresh-water & salt. |
90 |
|
- modify fluxes but do not change theta directly; |
91 |
|
- light cleaning of bulk_force pkg (still needed with thsice). |
92 |
|
- add forcing fields + data files in global_ocean.cs32x15/inp_thsice |
93 |
|
+ output_thsice.txt to test thsice & bulk_force pkgs. |
94 |
|
o put back grid & coriolis monitor output. |
95 |
|
checkpoint52b_pre |
96 |
|
|
97 |
|
o call "do_the_model_io" at the beginning (=> dump initial state) |
98 |
|
o use rhoConstFresh to define convertEmP2rUnit (was done only in ocean-P) |
99 |
|
o sort out interplay between tamc.h and PTRACERS_OPTIONS.h |
100 |
|
(need info on NUMBER_OF_PTRACERS) |
101 |
|
o missing PTRACERS headers in some routines |
102 |
|
o default tamc.h in pkg/autodiff supposed to crash |
103 |
|
to ensure proper customization |
104 |
|
|
105 |
|
checkpoint52a_post |
106 |
|
o modifications to make FREEZE (_SURFACE) flux visible to pkg/kpp |
107 |
|
- moved surfaceTendencyTice from pkg/seaice to main code |
108 |
|
- subroutine FREEZE_SURFACE now limits only surface temperature |
109 |
|
and is called in FORWARD_STEP (if allowFreezing=.TRUE.) |
110 |
|
=> new output.txt for global_ocean.cs32x15 & global_with_exf |
111 |
|
- keep the old version of FREEZE for backward compatibility; |
112 |
|
global_ocean.90x40x15 left unchanged using useOldFreezing=.TRUE. |
113 |
|
- corresponding modifs for TAF directives |
114 |
|
o added surface flux output variables to TIMEAVE_STATVARS |
115 |
|
o time-averaged output for pkg/ptracers |
116 |
|
o fix problem with ECCO-related divided adjoint |
117 |
|
snapshot file was missing some ad-variables, |
118 |
|
but no warning issued by TAF |
119 |
|
|
120 |
|
checkpoint52a_pre |
121 |
|
o some bug fixes for #undef REAL4_IS_SLOW |
122 |
|
|
123 |
|
checkpoint52 = ecco_c52_e35 |
124 |
|
o after testing adjoints of checkpoint51u_post |
125 |
|
|
126 |
|
checkpoint51u_post |
127 |
|
o this is the post-merge tag of the ecco-branch |
128 |
|
(needs another clean checkout and re-testing) |
129 |
|
o various natl_box_adjoint configs and results |
130 |
|
but no input fields |
131 |
|
o obcs adjoint not yet merged! |
132 |
|
o adding ECCO global 1x1 and 2x2 degree configs |
133 |
|
o updated/extended some store directives for seaice |
134 |
|
o pkg/ecco now containes ecco-specific part of cost function |
135 |
|
o top level routines the_main_loop, forward_step |
136 |
|
supersede those in model/src/ |
137 |
|
previous input data.cost now in data.ecco |
138 |
|
(new namelist ecco_cost_nml) |
139 |
|
o in ctrl/ cleaned some cross-dependencies and updated CPP options |
140 |
|
|
141 |
|
checkpoint51t_post |
142 |
|
o this is the pre-merge tag of the ecco-branch |
143 |
|
|
144 |
|
checkpoint51s_post |
145 |
|
o cleanup: removed various obsolete #define-s |
146 |
|
o pkg/grdchk |
147 |
|
- renamed 'ph-grd 3' to 'grad-res' |
148 |
|
- merged from ecco-branch |
149 |
|
(remaining bug fixes for obcs gradient checks) |
150 |
|
- additional high-precision output for testreport |
151 |
|
(grep for 'precision_grdchk_result') |
152 |
|
|
153 |
|
checkpoint51r_post |
154 |
|
o cleaned up or removed CPP_OPTIONS.h files |
155 |
|
o updated results for some of the tests to reflect the new |
156 |
|
optfiles (-ieee: -O0 instead of -O3) |
157 |
|
|
158 |
|
checkpoint51q_post |
159 |
|
o cd_code: |
160 |
|
- moved cd_scheme.F -> cd_code_scheme.F |
161 |
|
- separate read_checkpoint from cd_code_ini_vars.F |
162 |
|
- separated cd_code part from write_checkpoint |
163 |
|
- updated AD_SOURCE, generated .flow |
164 |
|
- added CD_CODE_VARS.h to the_main_loop |
165 |
|
- Moving cd_code specific store dir.s to pkg/cd_code |
166 |
|
o ctrl package totally restructured |
167 |
|
- pack/unpack now optional and decoupled from |
168 |
|
xx_/adxx_ I/O |
169 |
|
- ctrl_pack/unpack cleaned |
170 |
|
(new routines ctrl_init_ctrlvar.F, pkg/ctrl/ctrl_init_wet.F) |
171 |
|
- confined inclusion of AD_CONFIG.h to where necessary. |
172 |
|
o genmake2: changed AD dependencies from SRCFILES to AD_FILES |
173 |
|
|
174 |
|
checkpoint51p_post |
175 |
|
o create initial cd_code package |
176 |
|
- WARNING: the initialization of fields within packages |
177 |
|
is broken because INI_FIELDS (where READ_CHECKPOINT is |
178 |
|
called) is called *before* PACKAGES_INIT_VARIABLES. |
179 |
|
This seems to be backwards since |
180 |
|
1) its important to initially zero the entire field including |
181 |
|
the "halo" region |
182 |
|
2) zeroing needs to be done *before* reading pickup info |
183 |
|
and the pickup call might or might not happen in any |
184 |
|
particular run |
185 |
|
- this needs an overhaul for R2 |
186 |
|
o cleanup verification/*/code/GMREDI_OPTIONS.h |
187 |
|
o cleanup testreport |
188 |
|
|
189 |
|
checkpoint51o_post |
190 |
|
o bringing AD-related verif's up to date with genmake2 |
191 |
|
- carbon/ |
192 |
|
- global_ocean.90x40x15/ |
193 |
|
- hs.94.1x64x5/ |
194 |
|
- (front_relax/ ) |
195 |
|
o (more) consistent directory structure for AD-related verif.'s |
196 |
|
o cleaning ALLOW_GRADIENT_CHECK -> ALLOW_GRDCHK |
197 |
|
o cleaning some ALLOW_TANGENTLINEAR_RUN -> ALLOW_AUTODIFF |
198 |
|
o bug fix in find_alpha.F for MDJWF: |
199 |
|
- modif. to alpha = 1/D*( dN/dT - rho*dD/Dt) to account for |
200 |
|
change rho -> rho-rhoConst |
201 |
|
- replace call find_rho to find_rhonum |
202 |
|
o initialisation of rFlx extended to full array (required by TAF) |
203 |
|
and shifted to thermodynamics |
204 |
|
o removed PTRACERS.h in ptracers routine |
205 |
|
o added surfacetendencyPtr to S/R parameter list pracers_forcing |
206 |
|
o Correcting initialisations for fVerU, fVerV. |
207 |
|
o helping TAF to recognize dependency on kUp for |
208 |
|
fVerU, fVerV |
209 |
|
o Replacing delZ by delR in pkg/ctrl/ |
210 |
|
checkpoint51o_pre |
211 |
|
|
212 |
|
o undid all of cp51 pending some cleanups and discussion |
213 |
|
o added the [#include "AD_CONFIG.h"] statement to all files that need |
214 |
|
it for adjoint/tl #defines |
215 |
|
o re-worked the build logic in genmake2 to support AD_CONFIG.h |
216 |
|
o removed tools/genmake since it no longer works |
217 |
|
|
218 |
|
checkpoint51n_post |
219 |
|
o modifications to make FREEZE flux visible to pkg/kpp |
220 |
|
- moved surfaceTendencyTice from pkg/seaice to main code |
221 |
|
- FREEZE & EXTERNAL_FORCING_SURF moved to FORWARD_STEP |
222 |
|
- subroutine FREEZE now limits only surface temperature |
223 |
|
(this means new output.txt for global_ocean.90x40x15, |
224 |
|
global_ocean.cs32x15, and global_with_exf) |
225 |
|
o added surface flux output variables to TIMEAVE_STATVARS |
226 |
|
|
227 |
|
checkpoint51n_pre |
228 |
|
o added "#undef ALLOW_USE_MPI" support to eesupp/src/gather_2d.F |
229 |
|
o added [#include "AD_CONFIG.h"] to all files that use the following |
230 |
|
defines: |
231 |
|
- ALLOW_ADJOINT_RUN |
232 |
|
- ALLOW_TANGENTLINEAR_RUN |
233 |
|
- ALLOW_ECCO_OPTIMIZATION |
234 |
|
|
235 |
|
checkpoint51m_post |
236 |
|
o incorporating changes to get TAMC/TAF working in genmake2 |
237 |
|
- added new TAMC/TAF targets to the Makefile |
238 |
|
- various cleanups related to package handling |
239 |
|
- these changes should have no impact on the forward model |
240 |
|
|
241 |
|
checkpoint51l_post |
242 |
|
o changes to pkg/cal and pkg/exf that allow and speed-up long integrations |
243 |
|
- faster algorithm for cal_addtime.F |
244 |
|
- higher precision arithmetic, where needed |
245 |
|
- pkg/exf *startdate variables changed from calendar date to |
246 |
|
model integration time |
247 |
|
|
248 |
|
checkpoint51l_pre |
249 |
|
o add salt flux to forcing fields (used when salty sea-ice forms or melts) |
250 |
|
o enable to apply restoring on S & T only in a latitude band. |
251 |
|
o update output (external_forcing_surf modif. change truncation errors) |
252 |
|
global_ocean.cs32x15, global_ocean_pressure, lab_sea, natl_box |
253 |
|
|
254 |
|
checkpoint51k_post |
255 |
|
o change default to: useNHMTerms=.FALSE. |
256 |
|
- new output.txt for atmos. exp (NHMTerms were wrong but now turned off): |
257 |
|
adjustment.128x64x1, aim.5l_Eq_Ch, aim.5l_LatLon, hs94.128x64x5, hs94.1x64x5 |
258 |
|
- new output.txt for idealized oceanic exp (NHMTerms are now turned off): |
259 |
|
exp1, ideal_2D_oce |
260 |
|
- change data file of oceanic exp (leave the results unchanged for now) |
261 |
|
exp2, global_ocean[90x40x15,pressure,with_exf], lab_sea, natl_box |
262 |
|
o set gravitySign automatically according to the vertical coordinate used |
263 |
|
(and change sign: back to "logical" value: +1 when R increases downward) |
264 |
|
o added an include barrier to the default CPP_OPTIONS.h and |
265 |
|
removed the #include "PACKAGES_CONFIG.h" from it |
266 |
|
o fix a bug in mom_fluxform (from chk51j_post) |
267 |
|
|
268 |
|
checkpoint51j_post |
269 |
|
o Added some AD-related initialisations in mom_vecinv/ mom_fluxform/ |
270 |
|
o adjusted some flow directives (dynamics, thermodynamics) |
271 |
|
o added cubed-sphere case to test cost function |
272 |
|
o heckpoint_lev?_directives.h now include |
273 |
|
pkg-specific directives, whenever those are enabled. |
274 |
|
o Moving pkg-specific flow directives to corresponding pkg |
275 |
|
Moving pkg-specific differentiation list to corresponding pkg |
276 |
|
Moving pkg-specific checkpoint-lev storing to corresponding pkg |
277 |
|
---> conventions are |
278 |
|
- pkg_ad.flow |
279 |
|
- pkg_ad_diff.list |
280 |
|
- pkg_ad_check_lev?_dir.h |
281 |
|
|
282 |
|
checkpoint51i_post |
283 |
|
o merge of the branch-genmake2 |
284 |
|
- knowingly breaks the older genmake |
285 |
|
- automatic generation of all ALLOW_${PKG_NAME} defines |
286 |
|
- new testreport supersedes older testscript |
287 |
|
o large number of package inclusion and header cleanups |
288 |
|
checkpoint51i_pre |
289 |
|
|
290 |
|
o new output for adjoin of global ocean vector invariant |
291 |
|
o fix for checkpoint of thermodynamic seaice and bulk_force |
292 |
|
o Steph gchem various cleanups |
293 |
|
|
294 |
|
checkpoint 51h_pre |
295 |
|
o fixed some single quotes |
296 |
|
o modify gchem pkg to be more versatile |
297 |
|
o modifications to clean up dic pkg |
298 |
|
o add pkg/cfc |
299 |
|
|
300 |
|
checkpoint51g_post |
301 |
|
o provide links for ARPACK and ADM*TLM |
302 |
|
o start removing verification/vero/ |
303 |
|
o update AD-related stuff |
304 |
|
(in particular some IF-statements in model/src/ routines) |
305 |
|
o adding to verification/global_ocean.90x40x15/ adjoint of |
306 |
|
vector invariant setup |
307 |
|
|
308 |
|
checkpoint51f_post |
309 |
|
o update advect_xz/output.txt (left from chekpoint50f_pre, ini_vel modif) |
310 |
|
o Mods and bug fixes to pkg/cal, pkg/exf, etc., needed for computation |
311 |
|
of tracer Green's fucntions for ocean inversion project. |
312 |
|
|
313 |
|
checkpoint51f_pre |
314 |
|
o Added on-the-fly spatial interpolation capability |
315 |
|
"USE_EXF_INTERPOLATION" to pkg/exf. |
316 |
|
- This is a temporary Cartesian-grid hack until |
317 |
|
the super-duper ESMF coupler becomes available. |
318 |
|
- See verification/global_with_exf/README for usage example. |
319 |
|
- Removed obsolete EXFwindOnBgrid and SEAICEwindOnCgrid |
320 |
|
flags and modified pkg/seaice accordingly. |
321 |
|
o Bug fix to pkg/ptracers, pkg/generic_advdiff/gad_calc_rhs.F, |
322 |
|
and pkg/kpp/kpp_transport_ptr.F for dealing with tracer |
323 |
|
non-local transport term. |
324 |
|
|
325 |
|
checkpoint51e_post |
326 |
|
o pkg/mom_vecinv: |
327 |
|
- changes related to hFac: use S/R from aim.5l_cs/code (coriolis & vort.advec) |
328 |
|
- add time-ave diagnostic of vorticity advection. |
329 |
|
o add diagnostic (instantaneous) of Shapiro Filter effect for T,S & UV. |
330 |
|
o atmospheric geopotential: - include water vapor effect; |
331 |
|
- use p^kappa in p* scaling. |
332 |
|
o land pkg: read initial state from files. |
333 |
|
o AIM : add stratospheric drag in the upper level |
334 |
|
|
335 |
|
checkpoint51d_post |
336 |
|
o change function ILNBLNK (=> last non-blank char.) to return zero |
337 |
|
(instead of the string length) when the string. char is empty |
338 |
|
o fix bug in dxV,dyU definition of cubed-sphere grid (ini_curvilinear_grid) |
339 |
|
o modif's to restore TAMC compatibility |
340 |
|
- avoid "_d" constructs in PARAMETER declarations |
341 |
|
- avoid interrupting lines by comment lines |
342 |
|
o Use cluster local disks for purely local I/O |
343 |
|
vs. globally visible disks needed for ctrl stuff |
344 |
|
(merged from ecco-branch) |
345 |
|
- new active_file_loc... and mdsio_..._loc routines |
346 |
|
- affected packages: autodiff, ctrl, grdchk, mdsio |
347 |
|
|
348 |
|
checkpoint51c_post |
349 |
|
o introducing integer flag debugLevel |
350 |
|
- debLevZero: suppress all output |
351 |
|
- debLevA: standard |
352 |
|
- debLevB: equivalent to current debugMode=.TRUE. |
353 |
|
o introducing pathname variable mdsioLocalDir for mdsio |
354 |
|
that can be specified at runtime |
355 |
|
(relevant for cluster I/O to local disk) |
356 |
|
` |
357 |
|
>>>checkpoint51b_post |
358 |
|
adjoint of ptracers |
359 |
|
o disentangled ALLOW_PTRACERS using new ALLOW_GCHEM |
360 |
|
o extended state in checkpoint_lev?, etc. |
361 |
|
o alternative ctrl/cost with tr1 or ptracer |
362 |
|
o new comlev1_bibj_ptracers |
363 |
|
o new ptracers.flow |
364 |
|
o made ptracers_forcing same as external_forcing_s |
365 |
|
o added verification for adjoint with ptracers |
366 |
|
- adm. grdchk fail so far |
367 |
|
- tlm. grdchk OK |
368 |
|
- checked tapelev/comlev recomputations: OK |
369 |
|
<<<checkpoint51b_pre |
370 |
|
|
371 |
|
checkpoint51a_post |
372 |
|
o added code for biogeochemistry package |
373 |
|
- new pkgs: dic, gchem |
374 |
|
- new subroutine in ptracers |
375 |
|
o modify code for biogeo packages |
376 |
|
- in model/src and pkg/ptracers |
377 |
|
|
378 |
checkpoint51 |
checkpoint51 |
379 |
o merged improved packages from ecco-branch (ecco_c51_e34) to MAIN |
o merged improved packages from ecco-branch (ecco_c51_e34) to MAIN |
380 |
- autodiff, ctrl, exf, grdchk, seaice |
- autodiff, ctrl, exf, grdchk, seaice |
381 |
kept separate packages |
kept separate packages |
382 |
- cost, ecco, obcs |
- cost, ecco, obcs |
383 |
|
o updating verification/internal_wave, verification/lab_sea |
384 |
|
(all verif's pass on faulks.lcs.mit.edu RH7.3, g77) |
385 |
|
|
386 |
checkpoint50i_post |
checkpoint50i_post |
387 |
o Preparing next differentiable checkpoint and sync |
o Preparing next differentiable checkpoint and sync |