3 |
Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
4 |
============================== |
============================== |
5 |
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|
6 |
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o AIM: use true log-P extrapolation for near surface temp (= as in |
7 |
|
F.Molteni paper) ; update aim.5l_cs output. |
8 |
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|
9 |
|
checkpoint50g_post |
10 |
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o merged with release1_p17 (pkg/seaice and verification/lab_sea) |
11 |
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- added SEAICE_MULTILEVEL for 8-category sea-ice thermodynamics |
12 |
|
- LSR sea-ice dynamic solver moved to SouthWest B-grid location and |
13 |
|
made the default because of faster convergence than ADI |
14 |
|
|
15 |
|
checkpoint50f_post |
16 |
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o exf totally restructured |
17 |
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- replaced all exf_set_ routines by one generic exf_set_gen.F |
18 |
|
and made sure it's still differentiable |
19 |
|
- split exf_getffields.F into new exf_bulkformulae.F |
20 |
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- exf_inscal_/exf_outscal_ suffixes consistent with field names |
21 |
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- updated adjoint/makefile and relevant verif. accordingly |
22 |
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|
23 |
|
checkpoint50f_pre |
24 |
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o AIM: near surface temp evaluated from Pot.Temp: fixed for Part Cell ; |
25 |
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+ change Evap over land. (update aim.5l_cs output) |
26 |
|
o added missing .cvsignores and made uniform across expts |
27 |
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o changed configuration of tidal_basin_2d expt |
28 |
|
o added pkg/debug functions for tracing code in fatal crashes |
29 |
|
o tidied pkg/monitor to use MONITOR_OPTIONS.h |
30 |
|
o new fn in pkg/monitor to stop model if solution grows too big |
31 |
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o removed lots of single quotes from comments |
32 |
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|
33 |
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checkpoint50e_post |
34 |
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o make KPP work with PTRACERS |
35 |
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- fix gad_calc_rhs to call new routine kpp_transport_ptr, which is |
36 |
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nearly a copy of kpp_transport_s |
37 |
|
- there is no analogue to SurfaceTendencyS, so I have to use |
38 |
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gPtr(of the surface layer) instead |
39 |
|
o add a new platform SunFire+mpi (SunFire 15000) to genmake |
40 |
|
checkpoint50e_pre |
41 |
|
|
42 |
|
checkpoint50d_post |
43 |
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o change kpp output from multiple-record state files to single-record state |
44 |
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files analogous to write_state.F |
45 |
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o reduce the output frequency of cg3d-related stuff to the monitor frequency, |
46 |
|
analogous to the cg2d-related output. |
47 |
|
o fix small problem with in ptracers_write_checkpoint.F: len(suff)=512, |
48 |
|
so that writing to internal file fn (with length 512) fails. |
49 |
|
checkpoint50d_pre |
50 |
|
|
51 |
|
checkpoint50c_post |
52 |
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o fix problem in ini_procs.F when using MPI (was there since checkpoint48f) |
53 |
|
o add monitor diagnostic of vorticity (mon_vort3.F) and potential energy. |
54 |
|
o add time-average diagnostic of U*V and vertical diffusive flux for theta. |
55 |
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o bug fixed in convective adjustment diagnostic (multi-tile set-up). |
56 |
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o 4th Order Adv scheme: return to previous (c40pre7) masking near boundaries. |
57 |
|
|
58 |
|
checkpoint50c_pre |
59 |
|
Merging from release1_p13: |
60 |
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o bug fix for pkg/seaice dynamic solver |
61 |
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o Added SEAICE_initialHEFF to pkg/seaice |
62 |
|
|
63 |
|
checkpoint50b_post |
64 |
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o store u*,v* in gU,V instead of in guNm1,gvNm1 |
65 |
|
o in order to put the momForcing out of the Adams-Bashforth: |
66 |
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move forcing & CD-scheme calls from mom_fluxform & mom_vecinv |
67 |
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to timestep.F |
68 |
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o new flag "useCDscheme" (default=F); replace guCD,gvCD by local arrays |
69 |
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o re-generate output for highly sensitive test-exp: |
70 |
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global_ocean_pressure, ideal_2D_oce, lab_sea, natl_box |
71 |
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|
72 |
|
checkpoint50b_pre |
73 |
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o restore the use of momAdvection & useCoriolis flags (mom_vecinv) |
74 |
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o corrected CPP option mismatch in exf_Bulk... functions for case |
75 |
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#define ALLOW_ATM_WIND && #undef ALLOW_ATM_TEMP |
76 |
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|
77 |
|
checkpoint50a_post |
78 |
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o Bug fix for merging between c50 and KPP. |
79 |
|
ikey was passed from thermodynamics to kpp_calc via |
80 |
|
common block rather than being recomputed in kpp_calc, |
81 |
|
in contradiction with new key itdkey. |
82 |
|
New key ikppkey created, and tamc.h headers updated. |
83 |
|
|
84 |
|
checkpoint50 |
85 |
|
- 2nd step of merge with ecco-branch: |
86 |
|
merge changes in ecco-branch back into main trunk |
87 |
|
- bug fix in find_alpha |
88 |
|
- more storing in gmredi_calc_tensor.F, kpp_routines.F |
89 |
|
- avoid iterative loop in ini_pressure for ALLOW_AUTODIFF_TAMC |
90 |
|
- merged some sliced AD support routines |
91 |
|
|
92 |
|
checkpoint49 |
93 |
|
merged from ecco-branch: |
94 |
|
o exf: |
95 |
|
- Enable initialisation of forcing fields to constant |
96 |
|
(runtime) values. |
97 |
|
- in exf_getffields.F |
98 |
|
Reduce i-/j-loop to interior domain, discarding overlaps. |
99 |
|
That also fixes wrong TAF-key computations for key_1, key_2 |
100 |
|
with bulf formulae. |
101 |
|
- exf_init.F modify #ifdef for exf_init_evap |
102 |
|
- exf_getffieldrec.F, ctrl_getrec.F |
103 |
|
The following INT-usages are not safe: |
104 |
|
fldsecs = int(fldsecs/fldperiod)*fldperiod |
105 |
|
fldcount = int(fldsecs/fldperiod) + 1 |
106 |
|
and were modified. |
107 |
|
o autodiff: checkpoint_lev... |
108 |
|
- updated storing for bulk formulae (some arrays were missing) |
109 |
|
- added state for seaice package |
110 |
|
- synchronized with main branch |
111 |
|
o DIVA: |
112 |
|
Modif.s in |
113 |
|
- the_main_loop.F |
114 |
|
- the_model_main.F |
115 |
|
and added cost_final_restore.F cost_final_store.F |
116 |
|
o With these changes, it is possible to fully separate |
117 |
|
the first forward run to compute the cost function (mdthe_main_loop) |
118 |
|
and adjoint runs over individual DIVA intervals (adthe_main_loop) |
119 |
|
into separate model executions. |
120 |
|
This enables better tuning of DIVA to given queue sizes. |
121 |
|
o Loss of cost function value in consecutive DIVA runs is |
122 |
|
fixed by storing to 'costfinal' file. |
123 |
|
o Appropriate call of ctrl_unpack/_pack,grdchk_main at |
124 |
|
beginning/end of adjoint integration is accounted for. |
125 |
|
The current changes apply to TAF-1.4.26. |
126 |
|
TAF has one remaining bug, requiring one manual change |
127 |
|
(see MITgcm manual). |
128 |
|
o cal: synchronized between MAIN and ecco-branch |
129 |
|
|
130 |
|
checkpoint48i_post |
131 |
|
o Changes to restore differentiability of code w.r.t. previous tag |
132 |
|
(mostly adding new routines to make list and replacing |
133 |
|
pressure by totPhiHyd). |
134 |
|
o Updated and merged grdchk package |
135 |
|
- has both ADM and TLM checks |
136 |
|
- works for single- and multi-proc. |
137 |
|
- output cleaned |
138 |
|
- worked successfully for parallel DIVA |
139 |
|
o genmake: |
140 |
|
- Adding -platform=SP4 |
141 |
|
- Modif. for DEC Alpha (many don't have makedepend; use mkdep instead). |
142 |
|
o Modif. for DIVA: |
143 |
|
ctrl_unpack should not be called in intermediate DIVA interval. |
144 |
|
(similar thing would apply for active files such as |
145 |
|
tbar, sbar, psbar, which should not be reinitialised; |
146 |
|
only relevant for ecco-branch) |
147 |
|
|
148 |
|
checkpoint48h_post |
149 |
|
o improve "ini_p_ground" when using finite difference form for calc_phi_hyd |
150 |
|
o Added net flux to downward flux conversion to pkg/exf/exf_getffields.F |
151 |
|
o Added SEAICE_initialHEFF to pkg/seaice |
152 |
|
o ecco_the_model_main.F: SEAICE_WRITE_PICKUP must precede WRITE_CHECKPOINT |
153 |
|
|
154 |
|
checkpoint48g_post |
155 |
|
--- EOS: |
156 |
|
o compute locally the pressure for use in EOS: UNESCO, JMD95P, MDJWF |
157 |
|
store total Potential in totPhyHyd for diagnostics & EOS. |
158 |
|
o fix restart and overlap Pb when using Z-coord and EOS funct. of P |
159 |
|
--- Pressure/geopotential gradient: |
160 |
|
o use Ro_surf & R_low instead of hFac in cal_phi_hyd: |
161 |
|
o NLFS + p-coord.: eta*Alpha' is not longer lagging 1.time-step behind |
162 |
|
( changes results of global_ocean_pressure ) |
163 |
|
o NLFS + z-coord.: add eta*Rho' contribution. |
164 |
|
o accurate phiHyd when using interface-W at the middle between 2 centers |
165 |
|
( changes results of ideal_2D_oce ) |
166 |
|
o includes r* 2nd term in potential gradient. |
167 |
|
|
168 |
|
checkpoint48f_post |
169 |
|
Merging from release1_p12: |
170 |
|
o Modifications for using pkg/exf with pkg/seaice |
171 |
|
- improved description of the various forcing configurations |
172 |
|
- added basic radiation bulk formulae to pkg/exf |
173 |
|
- units/sign fix for evap computation in exf_getffields.F |
174 |
|
- updated verification/global_with_exf/results/output.txt |
175 |
|
o Added pkg/sbo for computing IERS Special Bureau for the Oceans |
176 |
|
(SBO) core products, including oceanic mass, center-of-mass, |
177 |
|
angular, and bottom pressure (see pkg/sbo/README.sbo). |
178 |
|
o Lower bound for viscosity/diffusivity in pkg/kpp/kpp_routines.F |
179 |
|
to avoid negative values in shallow regions. |
180 |
|
- updated verification/natl_box/results/output.txt |
181 |
|
- updated verification/lab_sea/results/output.txt |
182 |
|
o MPI gather, scatter: eesupp/src/gather_2d.F and scatter_2d.F |
183 |
|
o Added useSingleCpuIO option (see PARAMS.h). |
184 |
|
o Updated useSingleCpuIO option in mdsio_writefield.F to |
185 |
|
work with multi-field files, e.g., for single-file pickup. |
186 |
|
o pkg/seaice: |
187 |
|
- bug fix in growth.F: QNET for no shortwave case |
188 |
|
- added HeffFile for specifying initial sea-ice thickness |
189 |
|
- changed SEAICE_EXTERNAL_FLUXES wind stress implementation |
190 |
|
o Added missing /* */ to CPP comments in pkg/seaice, pkg/exf, |
191 |
|
kpp_transport_t.F, forward_step.F, and the_main_loop.F |
192 |
|
o pkg/seaice: |
193 |
|
- adjoint-friendly modifications |
194 |
|
- added a SEAICE_WRITE_PICKUP at end of the_model_main.F |
195 |
|
|
196 |
|
checkpoint48e_post |
197 |
|
o New S/R for diagnostic of bottom pressure (phi0surf was missing in c48d_post) |
198 |
|
o dynamics: change definition of computational domain & adapt mom_fluxform |
199 |
|
accordingly ; when viscA4=0, allows to run the dynamics with Olx=Oly=2. |
200 |
|
o following exp works with Olx=Oly=2 (and pass through checkbounds option): |
201 |
|
adjust_nlfs.cs-32x32x1 adjustment.128x64x1 adjustment.cs-32x32x1 |
202 |
|
exp0 exp1 exp2 exp4 exp5 hs94.cs-32x32x5 hs94.128x64x5 hs94.1x64x5 |
203 |
|
global_ocean.90x40x15 global_with_exf global_ocean_pressure |
204 |
|
inverted_barometer solid-body.cs-32x32x1 |
205 |
|
(high order AdvScheme and/or multiDimAd works with Olx=Oly=2 ? not sure) |
206 |
|
|
207 |
|
checkpoint48d_post |
208 |
|
o in preparation for r*: |
209 |
|
a) use pre-computed gradient of hydrostatic potential: |
210 |
|
changes in timestep.F & mom_cdscheme.F affects results of ideal_2D_oce |
211 |
|
b) move phi0surf from calc_phi_hyd to calc_grad_phi_hyd: |
212 |
|
=> affects results of glob_oce_pressure (different truncation error) |
213 |
|
update output.txt of ideal_2D_oce & global_ocean_pressure |
214 |
|
|
215 |
|
checkpoint48d_pre |
216 |
|
o in preparation for r*: |
217 |
|
new S/R (calc_grad_phi_hyd.F) to compute Hydrostatic potential gradient. |
218 |
|
pass the 2 comp. of the grad. as arguments to momentum S/R. |
219 |
|
but for the moment, only used if it does not change the results. |
220 |
|
o add finite volume form of calc_phi_hyd for buoyancyRelation OCEANIC & OCEANICP |
221 |
|
|
222 |
|
checkpoint48c_post |
223 |
|
Modifications in treatment of initial flux forcing controls |
224 |
|
to avoid extra storing of flux fields. |
225 |
|
|
226 |
|
checkpoint48c_pre |
227 |
|
o Added tidal_basin_2d experiment (currently 1D!) |
228 |
|
o can use r* Coordinate with OBC (but Orlanski Rad. BC not yet implemented) |
229 |
|
|
230 |
|
checkpoint48b_post |
231 |
|
o r* coordinate added in #ifdef NONLIN_FRSURF block. |
232 |
|
(modification to pressure gradient not yet implemented) |
233 |
|
o mom_fluxform: new S/R mom_calc_rtrans.F computes vertical transports |
234 |
|
(for U & V) that are used for vertical advection of momentum. |
235 |
|
|
236 |
|
checkpoint48a_post |
237 |
|
o In preparation for r*, use temp. array to compute vertical transport |
238 |
|
in flux-form momentum pkg. => change results of few test-exp. |
239 |
|
Update output of: exp4, exp5, front_relax, global_ocean_pressure, |
240 |
|
lab_sea, natl_box & plume_on_slope |
241 |
|
|
242 |
|
checkpoint48 |
243 |
|
o fix small bug that was causing lot of warning (TIMER_STOP 'UPDATE_CG2D') |
244 |
|
|
245 |
|
checkpoint47j_post |
246 |
|
o add new exp. (ideal_2D_oce) to test "exotic" parameters and options. |
247 |
|
o moved adexch from forward_step to addummy_in_stepping |
248 |
|
o added exch in ctrl_map_... |
249 |
|
o aveFreq.=0. at end of cost_final to avoid overwrite in |
250 |
|
reverse checkpointing loop |
251 |
|
o Yet more changes in gmredi: |
252 |
|
* adgmredi_calc_tensor |
253 |
|
avoiding all recomputation of gmredi_slope_limit |
254 |
|
* adgmredi_x/y/rtransport |
255 |
|
added flag for excessive storing to avoid recomp. of |
256 |
|
u/v/rtans, dTdx/y/z |
257 |
|
-> this is not really necessary and very memory-consuming |
258 |
|
* adgmredi_slope_psi: |
259 |
|
consistency with gmredi_slope_limit in treatment of GM_slopeSqCutoff |
260 |
|
* gmredi_slope_limit |
261 |
|
re-activated full calculation of taperfct for case 'ac02' |
262 |
|
o updating verification/ adjoints of carbon, global_ocean.90x40x15 |
263 |
|
|
264 |
|
checkpoint47i_post |
265 |
|
o GM_EXCLUDE_() replace GM_TAPER_(): by default, all the code is compiled. |
266 |
|
o add GM_Small_Number & GM_slopeSqCutoff as run-time parameters (data.gmredi) |
267 |
|
default values = 1.D-12 & 1.D+48 (=> give same results as checkpoint47f_post) |
268 |
|
o cg2dTargetResWunit: define tolerance using deltaTmom (and not deltaTfreesurf) |
269 |
|
o gmredi: fix few bugs. |
270 |
|
|
271 |
|
checkpoint47h_post (duplicate tag for PH's c48 tag, in order to move c48) |
272 |
|
This will be a good checkpoint to plug into the ecco-branch. |
273 |
|
o few modif.'s to get latest version adjointed |
274 |
|
(mainly kick out code in ini_linear_phisurf) |
275 |
|
o modif's to run adjoint with exactConserv |
276 |
|
o case GM_BOLUS_ADVEC should be cleaned |
277 |
|
S/R gmredi_slope_psi should be cleaned |
278 |
|
o verification/carbon now has exactConserv=.TRUE. |
279 |
|
|
280 |
|
checkpoint47g_post |
281 |
|
o time-average AIM output: becomes independent from statvars time-average |
282 |
|
(can be used with #undef ALLOW_TIMEAVE) ; add new variables (e.g., RH) |
283 |
|
o After TAF bug fix: |
284 |
|
Tested adjoint of gmredi package. |
285 |
|
Tests were done with checkpoint47 rather than with latest |
286 |
|
checkpoint47f_post since the latter is broken for the adjoint |
287 |
|
verification/carbon/ contains both ADM and TLM gradient checks. |
288 |
|
Here they are, before they get changed/lost/stolen. |
289 |
|
Mostly modif.'s to fix numerical sensitivities. |
290 |
|
Gradient checks OK for |
291 |
|
- GM_taper_scheme: |
292 |
|
* clipping |
293 |
|
* ac02 |
294 |
|
* linear |
295 |
|
* glw91 |
296 |
|
* dm95 |
297 |
|
* ldd97 |
298 |
|
- GMREDI_OPTIONS: |
299 |
|
* GM_VISBECK_VARIABLE_K |
300 |
|
* GM_NON_UNITY_DIAGONAL |
301 |
|
* GM_EXTRA_DIAGONAL |
302 |
|
* GM_BOLUS_ADVEC |
303 |
|
in conjunction with data.gmredi parameters to be checked in |
304 |
|
in a few minutes under verification/carbon/code/ |
305 |
|
|
306 |
|
checkpoint47f_post |
307 |
|
Merging from release1_p10: |
308 |
|
o modifications for using pkg/exf with pkg/seaice |
309 |
|
- pkg/seaice CPP options SEAICE_EXTERNAL_FORCING |
310 |
|
and SEAICE_EXTERNAL_FLUXES |
311 |
|
- pkg/exf CPP options EXF_READ_EVAP and |
312 |
|
EXF_NO_BULK_COMPUTATIONS |
313 |
|
- usage examples are Experiments 8 and 9 in |
314 |
|
verification/lab_sea/README |
315 |
|
- verification/lab_sea default experiment now uses |
316 |
|
pkg/gmredi, pkg/kpp, pkg/seaice, and pkg/exf |
317 |
|
|
318 |
|
checkpoint47e_post |
319 |
|
o created a tag prior to creating a branch |
320 |
|
|
321 |
|
checkpoint47d_post |
322 |
|
o fixed bug in the oceanic pressure coordinates code: vertical viscosity |
323 |
|
at the bottom boundary had an erroneous half slip boundary condition |
324 |
|
o added bottom drag and no slip boundary condition capabilities to |
325 |
|
oceanic pressure coordinates code |
326 |
|
o added new verification experiment global_ocean_pressure, this experiment is |
327 |
|
also described in the tutorial section of the manual |
328 |
|
checkpoint47d_pre |
329 |
|
|
330 |
|
checkpoint47c_post |
331 |
|
o Added a verification experiment for a global cubed-sphere ocean run |
332 |
|
- verification/global_ocean.cubed32x32x30 |
333 |
|
- uses pkg/therm_seaice and pkg/bulk_forcing |
334 |
|
|
335 |
|
o allow to run AIM physics with SPEEDY input files (from Franco Molteni) |
336 |
|
o allow a more accurate definition of Ro_Surf (selectFindRoSurf=1) |
337 |
|
when using P-coordinate; only implemented for atmospheric config. |
338 |
|
o OCEANICP & realFreshWater: include P-E direct effect on wVel ; |
339 |
|
NOTES: requires option NONLIN_FRSURF to be "#define". |
340 |
|
o update advect_xz/results/output.txt (left from checkpoint44g_post) |
341 |
|
|
342 |
|
checkpoint47b_post |
343 |
|
Merging from release1_p9: |
344 |
|
o pkg/seaice |
345 |
|
- removed GOTO's and added taf directives |
346 |
|
- double precision constants to reduce the g77 (Linux) |
347 |
|
to F77 (SGI) differences reported in release1_p8 |
348 |
|
o tools/genmake |
349 |
|
- added SGI options |
350 |
|
o verification/testscript |
351 |
|
- updated to that of checkpoint47a_post |
352 |
|
o verification/global_ocean.90x40x15/input/eedata |
353 |
|
- modified for SGI f77 compatibility |
354 |
|
o verification/lab_sea |
355 |
|
- added description of sea-ice model |
356 |
|
- added missing matlab routines |
357 |
|
- added test of thermodynamics parallelization |
358 |
|
|
359 |
|
checkpoint47a_post |
360 |
|
o new pkg: aim_v23 |
361 |
|
= F. Molteni atmos.physics (SPEEDY, ver23) adapted to MITgcm. |
362 |
|
for now, keep the same surface forcing as before. |
363 |
|
- Part-Cell implemented into AIM; check that Heat & Water are conserved |
364 |
|
- aim.5l_cs: use new aim pkg (run 10yr & get better results than before) |
365 |
|
- aim.5l_LatLon & aim.5l_Equatorial_Channel are still using old aim pkg |
366 |
|
o add diagnostic of surface correction term in monitor output |
367 |
|
|
368 |
|
o bulk_force and therm_seaice |
369 |
|
- Two packages: bulk_force (Bulk forcing) |
370 |
|
and therm_seaice (thermodynamic_seaice) - adopted from LANL CICE.v2.0.2 |
371 |
|
- Earlier integration from Stephaine Dutkiewicz |
372 |
|
and Patrick Heimbach. |
373 |
|
- Two ifdef statements for compile time, |
374 |
|
ALLOW_THERM_SEAICE and ALLOW_BULK_FORCE |
375 |
|
|
376 |
checkpoint47 |
checkpoint47 |
377 |
differentiable version of checkpoint46n_post |
differentiable version of checkpoint46n_post |
378 |
o bug fix in quasihydrostaticterms |
o bug fix in quasihydrostaticterms |