3 |
Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
4 |
============================== |
============================== |
5 |
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|
6 |
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ecco_c44_e19 |
7 |
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o will contain merges from main trunk |
8 |
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|
9 |
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ecco_c44_e18 |
10 |
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o sponge layer code for obcs was missing |
11 |
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- added hook in external_forcing.F |
12 |
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- added storing for TAF |
13 |
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o new routine cost_init_barfiles to initialise |
14 |
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adjoint fields adtbar, adsbar, adpsbar |
15 |
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(needed in conjunction with corrected ladinit for active I/O) |
16 |
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o cleaned up and corrected order in packages_readparms, ecco_readparms |
17 |
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o corrected and simplified weights for obcs controls |
18 |
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- weight fields simplified |
19 |
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- bug fix in ctrl_pack |
20 |
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- no more write of control vector in ctrl_pack |
21 |
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o i/j index bug fixes in cost_ssh_mean |
22 |
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|
23 |
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ecco_c44_e17 |
24 |
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o bug fixes in cost package |
25 |
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* wrong identifier for active I/O of monthly mean psbar |
26 |
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(cost_averagesfields, cost_ssh) xx_psbar_dummy |
27 |
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* cleaned all identifier for active I/O of monthly fields |
28 |
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* wrong ladinit in various cost routines |
29 |
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o merge with interval (chkpt44c_post - chkpt44d_post) |
30 |
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* added missing EXCLUDE_MONITOR flags |
31 |
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* changed "e" to "_d" in gmredi_slope_limit, gmredi_slope_psi |
32 |
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(incompatible typ in MIN/MAX expressions caused problems |
33 |
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on IBM SP3) |
34 |
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* in genmake added variable MAKEDEPEND |
35 |
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plus resetting for case SunOS |
36 |
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added timer_stats.c routine for IBM SP3 |
37 |
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* removed variables in dynamics |
38 |
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|
39 |
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ecco_c44_e16 |
40 |
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o new ECCO checkpoint, the first since ecco_c43_e15 |
41 |
|
which is branched from MITgcm. |
42 |
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All changes were merged in between (see ecco-branch-mod? tags). |
43 |
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o last changes: |
44 |
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* assuming path for TAF and TAMC are known (e.g. in $path) |
45 |
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* genmake: |
46 |
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- added tools/xmakedepend to circumvene shortcoming of |
47 |
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SUN's makedepend (size too small) |
48 |
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- invoking ../tools/xmakedepend instead of makedepend |
49 |
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- changed compiler flags for case SunOS |
50 |
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|
51 |
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ecco-branch-mod5 |
52 |
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o mod's to reproduce open boundary run |
53 |
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o enable field swapping for OB's and climatology |
54 |
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o update store directives for OB control |
55 |
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o added option ALLOW_OBCS_PRESCRIBE |
56 |
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o call of getobcs now out of obcs_calc (param. list modified) |
57 |
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|
58 |
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ecco-branch-mod4 |
59 |
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o this is the second part of changes necessary to reconcile |
60 |
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the natl_box_adjoint verification (with and without grdchk). |
61 |
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>>>!!! CHANGES BETWEEN THE TAGS ecco-branch-mod3 !!!<<< |
62 |
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>>>!!! AND ecco-branch-mod4 !!!<<< |
63 |
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>>>!!! SHOULD BE MERGED INTO THE MAIN TRUNK !!!<<< |
64 |
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- genmake: removed $S64 overwrite for case SunOS |
65 |
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- pkg/exf: update and corrections for field swapping and obcs |
66 |
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- pkg/ecco: parameter lists for the_model_main, the_main_loop |
67 |
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harmonized between ECCO and MITgcm |
68 |
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- pkg/autodiff: added flow directives for obcs, mdsio_gl_slice |
69 |
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updated checkpointing_lev... lists for obcs |
70 |
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- model/src: minor changes in forward_step, plot_field |
71 |
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- pkg/mdsio: added mdsio_gl_slice |
72 |
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|
73 |
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ecco-branch-mod3 |
74 |
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o this is the first part of changes necessary to reconcile |
75 |
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natl_box_adjoint verification (with and without grdchk). |
76 |
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This set of changes is relevant for ECCO only. |
77 |
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The next set/tag of changes (ecco-branch-mod4) |
78 |
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should be merged into the main trunk. |
79 |
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- update some options |
80 |
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- parameter lists of ecco_the_model_main and ecco_the_main_loop |
81 |
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differed from those of the MITgcm counterparts. |
82 |
|
|
83 |
|
ecco-branch-mod2 |
84 |
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o update ecco-branch-mod1 to checkpoint44 |
85 |
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o exclude from updates: |
86 |
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- verification/ |
87 |
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- adjoint/ |
88 |
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- pkg/cost |
89 |
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- pkg/ctrl |
90 |
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- pkg/ecco |
91 |
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- pkg/obcs |
92 |
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- model/src/the_model_main.F |
93 |
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- model/src/the_main_loop.F |
94 |
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|
95 |
|
checkpoint44 |
96 |
|
o apply Shapiro filter on T&S before calc_PhiHyd (stagger time stepping) |
97 |
|
o fix bug in mom_vi_del2uv |
98 |
|
o added some stuff for AD |
99 |
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|
100 |
|
ecco-branch-mod1 |
101 |
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o based on c43 |
102 |
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o replaced packages cost, ctrl, ecco, obcs |
103 |
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o removed MITgcm verif.'s, added ECCO verif.'s |
104 |
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o added lsopt, optim for line search optimization. |
105 |
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|
106 |
|
checkpoint43 |
107 |
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o added two new advection tests |
108 |
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o added global 4x4 degree ocean test |
109 |
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o added test of H&S94 with free surface on cube |
110 |
|
o some final mods for gradient check, adjoint,... |
111 |
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|
112 |
|
checkpoint42 |
113 |
|
Fixed AD-related problems: |
114 |
|
o Store directives up-to-date with re-arranged Adams-Bashforth |
115 |
|
(mainly thermodynamics.F) |
116 |
|
o New store directives for multi-dim. advection schemes |
117 |
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* new CPP flag ALLOW_MULTI_DIM_ADVECTION |
118 |
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* new common block and key passkey |
119 |
|
(mainly gad_advection.F) |
120 |
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o Modified store directives for split of dynamics/thermodynamics |
121 |
|
for the case ALLOW_KPP |
122 |
|
o Cleaned argument list for timestep_tracer.F |
123 |
|
|
124 |
|
checkpoint41 |
125 |
|
o re-formatted/added comments in prologues of key subroutines |
126 |
|
to work with protex |
127 |
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|
128 |
|
checkpoint40 |
129 |
|
o moved calc_gs, calc_gt and calc_tr1 back to model/src |
130 |
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o added FLT (floats) package from Arne along with demo. experiment |
131 |
|
o re-arranged Adams-Bashforth scheme for tracers to allow easier |
132 |
|
implementation of forward-in-time forcing terms |
133 |
|
o more mods for non-linear free-surface including new variable |
134 |
|
o modified multi-dim method to work on cube |
135 |
|
o bug fix in KPP (from DM) |
136 |
|
|
137 |
|
checkpoint40pre9 |
138 |
|
o added DST advection schemes |
139 |
|
o fix MPI bug on SGI's |
140 |
|
o modifications for non-linear free-surface |
141 |
|
o fixed conditionals for fixed flow/passive tracer only mode |
142 |
|
o added tension/strain form of stress tensor |
143 |
|
o changes to commenting of arguments for TAF/TAMC |
144 |
|
o added/updated many matlab scripts |
145 |
|
o added multi-dimensional advection method for tracers |
146 |
|
|
147 |
|
checkpoint40pre8 |
148 |
|
o new package rw/ |
149 |
|
Added method for dumping intermediate local arrays: |
150 |
|
mdsio_writetile - same as mdsio_writefield except works from inside |
151 |
|
bi,bj loop |
152 |
|
mdsio_writelocal - same as mdsio_writetile except works for local |
153 |
|
arrays |
154 |
|
write_local_r? - higher-level wrapper for mdsio_writelocal |
155 |
|
Controlled by diagFreq. Defaults to zero (ie. no dumps) |
156 |
|
Example given at end of mom_vecinv.F that dumps some local arrays. |
157 |
|
o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to |
158 |
|
control flux-form versus vector invariant code. |
159 |
|
Switch is runtime flag vectorInvariantMomentum (defaults to false) |
160 |
|
or genmake -DISABLE ... |
161 |
|
o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F |
162 |
|
(additional storing is now needed for case vecinv; |
163 |
|
currently nothing implemented to switch this storing off |
164 |
|
in case fluxform is used since no CPP flag available). |
165 |
|
|
166 |
|
checkpoint40pre7 |
167 |
|
o bug fix in dynamics.F |
168 |
|
calc_viscosity called before k=1,Nr loop. |
169 |
|
o added some #ifdef's ALLOW_PASSIVE_TRACER |
170 |
|
o cleaned initialisations in ctrl_map_ini |
171 |
|
related to TAF |
172 |
|
|
173 |
|
checkpoint40pre6 |
174 |
|
o split dynamics into thermodynamics & dynamics |
175 |
|
o corresponding split of calc_diffusivity into |
176 |
|
calc_diffusivity, calc_viscosity |
177 |
|
(kpp_calc_diff, kpp_calc_visc). |
178 |
|
o Added diffkr, kapgm to control variables |
179 |
|
o bug fix in gmredi_slope_limit for ldd97 |
180 |
|
|
181 |
|
checkpoint40pre5 |
182 |
|
o proper initialization of Adams-Bashforth time stepping |
183 |
|
+ uses forward step for very first step of model (iter=0) |
184 |
|
o re-generated *all* output since almost all output is modified by this |
185 |
|
change (sorry but we've been putting this one off for about 2 years) |
186 |
|
+ natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were |
187 |
|
*not* regenerated since they are already out of date and I don't |
188 |
|
want to create the impression that they are suddenly working. |
189 |
|
o removed KAP stuff for DEC's |
190 |
|
o modified/added many .cvsignore files in */code and */input |
191 |
|
o added new expt "solid-body.cs-32x32x1" |
192 |
|
+ this uses an alternative form of ini_curvilinear_grid.F which |
193 |
|
is not necessarily any better than the current one... |
194 |
|
|
195 |
|
checkpoint40pre4 |
196 |
|
o added re-initialisations of utrans,vtrans,rtrans in |
197 |
|
calc_common_factors which are crucial for TAF. |
198 |
|
o extended iMin,jMin range for calc_common_factors, |
199 |
|
calc_diffusivity |
200 |
|
o added option ALLOW_PASSIVE_TRACER |
201 |
|
o a few minor updates and fixes |
202 |
|
|
203 |
|
checkpoint40pre3 |
204 |
|
o created calc_gtr1.F for gad package |
205 |
|
o split the_main_loop and re-introduced forward_step |
206 |
|
o some recomputations of nIter0 for TAMC |
207 |
|
|
208 |
|
checkpoint40pre2 |
209 |
|
o Updated to latest branch of AJA, JMC |
210 |
|
o Added gradient check package |
211 |
|
o Added routines for passive tracer handling |
212 |
|
o Added carbon sequestration sensitivity experiment |
213 |
|
|
214 |
|
checkpoint39 |
215 |
|
o Modifications and fixes to support TAMC |
216 |
|
(mainly missing or wrong directives) |
217 |
|
o Corrected common blocks when fooling TAMC to produce adjoint I/O |
218 |
|
in addummy_in_stepping |
219 |
|
o Updated verification/vero/ (bug fixes in code/, correct pickups in input/) |
220 |
|
o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs. |
221 |
|
o Included following packages: |
222 |
|
cal: calendar |
223 |
|
exf: external forcing |
224 |
|
ecco: essential routines to control use of cal, exf |
225 |
|
(NB: this is not the full ECCO environment) |
226 |
|
o disabled some packages by default in genmake |
227 |
|
|
228 |
|
checkpoint38 |
229 |
|
o see notes_c37_adj.txt |
230 |
|
o corrected wrong layer index in external_forcing_t |
231 |
|
o replaced the_main_loop/forward_step by the_main_loop |
232 |
|
o removed forceoutput from write_state |
233 |
|
(replaced criteria for initial/final state) |
234 |
|
o added runtime flag for pre-C35 pickups: usePickupBeforeC35 |
235 |
|
|
236 |
|
checkpoint37 |
237 |
|
o mdsio.F routine split and packaged in pkg/mdsio |
238 |
|
(mdsio.F and mdsio_gl.F still exist in eesupp/src but are not |
239 |
|
used unless genmake -disable=mdsio) |
240 |
|
o allow a more precise surface-geopotential gradient for the atmosphere |
241 |
|
taking into account the change in space of Alpha (=1/rho) at the surface. |
242 |
|
o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit] |
243 |
|
(ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa]) |
244 |
|
o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and |
245 |
|
Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential |
246 |
|
[m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere). |
247 |
|
o Time-Average diagnostics defined as a pseudo package "timeave". |
248 |
|
o pickup files : old pickup (before c35) did not work with new code (c35 |
249 |
|
and after) unless activating 2 commented lines in initialise-varia. |
250 |
|
o Non-Hydrostatic pickup file Pb fixed. |
251 |
|
o bug with Rigid-lid version (since c35) fixed. |
252 |
|
|
253 |
|
checkpoint36 |
254 |
|
o implement Crank-Nickelson barotropic time-stepping |
255 |
|
o recover Time-Average diagnostics |
256 |
|
o fix Pb in checkpoint (PR#19) |
257 |
|
o AIM become a standard package ; clean unused CPP_kees |
258 |
|
|
259 |
|
checkpoint35 |
260 |
|
o subtantial rewrite of dynamics.f |
261 |
|
o allows staggered time-stepping |
262 |
|
o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt |
263 |
|
o added bottom drag (linear + quadratic) |
264 |
|
|
265 |
|
checkpoint34 |
266 |
|
o Modified exchange routines for correct reverse simulation. |
267 |
|
o Added verification output to comply with bug fix in impldiff.F |
268 |
|
as of c33 (exp2, natl_box). |
269 |
|
o Corrected store directives in dynamics.F |
270 |
|
o Corrected array boundaries in impldiff.F |
271 |
|
o Corrected array dimensions in gmredi. |
272 |
|
Added temporary scalars to avoid storage by TAMC (gmredi, kpp). |
273 |
|
o Added routine GLOBAL_SUM_INT to global_sum.F |
274 |
|
o Added mdsio_gl.F for ECCO purposes. |
275 |
|
|
276 |
|
checkpoint33 |
277 |
|
o Fixed bug in lower BC in impldiff.F |
278 |
|
o Fixed confusion about units of forcing arrays in FFIELDS.h |
279 |
|
namely Fu,Fv,Qnet,Qsw,EmPmR: |
280 |
|
- Removed verification/natl_box/code/external_fields_scale.F |
281 |
|
(did not differ from that in model/src) |
282 |
|
- Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units |
283 |
|
(see FFIELDS.h for description) |
284 |
|
- Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F, |
285 |
|
kpp_calc.F and kpp_transport_t.F |
286 |
|
- Removed model/src/external_fields_scale.F and calls to it |
287 |
|
- verification/natl_box uses flux data with "atmospheric" sign so |
288 |
|
a special version of external_fields_load.F is used to |
289 |
|
change the data as it's read in. This way, the arrays |
290 |
|
have the right units and signs at all times tha a user could |
291 |
|
possibly use them. |
292 |
|
o Corrected genmake to delete a temporary file during configuration |
293 |
|
|
294 |
|
checkpoint32 |
295 |
|
o Scaling of forcing fields moved from external_forcing.F to |
296 |
|
external_fields_scale.F, called directly after loading fields. |
297 |
|
o Surface relaxation terms added to surface tendency fields in |
298 |
|
extra subroutine. |
299 |
|
o impldiff.F changed to avoid storing by TAMC of huge intermediate |
300 |
|
fields. |
301 |
|
o Changes in GMRedi to comply with packaging structure. |
302 |
|
o Modifications and bug fixes in KPP package. |
303 |
|
o Verification experiment for KPP added (verification/nat_box/) |
304 |
|
|
305 |
|
checkpoint31 |
306 |
|
o Packages interface brought in line with defined standard |
307 |
|
-> new routines packages_...F |
308 |
|
-> changes in initialise_fixed.F, initialise_varia.F |
309 |
|
-> enables initialisation interface for ECCO package |
310 |
|
o Rescaling of external forcing fields immediately after read |
311 |
|
(removed from external_forcing.F) |
312 |
|
-> new: surface_fields_scale.F |
313 |
|
-> affects ini_foorcing.F, external_fields_load.F |
314 |
|
o Computation of surface tendencies before tendency updates. |
315 |
|
-> new: external_forcing_surf.F |
316 |
|
o Change of variable names useGMRedi, useKPP, useECCO |
317 |
|
o Further changes in dynamics.F, impldiff.F for TAMC |
318 |
|
o Tested for experiments 0, 2, 4. |
319 |
|
- not yet tested for GMRedi. |
320 |
|
- not yet tested for KPP. |
321 |
|
|
322 |
|
checkpoint30 |
323 |
|
o Updates for OBCs |
324 |
|
o New experiment for test OBCs (internal_wave) |
325 |
|
o New output.txt in verification/exp4/results/ |
326 |
|
o Updates for KPP: calculation of viscosity corrected, new variables |
327 |
|
kpp_dumpFreq and kpp_taveFreq |
328 |
|
o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.) |
329 |
|
and entry for T90 in genmake |
330 |
|
|
331 |
|
checkpoint29 |
332 |
|
o packaged KPP and GM/Redi |
333 |
|
|
334 |
|
checkpoint28 |
335 |
|
o Corrected initialization of hFacMin for difference vertical coordinates |
336 |
|
o Modified calculation of partial cell thickness to more robust algorithm |
337 |
|
o config_summary.F: replaced write_1D_... by write_0D_... |
338 |
|
read_write.F: added subroutines write_0D_... |
339 |
|
o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho: |
340 |
|
included some initialisations required for TAMC. |
341 |
|
o routine calc_isoslopes: modified sqrt computation to make it |
342 |
|
differentiable for zero argument. |
343 |
|
o routines dynamics, impldiff: |
344 |
|
included store directives and tape key computations required for TAMC. |
345 |
|
o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC |
346 |
|
|
347 |
|
checkpoint27 |
348 |
|
o fixed calc_isoslopes() to so that cancellation of terms in tensor |
349 |
|
formulation works properly with variable resolution. |
350 |
|
o restructured the calling tree between the_model_main() and dynamics() |
351 |
|
o split initialise() into initialise_fixed() and initialise_varia() |
352 |
|
o introduced initialization file pSurfInitFile for free surface (cg2d_x) |
353 |
|
in new routine ini_psurf() |
354 |
|
|
355 |
|
checkpoint26 |
356 |
|
o moved some #ifdef in optional routines to encompass everything |
357 |
|
except the argument declarations. This was using up some memory. |
358 |
|
o fixed macros like _ADT to work with both versions of Linux cpp |
359 |
|
o cleaned up some unused and uninitialized variables |
360 |
|
(helps when debugging with strict compile options) |
361 |
|
o split up CPP_EEOPTIONS.h into options and macros |
362 |
|
(macros are now in eesupp/inc/CPP_EEMACROS.h) |
363 |
|
o patch for 2 processor JAM mode |
364 |
|
|
365 |
|
checkpoint25 |
366 |
|
o updates for OBCs and NH |
367 |
|
o dramatically reduced memory usage |
368 |
|
o added "JAM" routines for use on Artic network |
369 |
|
o parameterization of convection by implicit vertical diffusion |
370 |
|
o added a diagnostic of convective index |
371 |
|
o moved call to calc_divg_hat() from dynamics() to solve_for_pressure() |
372 |
|
(this is was partly for OBCs and NH but also in anticipation of |
373 |
|
an explicit free-surface option) |
374 |
|
o initial state input files for U and V |
375 |
|
|
376 |
|
checkpoint24 |
377 |
|
o Removed some spurious "REAL"s |
378 |
|
o Updated KPP to latest version from JPL |
379 |
|
o Added a COS(latitude) in horizontal viscosity |
380 |
|
|
381 |
|
checkpoint23 |
382 |
|
o Added del^4 diffusion for salt and temperature |
383 |
|
o Multiple minor fixes (implicit none's, arguments to global_sum, etc.) |
384 |
|
|
385 |
|
checkpoint22 |
386 |
|
o Made many small changes: implicit none, format(i5), etc... |
387 |
|
o Introduced KPP mixing scheme (compiles and runs but *not* tested) |
388 |
|
|
389 |
|
checkpoint21 |
390 |
|
o Introduced new I/O package that supports direct-access records (mdsio.F) |
391 |
|
o Split-up mid-level I/O routines |
392 |
|
o Updated input data for experiments 0,1,2,4 and 5 |
393 |
|
o Finally removed the genmake.* scripts (everyone seems happy with genmake) |
394 |
|
|
395 |
|
checkpoint20 |
396 |
|
o Tidied up open-boundaries some more |
397 |
|
o Added non-hydrostatic code |
398 |
|
o Fixed some input data |
399 |
|
o Modified MPI start-up to work in "coupled" context. |
400 |
|
|
401 |
|
checkpoint19 |
402 |
|
o Tidied up directory structure for verification experiments. |
403 |
|
o Added new code for open boundaries. |
404 |
|
o Corrected advective terms near boundaries. |
405 |
|
o Added CPP flag for "old UV" geometry and corrected spherical geometry. |
406 |
|
o Implemented free-slip/no-slip BCs and del^4 dissipation. |
407 |
|
o Split default parameters out of ini_parms.F into set_defaults.F. |
408 |
|
|
409 |
|
checkpoint18 |
410 |
|
o Further changes for optional code generation with |
411 |
|
CPP - ugh! |
412 |
|
|
413 |
|
checkpoint17 |
414 |
|
o Beginning to incorporating modularity |
415 |
|
for supporting atmos. and ocean configs. |
416 |
|
o Small changes for TAMC complinace |
417 |
|
o New ultra simple test case. Barotropic box |
418 |
|
configuration "exp0". |
419 |
|
|
420 |
checkpoint16 |
checkpoint16 |
421 |
o Minor changes to exchange routines to support |
o Minor changes to exchange routines to support |
422 |
accumulation in reverse mode. Adjoint of an |
accumulation in reverse mode. Adjoint of an |