| 3 |
Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
| 4 |
============================== |
============================== |
| 5 |
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|
| 6 |
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release1_p11 |
| 7 |
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o Modifications for using pkg/exf with pkg/seaice |
| 8 |
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- improved description of the various forcing configurations |
| 9 |
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- added basic radiation bulk formulae to pkg/exf |
| 10 |
|
- units/sign fix for evap computation in exf_getffields.F |
| 11 |
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- updated verification/global_with_exf/results/output.txt |
| 12 |
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o Added pkg/sbo for computing IERS Special Bureau for the Oceans |
| 13 |
|
(SBO) core products, including oceanic mass, center-of-mass, |
| 14 |
|
angular, and bottom pressure (see pkg/sbo/README.sbo). |
| 15 |
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o Lower bound for viscosity/diffusivity in pkg/kpp/kpp_routines.F |
| 16 |
|
to avoid negative values in shallow regions. |
| 17 |
|
o MPI gather, scatter: eesupp/src/gather_2d.F and scatter_2d.F |
| 18 |
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o Added useSingleCpuIO option (see PARAMS.h). |
| 19 |
|
|
| 20 |
|
release1_p10 |
| 21 |
|
o modifications for using pkg/exf with pkg/seaice |
| 22 |
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- pkg/seaice CPP options SEAICE_EXTERNAL_FORCING |
| 23 |
|
and SEAICE_EXTERNAL_FLUXES |
| 24 |
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- pkg/exf CPP options EXF_READ_EVAP and |
| 25 |
|
EXF_NO_BULK_COMPUTATIONS |
| 26 |
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- usage examples are Experiments 8 and 9 in |
| 27 |
|
verification/lab_sea/README |
| 28 |
|
- verification/lab_sea default experiment now uses |
| 29 |
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pkg/gmredi, pkg/kpp, pkg/seaice, and pkg/exf |
| 30 |
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|
| 31 |
|
release1_p9 |
| 32 |
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o pkg/seaice |
| 33 |
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- removed GOTO's and added taf directives |
| 34 |
|
- double precision constants to reduce the g77 (Linux) |
| 35 |
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to F77 (SGI) differences reported in release1_p8 |
| 36 |
|
o tools/genmake |
| 37 |
|
- added SGI options |
| 38 |
|
o verification/testscript |
| 39 |
|
- updated to that of checkpoint47a_post |
| 40 |
|
o verification/global_ocean.90x40x15/input/eedata |
| 41 |
|
- modified for SGI f77 compatibility |
| 42 |
|
o verification/lab_sea |
| 43 |
|
- added description of sea-ice model |
| 44 |
|
- added missing matlab routines |
| 45 |
|
- added test of thermodynamics parallelization |
| 46 |
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|
| 47 |
|
release1_p8 |
| 48 |
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o verification/natl_box: |
| 49 |
|
updating new external_fields_load routine |
| 50 |
|
o New package: pkg/seaice |
| 51 |
|
Sea ice model by D. Menemenlis (JPL) and Jinlun Zhang (Seattle). |
| 52 |
|
The sea-ice code is based on Hibler (1979-1980). |
| 53 |
|
Two sea-ice dynamic solvers, ADI and LSR, are included. |
| 54 |
|
In addition to computing prognostic sea-ice variables and diagnosing |
| 55 |
|
the forcing/external data fields that drive the ocean model, |
| 56 |
|
SEAICE_MODEL also sets theta to the freezing point under sea-ice. |
| 57 |
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The implied surface heat flux is then stored in variable |
| 58 |
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surfaceTendencyTice, which is needed by KPP package (kpp_calc.F and |
| 59 |
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kpp_transport_t.F) to diagnose surface buoyancy fluxes and for the |
| 60 |
|
non-local transport term. Because this call precedes model |
| 61 |
|
thermodynamics, temperature under sea-ice may not be "exactly" at |
| 62 |
|
the freezing point by the time theta is dumped or time-averaged. |
| 63 |
|
N.B.: fairly large differences in accuracy occur across |
| 64 |
|
different platforms/compilers; comparison between |
| 65 |
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g77 (Linux) and F77 (SGI Origin 2000/MIPSpro) |
| 66 |
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generated output gives: |
| 67 |
|
T S U V |
| 68 |
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C D M c m s m s m s m s |
| 69 |
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n p a R g m m e . m m e . m m e . m m e . |
| 70 |
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f n k u 2 i a a d i a a d i a a d i a a d |
| 71 |
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g d e n d n x n . n x n . n x n . n x n . |
| 72 |
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|
| 73 |
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Y Y Y Y 5 5 7 7 7 8 10 9 6 6 6 6 7 5 7 5 7 FAIL lab_sea |
| 74 |
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|
| 75 |
|
release1_p7 |
| 76 |
|
o GAD: |
| 77 |
|
- generated new common blocks to account for call of |
| 78 |
|
same gad routines with differing traceridentities |
| 79 |
|
(needed to modify tracerIdentity indices in GAD.h) |
| 80 |
|
- generated separate common blocks for case useCubedSphereExchange |
| 81 |
|
(Department of Futurology) |
| 82 |
|
- parameter lists to gmredi_?transport: added tracerIdentity |
| 83 |
|
- added new key indices to tamc.h |
| 84 |
|
o external_fields_load: |
| 85 |
|
- added this routine to TAF list |
| 86 |
|
- needed to make some common blocks global and additional storing |
| 87 |
|
along the same lines as exf package (checkpoint_lev?_directives.h) |
| 88 |
|
o exf: |
| 89 |
|
updated external forcing package |
| 90 |
|
- bug fixes carried over from ecco-branch |
| 91 |
|
(missing OBCS_OPTIONS.h in two routines) |
| 92 |
|
- enable easy to use "no forcing". |
| 93 |
|
- added exf I/O for atmospheric loading |
| 94 |
|
- added exf I/O for runoff data |
| 95 |
|
- transfered scaling between exf <-> MITgcm to exf namelist |
| 96 |
|
o Adding new verification experiment global_with_exf. |
| 97 |
|
This verification experiment is almost identical to the |
| 98 |
|
global_ocean.90x40x15 experiment, except that it uses |
| 99 |
|
the exf (and cal) package instead of the |
| 100 |
|
external_fields_load routine (cf README file). |
| 101 |
|
|
| 102 |
|
release1_p6 |
| 103 |
|
o fixed the verification/global_ocean.90x40x15 experiment: |
| 104 |
|
- new bathymetry (the world according to A., JMC, and M.) |
| 105 |
|
- new initial fields and forcing fields (*.bin files) |
| 106 |
|
- new POLY3.COEFFS (for the next release one should switch to a full |
| 107 |
|
equation of state) |
| 108 |
|
- fixed several errors and redundancies in the data file |
| 109 |
|
- experiment uses looped cells |
| 110 |
|
- added matlab directory with diagnostic scripts for plotting of output |
| 111 |
|
|
| 112 |
|
release1_p5 |
| 113 |
|
o import recent fix from MAIN branch: |
| 114 |
|
- use recip_dx*,recip_dy* instead of /dx*,/dy* in orlanski_E,W,N,S |
| 115 |
|
- change phiMin in exp1 (to agree with documentation) |
| 116 |
|
from checkpoint45 to checkpoint45a_post: |
| 117 |
|
- specific exchange for X-slice domain (case Ny=1) |
| 118 |
|
- argument futureIter of S/R obcs_calc missing in |
| 119 |
|
exp4 & internal_wave /code |
| 120 |
|
- solve_for_pressure : set cg2d_x to zero where OBCS are applied |
| 121 |
|
from checkpoint44f_post to checkpoint44g_post: |
| 122 |
|
- fix surface correction term in multiDimAdvection |
| 123 |
|
(affects plume_on_slope results |
| 124 |
|
o bug fix in packages_readparms (missing ALLOW_CALENDAR) |
| 125 |
|
o bug fix in CG2D.h (correct array size for LETS_MAKE_JAM |
| 126 |
|
o Adjoint-related bug fixes in kpp: |
| 127 |
|
- kpp_calc: sore of kpphbl avoids recomputation/call to S/R kppmix |
| 128 |
|
- kpp_routines: store of Rib avoids partial recomputation bug of TAF. |
| 129 |
|
o added Eliassen-Palm flux hooks (dynamics,ini_fields) |
| 130 |
|
o removed unused TAF keys iikey, idkey (dynamics,thermodynamics) |
| 131 |
|
o flow directives: |
| 132 |
|
- new for S/R do_the_model_io |
| 133 |
|
- enhanced for S/R checkpoint |
| 134 |
|
o added Eliassen Palm flux controls to gradient check package |
| 135 |
|
o new ctrl package |
| 136 |
|
- adopted from ECCO environment to enable optimization |
| 137 |
|
- added Eliassen Palm fluxes to controls |
| 138 |
|
- adjusted global_ocean.90x40x15/ and carbon/ accordingly |
| 139 |
|
|
| 140 |
|
release1_p4 |
| 141 |
|
o Removed f90 comments ("!") |
| 142 |
|
o Modified initialisations to enable exf package for MITgcm |
| 143 |
|
(without invoking ECCO_PACKAGE). |
| 144 |
|
o modifications to gradient check package (Martin Losch) |
| 145 |
|
- enable centered differences |
| 146 |
|
- modified format of standard output |
| 147 |
|
|
| 148 |
|
release1_p3 |
| 149 |
|
o added tangent linear setup to verification/carbon/ |
| 150 |
|
o added adjoint sensitivity setup to verification/global_ocean... |
| 151 |
|
o moved packages_init_variables before convective_adjustment |
| 152 |
|
o output of verif. which use GMRedi brought up-to-date with |
| 153 |
|
MAIN trunk (those were re-created after changes in GMRedi) |
| 154 |
|
o included CPP option SINGLE_LAYER_MODE |
| 155 |
|
to configure barotropic setup (Martin Losch). |
| 156 |
|
o Removed auxiliary variable in impldiff |
| 157 |
|
(caused numerical differences with MAIN trunk routine). |
| 158 |
|
o Introduced CPP option ALLOW_AUTODIFF_MONITOR to |
| 159 |
|
disable adcommon.h/g_common.h by default. |
| 160 |
|
o Cleaned exchange calls in cg2d. |
| 161 |
|
|
| 162 |
|
release1_p2 |
| 163 |
|
o fixed array boundary problem for adjoint |
| 164 |
|
(related to partial recomputation within subroutine |
| 165 |
|
related to dynamics -> calc_viscosity -> mom_... |
| 166 |
|
o fixed recomputation in thermodynamics |
| 167 |
|
o prepare (but not complete) recomputation problem in impldiff |
| 168 |
|
o fixed problem for adjoint of global_max |
| 169 |
|
o switched off sponge layer code in external_forcing |
| 170 |
|
|
| 171 |
|
release1_p1 |
| 172 |
|
o merged necessary patches: |
| 173 |
|
- AD-related changes for GMRedi |
| 174 |
|
- fixes i KPP (delZ -> drF) |
| 175 |
|
- hook to OBCS songe layer code in external_forcing |
| 176 |
|
- errorMessageUnit non-zero in eeboot.F |
| 177 |
|
- modified test cost function and carbon verif. |
| 178 |
|
|
| 179 |
|
release1_chkpt44d_post = chkpt44d_post |
| 180 |
|
|
| 181 |
|
chkpt44d_pre,post |
| 182 |
|
o added missing EXCLUDE_MONITOR flags |
| 183 |
|
o changed "e" to "_d" in gmredi_slope_limit, gmredi_slope_psi |
| 184 |
|
(incompatible typ in MIN/MAX expressions caused problems |
| 185 |
|
on IBM SP3) |
| 186 |
|
o in genmake added variable MAKEDEPEND |
| 187 |
|
plus resetting for case SunOS |
| 188 |
|
o added timer_stats.c routine for IBM SP3 |
| 189 |
|
o removed variables in dynamics |
| 190 |
|
|
| 191 |
|
o real fresh water flux implemented with non-linear free-surface. |
| 192 |
|
|
| 193 |
|
chkpt44c_pre,post |
| 194 |
|
o few fix (mask in shap_s2, EmPmR in external_field_load, |
| 195 |
|
USE_NATURAL_BCS in solve_for_P); |
| 196 |
|
o add arguments myIter & myTime to S/R obcs_calc & solve_for_P |
| 197 |
|
|
| 198 |
|
checkpoint44b_pre/_post |
| 199 |
|
o merge of relevant stuff from the ecco-branch: |
| 200 |
|
- genmake: removed $S64 overwrite for case SunOS |
| 201 |
|
- pkg/exf: update and corrections for field swapping and obcs |
| 202 |
|
- pkg/ecco: parameter lists for the_model_main, the_main_loop |
| 203 |
|
harmonized between ECCO and MITgcm |
| 204 |
|
- pkg/autodiff: added flow directives for obcs, mdsio_gl_slice |
| 205 |
|
updated checkpointing_lev... lists for obcs |
| 206 |
|
- model/src: minor changes in forward_step, plot_field |
| 207 |
|
added directive for divided adjoint in the_main_loop |
| 208 |
|
- pkg/mdsio: added mdsio_gl_slice |
| 209 |
|
|
| 210 |
|
o check parameters & config (chkpt44a_pre,post) |
| 211 |
|
o OBC and NonLin_FrSurf. |
| 212 |
|
|
| 213 |
|
checkpoint44 |
| 214 |
|
o fix bug in mom_vi_del2uv |
| 215 |
|
o select when filters are applied ; add options to zonal_filter (data.zonfilt) |
| 216 |
|
o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection) |
| 217 |
|
o update AIM experiments (NCEP input files) |
| 218 |
|
o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf) |
| 219 |
|
o added some stuff for AD |
| 220 |
|
|
| 221 |
|
checkpoint43 |
| 222 |
|
o added two new advection tests |
| 223 |
|
o added global 4x4 degree ocean test |
| 224 |
|
o added test of H&S94 with free surface on cube |
| 225 |
|
o some final mods for gradient check, adjoint,... |
| 226 |
|
|
| 227 |
|
checkpoint42 |
| 228 |
|
Fixed AD-related problems: |
| 229 |
|
o Store directives up-to-date with re-arranged Adams-Bashforth |
| 230 |
|
(mainly thermodynamics.F) |
| 231 |
|
o New store directives for multi-dim. advection schemes |
| 232 |
|
* new CPP flag ALLOW_MULTI_DIM_ADVECTION |
| 233 |
|
* new common block and key passkey |
| 234 |
|
(mainly gad_advection.F) |
| 235 |
|
o Modified store directives for split of dynamics/thermodynamics |
| 236 |
|
for the case ALLOW_KPP |
| 237 |
|
o Cleaned argument list for timestep_tracer.F |
| 238 |
|
|
| 239 |
|
checkpoint41 |
| 240 |
|
o re-formatted/added comments in prologues of key subroutines |
| 241 |
|
to work with protex |
| 242 |
|
|
| 243 |
|
checkpoint40 |
| 244 |
|
o moved calc_gs, calc_gt and calc_tr1 back to model/src |
| 245 |
|
o added FLT (floats) package from Arne along with demo. experiment |
| 246 |
|
o re-arranged Adams-Bashforth scheme for tracers to allow easier |
| 247 |
|
implementation of forward-in-time forcing terms |
| 248 |
|
o more mods for non-linear free-surface including new variable |
| 249 |
|
o modified multi-dim method to work on cube |
| 250 |
|
o bug fix in KPP (from DM) |
| 251 |
|
|
| 252 |
|
checkpoint40pre9 |
| 253 |
|
o added DST advection schemes |
| 254 |
|
o fix MPI bug on SGI's |
| 255 |
|
o modifications for non-linear free-surface |
| 256 |
|
o fixed conditionals for fixed flow/passive tracer only mode |
| 257 |
|
o added tension/strain form of stress tensor |
| 258 |
|
o changes to commenting of arguments for TAF/TAMC |
| 259 |
|
o added/updated many matlab scripts |
| 260 |
|
o added multi-dimensional advection method for tracers |
| 261 |
|
|
| 262 |
|
checkpoint40pre8 |
| 263 |
|
o new package rw/ |
| 264 |
|
Added method for dumping intermediate local arrays: |
| 265 |
|
mdsio_writetile - same as mdsio_writefield except works from inside |
| 266 |
|
bi,bj loop |
| 267 |
|
mdsio_writelocal - same as mdsio_writetile except works for local |
| 268 |
|
arrays |
| 269 |
|
write_local_r? - higher-level wrapper for mdsio_writelocal |
| 270 |
|
Controlled by diagFreq. Defaults to zero (ie. no dumps) |
| 271 |
|
Example given at end of mom_vecinv.F that dumps some local arrays. |
| 272 |
|
o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to |
| 273 |
|
control flux-form versus vector invariant code. |
| 274 |
|
Switch is runtime flag vectorInvariantMomentum (defaults to false) |
| 275 |
|
or genmake -DISABLE ... |
| 276 |
|
o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F |
| 277 |
|
(additional storing is now needed for case vecinv; |
| 278 |
|
currently nothing implemented to switch this storing off |
| 279 |
|
in case fluxform is used since no CPP flag available). |
| 280 |
|
|
| 281 |
|
checkpoint40pre7 |
| 282 |
|
o bug fix in dynamics.F |
| 283 |
|
calc_viscosity called before k=1,Nr loop. |
| 284 |
|
o added some #ifdef's ALLOW_PASSIVE_TRACER |
| 285 |
|
o cleaned initialisations in ctrl_map_ini |
| 286 |
|
related to TAF |
| 287 |
|
|
| 288 |
|
checkpoint40pre6 |
| 289 |
|
o split dynamics into thermodynamics & dynamics |
| 290 |
|
o corresponding split of calc_diffusivity into |
| 291 |
|
calc_diffusivity, calc_viscosity |
| 292 |
|
(kpp_calc_diff, kpp_calc_visc). |
| 293 |
|
o Added diffkr, kapgm to control variables |
| 294 |
|
o bug fix in gmredi_slope_limit for ldd97 |
| 295 |
|
|
| 296 |
|
checkpoint40pre5 |
| 297 |
|
o proper initialization of Adams-Bashforth time stepping |
| 298 |
|
+ uses forward step for very first step of model (iter=0) |
| 299 |
|
o re-generated *all* output since almost all output is modified by this |
| 300 |
|
change (sorry but we've been putting this one off for about 2 years) |
| 301 |
|
+ natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were |
| 302 |
|
*not* regenerated since they are already out of date and I don't |
| 303 |
|
want to create the impression that they are suddenly working. |
| 304 |
|
o removed KAP stuff for DEC's |
| 305 |
|
o modified/added many .cvsignore files in */code and */input |
| 306 |
|
o added new expt "solid-body.cs-32x32x1" |
| 307 |
|
+ this uses an alternative form of ini_curvilinear_grid.F which |
| 308 |
|
is not necessarily any better than the current one... |
| 309 |
|
|
| 310 |
|
checkpoint40pre4 |
| 311 |
|
o added re-initialisations of utrans,vtrans,rtrans in |
| 312 |
|
calc_common_factors which are crucial for TAF. |
| 313 |
|
o extended iMin,jMin range for calc_common_factors, |
| 314 |
|
calc_diffusivity |
| 315 |
|
o added option ALLOW_PASSIVE_TRACER |
| 316 |
|
o a few minor updates and fixes |
| 317 |
|
|
| 318 |
|
checkpoint40pre3 |
| 319 |
|
o created calc_gtr1.F for gad package |
| 320 |
|
o split the_main_loop and re-introduced forward_step |
| 321 |
|
o some recomputations of nIter0 for TAMC |
| 322 |
|
|
| 323 |
|
checkpoint40pre2 |
| 324 |
|
o Updated to latest branch of AJA, JMC |
| 325 |
|
o Added gradient check package |
| 326 |
|
o Added routines for passive tracer handling |
| 327 |
|
o Added carbon sequestration sensitivity experiment |
| 328 |
|
|
| 329 |
|
checkpoint39 |
| 330 |
|
o Modifications and fixes to support TAMC |
| 331 |
|
(mainly missing or wrong directives) |
| 332 |
|
o Corrected common blocks when fooling TAMC to produce adjoint I/O |
| 333 |
|
in addummy_in_stepping |
| 334 |
|
o Updated verification/vero/ (bug fixes in code/, correct pickups in input/) |
| 335 |
|
o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs. |
| 336 |
|
o Included following packages: |
| 337 |
|
cal: calendar |
| 338 |
|
exf: external forcing |
| 339 |
|
ecco: essential routines to control use of cal, exf |
| 340 |
|
(NB: this is not the full ECCO environment) |
| 341 |
|
o disabled some packages by default in genmake |
| 342 |
|
|
| 343 |
|
checkpoint38 |
| 344 |
|
o see notes_c37_adj.txt |
| 345 |
|
o corrected wrong layer index in external_forcing_t |
| 346 |
|
o replaced the_main_loop/forward_step by the_main_loop |
| 347 |
|
o removed forceoutput from write_state |
| 348 |
|
(replaced criteria for initial/final state) |
| 349 |
|
o added runtime flag for pre-C35 pickups: usePickupBeforeC35 |
| 350 |
|
|
| 351 |
|
checkpoint37 |
| 352 |
|
o mdsio.F routine split and packaged in pkg/mdsio |
| 353 |
|
(mdsio.F and mdsio_gl.F still exist in eesupp/src but are not |
| 354 |
|
used unless genmake -disable=mdsio) |
| 355 |
|
o allow a more precise surface-geopotential gradient for the atmosphere |
| 356 |
|
taking into account the change in space of Alpha (=1/rho) at the surface. |
| 357 |
|
o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit] |
| 358 |
|
(ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa]) |
| 359 |
|
o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and |
| 360 |
|
Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential |
| 361 |
|
[m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere). |
| 362 |
|
o Time-Average diagnostics defined as a pseudo package "timeave". |
| 363 |
|
o pickup files : old pickup (before c35) did not work with new code (c35 |
| 364 |
|
and after) unless activating 2 commented lines in initialise-varia. |
| 365 |
|
o Non-Hydrostatic pickup file Pb fixed. |
| 366 |
|
o bug with Rigid-lid version (since c35) fixed. |
| 367 |
|
|
| 368 |
|
checkpoint36 |
| 369 |
|
o implement Crank-Nickelson barotropic time-stepping |
| 370 |
|
o recover Time-Average diagnostics |
| 371 |
|
o fix Pb in checkpoint (PR#19) |
| 372 |
|
o AIM become a standard package ; clean unused CPP_kees |
| 373 |
|
|
| 374 |
|
checkpoint35 |
| 375 |
|
o subtantial rewrite of dynamics.f |
| 376 |
|
o allows staggered time-stepping |
| 377 |
|
o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt |
| 378 |
|
o added bottom drag (linear + quadratic) |
| 379 |
|
|
| 380 |
checkpoint34 |
checkpoint34 |
| 381 |
o Modified exchange routines for correct reverse simulation. |
o Modified exchange routines for correct reverse simulation. |
| 382 |
o Added verification output to comply with bug fix in impldiff.F |
o Added verification output to comply with bug fix in impldiff.F |
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