4 |
Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
5 |
============================== |
============================== |
6 |
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|
7 |
o pkg/exf: added CPP option EXF_SUBTRACT_UVVEL_FROM_UVWIND for subtracting |
o pkg/mdsio & rw: |
8 |
UVEL and VVEL from UWIND and VWIND prior to applying bulk formulae. |
- add argument & option to S/R MDS_WRITEVEC_LOC (avoid Open/Close & write-meta) |
9 |
|
- add simple interface S/R to MDS_WRITEVEC_LOC in pkg/rw: WRITE_GLVEC_RX. |
10 |
|
o pkg/flt: |
11 |
|
- replace FLT_INIT by 3-steps standard initialization S/R: readparms, |
12 |
|
init_fixed & ini_varia. |
13 |
|
- clean-up & simplify linear interpolation S/R: |
14 |
|
move flt_bilinear.F -> flt_interp_linear.F ; add arg. myThid. |
15 |
|
- fix some indices (mainly vertical index) ; add IMPLICIT NONE. |
16 |
|
- more efficient I/O, using new options of MDS_WRITEVEC_LOC S/R. |
17 |
|
o pkg/ggl90: a few modifications: |
18 |
|
- fix bottom boundary condition, and interpolation of KappaE |
19 |
|
near top and bottom |
20 |
|
- use same set of viscosity/diffusivity for TKE/momnetum/tracer |
21 |
|
- add smoothing option as in Blanke and Delecluse (1993) (--> ALLOW_GGL90_SMOOTH) |
22 |
|
- add a few options for mixing-length upper limit (--> mxlMaxFlag) |
23 |
|
o rename thetaMin,phiMin -> xgOrigin,ygOrigin |
24 |
|
(maintain temporary backward compatibility, until next checkpoint) |
25 |
|
|
26 |
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checkpoint61h |
27 |
|
o pkg/diagnostics with "periodic averaging diagnostics": |
28 |
|
fix S/R DIAGNOSTICS_COUNT ; hack diagnostics_out.F to get NetCDF output. |
29 |
|
o pkg/my82: add missing "_d 0" ; update output of exp. vermix.my82 |
30 |
|
o pkg/obcs: fix loop ranges for balancing code |
31 |
|
o pkg/flt: |
32 |
|
- improve criteria for finding which tile owns a float. |
33 |
|
- fix FLT_EXCH for case without MPI ; apply cyclic BC + fix also the MPI case. |
34 |
|
o Add well-mixed CO2 box in aim_v23 (which includes changes in pkg |
35 |
|
aim_compon_interf, ocn_compon_interf, gchem, and dic to get coupling |
36 |
|
with ocean biogeo) |
37 |
|
o pkg/flt: |
38 |
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- do some cleaning and fix the restart ; |
39 |
|
- add output.txt in flt_example/results to get this pkg tested. |
40 |
|
o genmake2: add an EXTENDED_SRC option and flag. |
41 |
|
for now, cannot be turned on on command line (only through genmake_local) |
42 |
|
o pkg/mdsio: read/write vector: |
43 |
|
- singleCpuIO: fix RL/RS in MDSWRITEVECTOR by calling new S/R MDS_BUFFERtoRL/RS |
44 |
|
- singleCpuIO=F: fix arrType & filePrec & _BYTESWAPIO in both MDSREADVECTOR |
45 |
|
& MDSWRITEVECTOR by calling new S/R MDS_RD/WR_VEC_RL/RS. |
46 |
|
- affects gradient of test-exp "bottom_ctrl_5x5" (not due to _BYTESWAPIO) |
47 |
|
(drop to 4 digits matching for grad). But this test does not look very |
48 |
|
reliable (was already failling on eddy, fc5, at 6.digits). Update output. |
49 |
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|
50 |
|
checkpoint61g |
51 |
|
o pkg/flt: |
52 |
|
- move FLT_CPPOPTIONS.h to FLT_OPTIONS.h (standard name) |
53 |
|
+ make OPTIONS file more standard. |
54 |
|
- rename S/R MDSREADVECTOR_FLT to FLT_MDSREADVECTOR (to mach src file name) |
55 |
|
- fix _BYTESWAPIO CPP-Flag |
56 |
|
- standard reading of file-parameter "data.flt" |
57 |
|
- fix argument list of S/R FLT_RESTART |
58 |
|
still need to fix _BYTESWAPIO in pkg/mdsio/mdsio_writevector.F |
59 |
|
o pkg/obcs: fix a CPP-flag, bug reported by Jeff Blundell |
60 |
|
o gather_2d.F/scatter_2d.F: suppress vectorisation on NEC SX in respond to |
61 |
|
a still unfixed compiler/optimization bug |
62 |
|
|
63 |
|
checkpoint61f |
64 |
|
o pkg/seaice, LSR solver: fix bug in GLOBAL_MAX calls ; |
65 |
|
update results of global_ocean.cs32x15.icedyn test. |
66 |
|
o move getcon.F from model/src to pkg/fizhi. |
67 |
|
o pkg/exf: add parameter for extrapolation of temp up to the surface |
68 |
|
and option to prevent negative evap (in bulk_largeyeager04 only). |
69 |
|
o Prather Advection scheme: fix tracer conservation for divergent flow |
70 |
|
(e.g., when using NonLin Free-Surface). |
71 |
|
o kpp: retire KPPmld diagnostics --> use MXLDEPTH instead |
72 |
|
o gmredi (Visbeck-variable-K): |
73 |
|
- add more parameters to Visbeck-variable-K. |
74 |
|
- use a 5 points average for dSigmaR in Visbeck-K calculation |
75 |
|
(more "homogenous": same stencil and same weights as in dSigmaH) |
76 |
|
- update output of ideal_2D_oce experiment. |
77 |
|
o fix CPP-flag REAL4_IS_SLOW, when _RS expands into real*4 |
78 |
|
(#undef REAL4_IS_SLOW) |
79 |
|
- pkg/mnc/mnc_cw_cvars.F: write _RS-grid variable as netcdf-real*4 |
80 |
|
coordinate variable |
81 |
|
- pkg/monitor/monitor.F: call mon_printstats_rs for _RS variables |
82 |
|
(surface forcing fields), removes some of the functionality |
83 |
|
- model/src/write_grid.F: write _RS variables as RS-netcdf variables |
84 |
|
- model/src/diags_oceanic_surf_flux.F: fix a few diagnostics, but |
85 |
|
probably not all: copy _RS surface flux fields to RL field before |
86 |
|
calling DIAGNOSTICS_FILL |
87 |
|
- model/inc/CPP_EEMACROS.h: make the _EXCH_*_RS macros expand into |
88 |
|
real*4 (CALL EXCH_*_RS) versions. |
89 |
|
- tested in 2 experiments: inverted_barometer & solid-body.cs-32x32x1 |
90 |
|
(generate new output). |
91 |
|
|
92 |
|
checkpoint61e |
93 |
|
o gmredi (Visbeck-variable-K): |
94 |
|
- fix the "OLD_VISBECK_CALC" option + move the #undef to GMREDI_OPTIONS.h |
95 |
|
- change computation of Visbeck-K where Slope > Smax : |
96 |
|
now: N*min(Slope,Smax) (similar to OLD_VISBECK_CALC with gkw91 taperFct) |
97 |
|
previously was: M*sqrt(min(Slope,Smax)) ; update ideal_2D_oce output. |
98 |
|
o bottom-drag in P-coord.: change units of bottomDragLinear & bottomDragQuadratic |
99 |
|
to be the same as with Z-coord. (i.e., m/s & no-units respectively). |
100 |
|
o calc_viscosity: fix index range (was wrong for CD-Scheme & explicit Visc) |
101 |
|
o pkg gmredi, linear & fm07 tapering: put an upper limit on Slope^2 so that Kwz |
102 |
|
does not become too large (to avoid precision problems in implicit-diffusion |
103 |
|
solver); update ideal_2D_oce output. |
104 |
|
o pkg ggl90: |
105 |
|
- in ggl90_cal.F: compute only one set of visc/diff, used to |
106 |
|
step forward TKE/T/S/momentum |
107 |
|
- default value of GGL90viscMax/GGL90diffMax larger and equal (to |
108 |
|
have Prandlt =1) |
109 |
|
o gmredi (fm07): |
110 |
|
- add lower limit on Transition layer thickness + lower limit on 1/lambda |
111 |
|
- allow to set few more params from data.gmredi |
112 |
|
o pkg ggl90: |
113 |
|
- add missing sqrt(2) factor in computation of mixing length |
114 |
|
scale in ggl90_calc.F |
115 |
|
(see Eq. (2.35) in Blanke and Delecluse, JPO, 1993) |
116 |
|
|
117 |
|
checkpoint61d |
118 |
|
o adjoint modifs |
119 |
|
- adapt to new field rhoInSitu |
120 |
|
- allow to revert from StoreDynVars2D, StoreDynVars3D |
121 |
|
to individual fields |
122 |
|
(switches AUTODIFF_USE_OLDSTORE_2D, AUTODIFF_USE_OLDSTORE_3D) |
123 |
|
o store 3-D (in-situ) density in commom block (DYNVARS.h) |
124 |
|
- save 1 rho computation. |
125 |
|
- no longer modify T & S inland when using down_slope pkg. |
126 |
|
o gad_som : allow to switch to SOM advection for T & S without corresponding |
127 |
|
pickup files (using new S/R: MDS_CHECK4FILE). |
128 |
|
o keep removing _BEGIN/_END_MASTER between MDSIO S/R call |
129 |
|
(for useSingleCpuIO to work in multi-threaded) |
130 |
|
o pkg/shelfice: |
131 |
|
- disentangle parameters: retire shelfIceFile in data/PARM05 and substitute |
132 |
|
with SHELFICEtopoFile in data.shelfice |
133 |
|
- move code for reading ice shelf topography and modifying hFacC into separate |
134 |
|
subroutines of the shelfice package |
135 |
|
- separate initialisation of "fixed" and "variable" variables |
136 |
|
- kTopC is not (yet) replaced by kSurfC, although this is possible |
137 |
|
o fix broken diagnostic SIatmFW and changed the units from m/s to kg/m^2/s |
138 |
|
o add initialisation of deepFac if using Pcoords (new S/R set_grid_factors) |
139 |
|
and rename: |
140 |
|
ini_phiref.F --> set_ref_state.F (+ set anelastic factors) |
141 |
|
ini_reference_state.F --> load_ref_files.F (- set anelastic factors) |
142 |
|
o change FIND_RHO_SCALAR : return rho (instead of rho - rhoConst) |
143 |
|
|
144 |
|
checkpoint61c |
145 |
|
o add option ALLOW_ADDFLUID and run-time selector "selectAddFluid" |
146 |
|
to add mass source/sink of fluid in the interior (3-D generalisation |
147 |
|
of oceanic real-fresh water flux). |
148 |
|
o pkg/monitor: fix recip_dr argument in mon_advcflw2 call (-> advcfl_W_hf_max) |
149 |
|
o vermix test experiment: switch from LINEAR EOS to MDJWF (not tested before) |
150 |
|
o new pkg: down_slope |
151 |
|
density-driven downsloping flow parameterisation (Tellus, 1999, 412-430). |
152 |
|
- presently, modify T & S inland (dwnslp_calc_rho.F). |
153 |
|
can be avoided if rho was stored in common bloc and used in calc_phi_hyd. |
154 |
|
- implementation for ocean in P-coords not tested. |
155 |
|
- add secondary test to global_ocean.90x40x15 (input.dwnslp) to check this pkg. |
156 |
|
o move kSurfC,kSurfW & kSurfS from SURFACE.h to GRID.h (next to kLowC) |
157 |
|
(to facilitate conversion of oceanic pkg to p-coordinate). |
158 |
|
o change FIND_RHO to FIND_RHO_2D : |
159 |
|
pass arguments tFld & sFld as local (tile) 2D-arrays ; +fix EOS_CHECK. |
160 |
|
o new pkg: cheapaml |
161 |
|
|
162 |
|
checkpoint61b |
163 |
|
o exch2: |
164 |
|
change index bounds in rx2_cube exchanges (new S/R: EXCH2_GET_UV_BOUNDS) |
165 |
|
- no longer depend on the order sequence (N,S,E,W). |
166 |
|
- 3rd exchange no longer needed (tested with 24 tiles). |
167 |
|
- same modif to hand-written adjoint S/R (global_ocean.cs32x15: zero diff) |
168 |
|
- exch_UV_A-grid readily available (but not yet tested). |
169 |
|
comment out 3rd exch call and remove copy of V to U at SE & NE face-corners |
170 |
|
(both are no longer needed) in exch_uv: no effect in forward run; but |
171 |
|
get truncation error differences with adjoint exch. |
172 |
|
o exch2: |
173 |
|
- change index-bounds storage (moved from target to local tile, |
174 |
|
more intuitive this way) ; rename/remove some variables. |
175 |
|
- change utils/exch2/matlab-topology-generator & code_mods accordingly. |
176 |
|
|
177 |
|
checkpoint61a |
178 |
|
o exch2/matlab-topology-generator: |
179 |
|
fix bug in index bounds for N-S internal exchange (hard to tell if this |
180 |
|
had any effect on the solution). |
181 |
|
o pkg/mnc: small fix in mnc_handle_err: make sure that length of msgbuf |
182 |
|
is exceeded |
183 |
|
o testreport: modify syntax of awk, so that it works also with |
184 |
|
awk, and not only with nawk and gawk |
185 |
|
|
186 |
|
checkpoint61 |
187 |
|
o autodiff |
188 |
|
Change default for TAF usage by removing argument '-nonew_arg' |
189 |
|
This changes TAF subroutine argument list (ordering of active var.) |
190 |
|
Omission of this flag leads to incompatibility w.r.t. TAMC |
191 |
|
To restore TAMC-compatibility, need following modifs: |
192 |
|
* use adoptfile tools/adjoint_options/adjoint_tamc_compatibility |
193 |
|
* use CPP option #define AUTODIFF_TAMC_COMPATIBILITY |
194 |
|
Tested TAF version is 1.9.22 |
195 |
|
N.B.: exch2 hand-written adjoint code currently not TAMC compatible |
196 |
|
|
197 |
|
checkpoint60 |
198 |
|
--->>> This is the last checkpoint for which generating the adjoint |
199 |
|
--->>> is done via the TAMC-compatibility TAF-flag "-nonewarg" |
200 |
|
--->>> by default. |
201 |
|
--->>> Future checkpoints will ommit this flag by default. |
202 |
|
o pkg/generic_advdiff, os7mp: simplify and avoid division by zero. |
203 |
|
o pkg/grdchk: Add gradient check to etan0 perturbations. |
204 |
|
o pkg/exf: read ice area from file (#ifdef ALLOW_ICE_AREAMASK). |
205 |
|
o pkg/autodiff: more flexibility in zeroadj. |
206 |
|
model/src: modifying do_oceanic_phys.F accordingly. |
207 |
|
o pkg/ctrl: Bounds for (kapgm,kapredi,eddypsi) parameter estimation. |
208 |
|
o model/src and pkg/gmredi: GMREDI_WITH_STABLE_ADJOINT CPP option |
209 |
|
special setup of gmredi for which the adjoint is stable |
210 |
|
enough for parameter optimization. |
211 |
|
o bridging the gap between eddy stress and GM. |
212 |
|
-> eddyTau is replaced with eddyPsi (eddyTau = f x rho0 x eddyPsi) |
213 |
|
along with a change in CPP option (now ALLOW_EDDYPSI). |
214 |
|
-> when using GM w/ GM_AdvForm: |
215 |
|
The total eddy streamfunction (Psi = eddyPsi + K x Slope) |
216 |
|
is applied either in the tracer Eq. or in momentum Eq. |
217 |
|
depending on data.gmredi (intro. GM_InMomAsStress). |
218 |
|
-> ALLOW_EDDYPSI_CONTROL for estimation purpose. |
219 |
|
The key modifications are in model/src/taueddy_external_forcing.F |
220 |
|
pkg/gmredi/gmredi_calc_*F pkg/gmredi/gmredi_*transport.F |
221 |
|
|
222 |
|
checkpoint59r |
223 |
|
o new S/R (pkg/mdsio/mdsio_facef_read.F) reading of sNx+1 x sNy+1 array |
224 |
|
from per-face file (take S/R READSYMTILE_RS out of ini_curvilinear_grid.F); |
225 |
|
fix option to read coriolis(@ cell-corner) from files with CS-grid. |
226 |
|
o pkg/mnc: add some attributes to standard 1D-coordinate variables |
227 |
|
o pkg/diagnostics: enforce missing_value attribute for scalar variables at |
228 |
|
mass points, when using mnc for output |
229 |
|
- add runtime parameter (missing_value, missing_value_int) to override |
230 |
|
default (which is the value of getcon('UNDEF')) |
231 |
|
o pkg/mnc: prepare mnc for the actual use of missing values with the |
232 |
|
diagnostics package: small fix in mnc_cw_readwrite.template and more |
233 |
|
initialisation of never used fields |
234 |
|
- replace mnc_common.h and mnc_id_header.h with corresponding upper case |
235 |
|
versions |
236 |
|
o pkg/thsice/thsice_ini_vars.F added default initial values so that |
237 |
|
thermodynamics sea ice solver does not blow up when some initial fields |
238 |
|
are missing. |
239 |
|
o move from external_forcing_surf.F to ini_forcing.F |
240 |
|
the p-coord. hack consisting in using pLoad to set phi0surf ; |
241 |
|
update output of tutorial_global_oce_in_p (affected @ truncation level). |
242 |
|
o Freshen up a bit hs94.1x64x5, notably: |
243 |
|
remove rotationPeriod and tRef=5*0. (adjoint only), and add |
244 |
|
exactConserv=.TRUE. |
245 |
|
o pkg/generic_advdiff: |
246 |
|
change option GAD_ALLOW_SOM_ADVECT to GAD_ALLOW_TS_SOM_ADV which only |
247 |
|
applies to files where Temperature & Salinity 2nd Order moments are used. |
248 |
|
o pkg/ptracers: add second-order moment advection schemes (80 and 81); |
249 |
|
this uses a dynamically allocated internal state data structure |
250 |
|
(#define PTRACERS_ALLOW_DYN_STATE in PTRACERS_OPTIONS.h) |
251 |
|
and requires a fortran 90 compiler |
252 |
|
|
253 |
|
checkpoint59q |
254 |
|
o pkg/mom_vecinv: Add energy & enstrophy conserving scheme (selectVortScheme=3) |
255 |
|
(from Sadourny, described by Burridge & Haseler, ECMWF Rep.4, 1977) |
256 |
|
o Refresh tutorial_global_oce_biogeo, notably: |
257 |
|
- change bathymetry (put back seamounts in ACC, use hFacs) |
258 |
|
- change EOS (POLY3 --> JMD95Z) |
259 |
|
- use Bryan-Lewis vertical diffusivity |
260 |
|
- use multidimensional advection |
261 |
|
- remove old virtual virtual in dic pkg, now done through ptracer pkg |
262 |
|
- change a couple of parameters in dic pkg |
263 |
|
o pkg/ctrl: change formula in adctrl_bound.F and add a parameter to ctrl_map_ini_gen.F |
264 |
|
o pkg/obcs: change default to OBCSfixTopo = .true., |
265 |
|
- set OBCSfixTopo=.false. in exp4/input/data.obcs to reproduce old result |
266 |
|
- replace "debugMode" with "debugLevel .GE. debLevB" |
267 |
|
o implementation of TAF directives for gchem,cfc,dic |
268 |
|
o remove "exp5" (replaced by tutorial_deep_convection). |
269 |
|
o pkg/obcs: add code to fix topography gradients normal to open boundaries; |
270 |
|
this requires computing the index fields OB_Jn/Js/Ie/Iw in obcs_readparms; |
271 |
|
the code can be turned on by setting OBCSfixTopo = .true. in data.obcs |
272 |
|
--> changes results in exp4, seaice_obcs |
273 |
|
o tutorial_deep_convection : |
274 |
|
update the set-up and increase resolution and domain size ; start |
275 |
|
from pseudo initial conditions = output at t=120mn in order to see |
276 |
|
something happening when running testreport. |
277 |
|
o pkg/seaice: add os7mp as an advection scheme |
278 |
|
add check for advection schemes |
279 |
|
add a flag for restoring T and S underneath sea ice |
280 |
|
o pkg/my82: add netcdf-support and diagnostics |
281 |
|
o thsice pkg: |
282 |
|
- Now hsMax limits snow height by turning it into ice following |
283 |
|
flooding scheme (and now conserving energy) |
284 |
|
- Slight rewriting of the formula in thsice_calc_thick.F |
285 |
|
- Parameter rhowi eliminated to be replaced by floodFac = (rhosw-rhoi)/rhos |
286 |
|
--> changes results of global_ocean.cs32x15.icedyn and global_ocean.cs32x15.thsice |
287 |
|
|
288 |
|
checkpoint59p |
289 |
|
o gchem / dic / cfc : |
290 |
|
- add useDIC, useCFC , read from "data.gchem" (& hold in GCHEM.h); |
291 |
|
- add new parameter files: "data.dic" & "data.cfc" ; |
292 |
|
- various re-arrangement in initialisation & header file ; |
293 |
|
- fix tutorial_global_oce_biogeo for multi-threaded test. |
294 |
|
o pkg/dic: test for "pickup_dic" file when restarting ; |
295 |
|
if no pickup-file, can restart with a re-initialised pH (same as it did |
296 |
|
before) providing pickupStrictlyMatch is set to False. |
297 |
|
o change argument list of S/R PTRACERS_WRITE_PICKUP & MYPACKAGE_WRITE_PICKUP |
298 |
|
+ fix call to S/R GGL90_WRITE_PICKUP & DIC_WRITE_PICKUP |
299 |
|
o add a "warning" (to Error msg file) when an Active Tracer is not using AB-2 |
300 |
|
and staggerTimeStep is off (needed for stability of Internal-wave dynamics). |
301 |
|
o move out of PARAMS.h & data the last pieces of old-ptracer code: tauTr1ClimRelax, |
302 |
|
& lambdaTr1ClimRelax ; put those 2 params in PTRACERS_PARAMS.h & data.ptracers |
303 |
|
(note: not clear to me what lambdaTr1ClimRelax is still used for ...) |
304 |
|
o pkg/mom_vecinv: - new parameter "selectVortScheme" to select which |
305 |
|
scheme to use for vorticty-term ; |
306 |
|
- compute upwindVorticity=T case within mom_vi_u/v_coriolis_c4.F |
307 |
|
(with default selectVortScheme, return to original discretisation) |
308 |
|
- remove weird combination (e.g.: upwindVorticity & highOrderVorticity) |
309 |
|
o pkg/seaice: add a line to the summary to indicate grid type (B/C) |
310 |
|
o in mom_calc_visc, fix average value of viscAh_W & viscA4_W next to the |
311 |
|
bottom ; only used with variable horizontal viscosity and non-hydrostatic. |
312 |
|
also fix diagnostics VISCAHW & VISCA4W. |
313 |
|
|
314 |
|
checkpoint59o |
315 |
|
o dome/code/obcs_calc.F: avoid division by zero (detected using gfortran). |
316 |
|
o change the loop ordering in most gad_*_adv_x.F to improve vectorization: |
317 |
|
move a few statemens out the main loop into separate loops |
318 |
|
o pkg/shelfice: |
319 |
|
- sort out freshwater flux; convert freshwater fluxes to mass fluxes |
320 |
|
(kg/m^2/s), does not break tests, because in verification/isomip, |
321 |
|
rhoConstFresh=rhoConst (by accident) |
322 |
|
- rearrange computation of tLoc, sLoc, pLoc to make code more efficient |
323 |
|
- move S/R find_rho_scalar, pkg/ecco/sw_ptmp.F, pkg/ecco/sw_adtg.F into |
324 |
|
new file model/src/seawater.F, so that they are available for all pkgs. |
325 |
|
- convert potential temperature into in-situ temperature. This changes the |
326 |
|
isomip tests => update tests |
327 |
|
o add a flag writePickupAtEnd (default=true) to be able to suppress |
328 |
|
writing a pickup at the last timestep |
329 |
|
o tools/mpack-1.6 : |
330 |
|
- disable automake (not working) and autoconf (not needed). |
331 |
|
- update to version 1.6.4 which fix MD5 code on some 64 bits platforms |
332 |
|
also cleaner with much less compilation warnings. |
333 |
|
o pkg/profiles: |
334 |
|
rename profiles_interp_mean_genericgrid as profiles_interp_mean_gg |
335 |
|
(for "less than 32 characters name" compiler requirement) |
336 |
|
o pkg/obcs and pkg/exf: added capability to specify seaice open boundary |
337 |
|
conditions that have a different sampling frequency than S/T/U/V obcs |
338 |
|
o pkg/diagnostics (stats-diags): |
339 |
|
- fix global Min/Max in case 1 processor get only empty tiles |
340 |
|
o genmake2: replace (4 times) |
341 |
|
make genmake_tc_1.o >> genmake_warnings 2>&1 |
342 |
|
with |
343 |
|
COMM="$CC $CFLAGS -c genmake_tc_1.c" |
344 |
|
echo $COMM >> genmake_warnings |
345 |
|
$COMM >> genmake_warnings 2>&1 |
346 |
|
to make genmake2 always see the value of CC as specified in the optfile. |
347 |
|
o generic_advdiff: - prather advection scheme (SOM) coded for CS-grid. |
348 |
|
- add diagnostics for 1srt & 2nd Order moments and sub-grid variance. |
349 |
|
- modify verification advect_cs test to test SOM-advection on CS-grid. |
350 |
|
o pkg/ctrl: |
351 |
|
- Rewrite of ctrl_map_ini_ecco.F, |
352 |
|
introducing a generic routine (ctrl_map_ini_gen.F). |
353 |
|
- Modification of ctrl_bound/adctrl_bound handling control vector bounds. |
354 |
|
|
355 |
|
checkpoint59n |
356 |
|
o pkg/diagnostics: for large number of diagnostics, store diagnostic mate |
357 |
|
number in dedicate array "hdiag": |
358 |
|
- new version of S/R DIAGNOSTICS_ADD2LIST : DIAGNOSTICS_ADDTOLIST |
359 |
|
with 1 more argument (mate number); modify old version DIAGNOSTICS_ADD2LIST. |
360 |
|
- many small changes (integer format) for large number of diagnostics |
361 |
|
- start to use DIAGNOSTICS_ADDTOLIST (necessary for diagnostics with |
362 |
|
a counter mate) in pkg diagnostics, ptracers, thsice & aim_v23. |
363 |
|
o add parameter rotateGrid and Euler angles EulerPhi/Theta/Psi. For |
364 |
|
usingSphericalGrid, this allows to define the rotated grid coordinates |
365 |
|
via phiMin/thetaMin/dxSpacing/dySpacing, etc., but then re-compute the |
366 |
|
geographical coordinates according to the inverse of the rotation defined |
367 |
|
by the Euler angles, so that Coriolis parameter and online-interpolation by |
368 |
|
exf works with the geographical coordinates on XC/YC/XG/YG. |
369 |
|
Naturally, this feature does not work with all packages, so some |
370 |
|
combinations are prohibited in config_summary (flt, flt_zonal, ecco, |
371 |
|
profiles), because there the coordinates are assumed to be regular |
372 |
|
spherical grid coordinates. |
373 |
|
o pkg/gmredi,ctrl,ecco,autodiff,grdchk and model/src,inc: |
374 |
|
- introduce isopycnal diffusion coefficient control. |
375 |
|
o tools/adjoint_options: |
376 |
|
- additional control vector components. |
377 |
|
o pkg/mnc: have mnc create marginally meaning full coordinate variables |
378 |
|
(that is the grid indices) if usingCurvilinearGrid and NOT EXCH2 |
379 |
|
o pkg/mypackage: |
380 |
|
- add example of read/write pickup for state-var ; |
381 |
|
- add entry points to the main code for state-vars diags & write-pickup. |
382 |
|
o pkg/exf: rewrite of exf_getffieldrec.F to properly deal with year |
383 |
|
transitions for useExfYearlyFields |
384 |
|
- add new subroutine that determines the file to read from for |
385 |
|
use*YearlyFields = .TRUE. and .FALSE. |
386 |
|
- add a verification experiment to global_with_exf that tests |
387 |
|
useExfYearlyFields with USE_EXF_INTERPOLATION defined |
388 |
|
o pkg/obcs/exf: add useOBCSYearlyFields (=.FALSE.) to obcs with exf in |
389 |
|
analogy to useExfYearlyFields; rearrange obcs_prescribe_read: two new |
390 |
|
subroutines (which could be generated from a template, because they are |
391 |
|
almost identical), for now they are included in obcs_prescribe_read.F for |
392 |
|
simplicity |
393 |
|
o pkg/exf: |
394 |
|
- add a little more diagnostic to exf_interp_read (in analogy to |
395 |
|
mds_read_field, can be turned off with debugLevel < debugLevA=1) |
396 |
|
- improve vectorizability of exf_interp for TARGET_NEC_SX, makes code |
397 |
|
ugly but fast by unrolling short inner loops, inserting a unroll=8 |
398 |
|
directive in routine lagran, and splitting a loop and making do while the |
399 |
|
outermost loop (the latter requires the intoduction of index arrays) |
400 |
|
o pkg/obcs: replace obcs_apply_area/heff/hsalt/hsnow with obcs_apply_seaice |
401 |
|
o pkg/seaice: moved DIFFERENT_MULTIPLE from seaice_model to seaice_dynsolver |
402 |
|
http://forge.csail.mit.edu/pipermail/mitgcm-devel/2008-January/003173.html |
403 |
|
o verification/seaice_obcs: updated for restart test and latest options |
404 |
|
o pkg/seaice: add a new flag SEAICEuseTEM to use a slightly different |
405 |
|
ice rheology (so-called truncated ellipse, that gets rid of tensile stress); |
406 |
|
for now this is only available for the C-grid code and also within |
407 |
|
#ifdef SEAICE_ALLOW_TEM, because this option may slow down the EVP code |
408 |
|
|
409 |
|
checkpoint59m |
410 |
|
o pkg/seaice: use different time constant for melting (SEAICE_gamma_t) |
411 |
|
and freezing (SEAICE_gamma_t_frz) ice due to mixed layer temperature |
412 |
|
o gad_som : fix flux output (& diagnostics) to have same units as other |
413 |
|
advection scheme fluxes (was previously multiplied by deltaT). |
414 |
|
o added verification/seaice_obcs both to test seaice open boundaries |
415 |
|
and to provide an example matlab scrpt for generating them |
416 |
|
o added verification/lab_sea/input.salt_plume for testing pkg/salt_plume |
417 |
|
o pkg/salt_plume: clean up salt_plume_frac.F to |
418 |
|
remove redundancy in PlumeMethod 1 and 4 |
419 |
|
o pkg/kpp: added saltplume diagnostics |
420 |
|
o pkg/obcs and pkg/seaice: |
421 |
|
- do not set uice and vice to zero when OB*icefile are unspecified |
422 |
|
- OBCS_SEAICE_AVOID_CONVERGENCE is undefined by default |
423 |
|
- moved seaice tracer obcs after call to seaice_growth |
424 |
|
o pkg/salt_plume: added various options for salt plume depth |
425 |
|
criterion and for vertical distribution of the salt |
426 |
|
|
427 |
|
checkpoint59l |
428 |
|
o pkg/ptracers: new version of ptracers pickup: |
429 |
|
read meta file and write only fields which are needed to restart. |
430 |
|
( same logic as main pickup file ; also using pickupStrictlyMatch ) |
431 |
|
o pkg/seaice: |
432 |
|
- add timescale for melting due to warm mixed layer as a means of |
433 |
|
setting SEAICE_availHeatFrac more conveniently |
434 |
|
- add a CPP-flag/runtime parameter check for flooding algorithm |
435 |
|
- reformulated availHeat in seaice_growth.F to be independent of AREA |
436 |
|
o change units attribute of EmPmR netcdf variables to kg/m^2/s to reflect recent |
437 |
|
unit changes |
438 |
|
o pkg/obcs: added OBCS_SEAICE_AVOID_CONVERGENCE constraint |
439 |
|
o cg2d.F: add 3 compiler directives that speed up this routine by 30% on a NEC |
440 |
|
SX vector computer. |
441 |
|
o pkg/seaice: |
442 |
|
- removed SEAICE_FFIELDS.h and seaice_get_forcing.F |
443 |
|
seaice forcing fields can now be read only through pkg/exf |
444 |
|
- removed some unused halos |
445 |
|
o no longer write pickup from THE_MODEL_MAIN but always from FORWARD_STEP |
446 |
|
o pkg/exf: added useRelativeWind EXF_PARAM.h option for subtracting U/VVEL |
447 |
|
or U/VICE from U/VWIND before computing U/VSTRESS |
448 |
|
|
449 |
checkpoint59k |
checkpoint59k |
450 |
o pkg/seaice: ICE2WATR=SEAICE_rhoIce/rhoConst for consistency between |
o pkg/seaice: ICE2WATR=SEAICE_rhoIce/rhoConst for consistency between |
451 |
dynamics and thermodynamics. Set ICE2WATR=0.92 to reproduce older results. |
dynamics and thermodynamics. Set ICE2WATR=0.92 to reproduce older results. |
452 |
o fix un-initialised variable problem (in mom_vecinv & shap_filt): |
o fix un-initialised variable problem (in mom_vecinv & shap_filt): |
453 |
all experiments pass when compile with un-initilised var. checking option. |
all experiments pass when compile with un-initialised var. checking option. |
454 |
o added pkg/salt_plume |
o added pkg/salt_plume |
455 |
o script to test restart (for now, in MITgcm_contrib/jmc_script) |
o script to test restart (for now, in MITgcm_contrib/jmc_script) |
456 |
o pkg/seaice: new read/write pickup version. |
o pkg/seaice: new read/write pickup version. |