3 |
Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
4 |
============================== |
============================== |
5 |
|
|
6 |
|
o add testreport "-j JOBS" option for parallel builds (tested and pretty |
7 |
|
impressive on Altix and Opteron systems) |
8 |
|
o diagnostics can now write NetCDF files through the mnc package |
9 |
|
o staggerTimeStep & NLFS: update pkg aim_v23 & thsice; update aim.5l_cs output |
10 |
|
o staggerTimeStep & multi-Dim-Advec: Exch(U,V) added |
11 |
|
o staggerTimeStep & NLFS: rescale T & S surface tendencies. |
12 |
|
affects (truncation error) output of lab_sea & natl_box exp.: updated |
13 |
|
o change pickup _cd & _ptracers (old pickup restart: usePickupBeforeC54=.T.) |
14 |
|
|
15 |
|
checkpoint54a_post |
16 |
|
o re-write staggerTimeStep: step fwd U,V and then T,S (reverse the order). |
17 |
|
o change pickup file (to restart from old pickup, set usePickupBeforeC54=.T.) |
18 |
|
o get a perfect restart when using RealFreshWaterFlux + NLFS (not finished) |
19 |
|
o update output of all exp. that use staggerTimeStep (except hs94.cs & 2D) |
20 |
|
+ internal_wave (shift in writing cg2d_ini_res) |
21 |
|
checkpoint54a_pre |
22 |
|
|
23 |
|
o require forcing_In_AB=.FALSE. and remove surfaceTendencyTice from pkg/seaice |
24 |
|
- modified verification/lab_sea and natl_box_adjoint accordingly |
25 |
|
|
26 |
|
checkpoint54 |
27 |
|
checkpoint53g_post |
28 |
|
o prepare splitting of thermodynamics: store convect.counter in common block |
29 |
|
o store d.etaH/dt (instead of Div.hV) in common ; affects (truncation error) |
30 |
|
output of: global_ocean.cs32x15, global_ocean_pressure & internal_wave |
31 |
|
o cnh's modifs to gad_advection.F for cube-sphere multi-dim advection |
32 |
|
o new parameter "nShapS": allow to treat differently S from T (nShapT) |
33 |
|
o separate Vert.Advec.Scheme from horizontal Advec.Scheme (T & S) |
34 |
|
o restore adjointability |
35 |
|
|
36 |
|
checkpoint53f_post |
37 |
|
o modifications that affect AIM experiment results (update output.txt): |
38 |
|
- no advection of S at top interface Nr (pkg/generic_advdiff) |
39 |
|
- air surf. temp: use lower value between T0 & T1 (phy_suflux_prep.F) |
40 |
|
o AIM pkg: |
41 |
|
- include stability function into surf.Flux derivative relative to Tsurf |
42 |
|
- calculate clear-sky radiation & surface temp. change (for diagnostics) |
43 |
|
|
44 |
|
checkpoint53e_post |
45 |
|
o merged cylindrical coord configuration |
46 |
|
o added rotating_tank experiment |
47 |
|
checkpoint53e_pre |
48 |
|
|
49 |
|
checkpoint53d_post |
50 |
|
o faulks upgraded: re-generate output.txt that have changed: |
51 |
|
global_ocean.cs32x15(.thsice), global_ocean_ebm, lab_sea, natl_box |
52 |
|
o Added Bryan and Lewis, 1979, vertical diffusivity profile |
53 |
|
o pkg/land: fix problem in land_impl_temp.F when Ts arround freezing. |
54 |
|
o added Sadourny discretization of Coriolis |
55 |
|
- moved some PARAMETERS from mom_*_coriolis.F to PARAMS.h |
56 |
|
- re-enabled use of omega3 (useAbsVorticity) |
57 |
|
o added Leith (Phys. Fluids, 1968, 10, 1409-1416) variable viscosity for |
58 |
|
vector-invariant equations |
59 |
|
- note: does *NOT* yet use same variable visc. for no-slip BC's. |
60 |
|
o recoded the lateral boundary conditions for non-hydrostatic w, this time |
61 |
|
hopefully without new bugs |
62 |
|
- still to do: biharmonic friction for non-hydrostatic w |
63 |
|
o bug fix for mom_*_sidedrag: rA -> rAs,rAw |
64 |
|
o regenerated output for global_ocean_ebm (using -ieee) |
65 |
|
o fix mom_common/mom_*_sidedrag.F to recover numeric output prior to creation |
66 |
|
of mom_common/ |
67 |
|
- simple re-arrangement of instructions within computing loop |
68 |
|
checkpoint53d_pre |
69 |
|
|
70 |
|
checkpoint53c_post |
71 |
|
o new version of coupler for AIM+thSIce and Ocean models |
72 |
|
- new fields (SSS,h_MixLayer ...) are exchanged through the coupler |
73 |
|
- land: change Evaporation of snow |
74 |
|
- aim with thSIce: fix bug in snow-precip. |
75 |
|
o changes to calc_gw.F |
76 |
|
- bug fix for w^2 term near the bottom boundary |
77 |
|
- (hopefully) improve the lateral slip boundary condtions for use with |
78 |
|
partial/looped cells |
79 |
|
- because the bug fix changes two verification experiments anyway (exp5 |
80 |
|
and plume on slope), change the lateral boundary condition from half slip |
81 |
|
to the value of no_slip_sides |
82 |
|
o ebm package wasnt quite up to the parallel task. Fixed that. |
83 |
|
o Adjoint of EBM package + verification |
84 |
|
* TLM OK |
85 |
|
* ADM not sufficient accuracy yet (needs further testing) |
86 |
|
|
87 |
|
checkpoint53b_post |
88 |
|
o Commiting new energy balance model to repository |
89 |
|
* package is pkg/ebm |
90 |
|
* verif. is verification/global_ocean_ebm |
91 |
|
* references are in ebm_driver.F |
92 |
|
C * X. Wang, P. Stone and J. Marotzke, 1999: |
93 |
|
C Global thermohaline circulation. Part I: |
94 |
|
C Sensitivity to atmospheric moisture transport. |
95 |
|
C J. Climate 12(1), 71-82 |
96 |
|
C * X. Wang, P. Stone and J. Marotzke, 1999: |
97 |
|
C Global thermohaline circulation. Part II: |
98 |
|
C Sensitivity with interactive transport. |
99 |
|
C J. Climate 12(1), 83-91 |
100 |
|
C * M. Nakamura, P. Stone and J. Marotzke, 1994: |
101 |
|
C Destabilization of the thermohaline circulation |
102 |
|
C by atmospheric eddy transports. |
103 |
|
C J. Climate 7(12), 1870-1882 |
104 |
|
o Will need long integration testing. |
105 |
|
checkpoint53b_pre |
106 |
|
|
107 |
|
o created pkg/mom_common in preparation for variable viscosity code |
108 |
|
o renamed and split ini_mnc_io |
109 |
|
o pkg/land: only liquid water can diffuse or run-off |
110 |
|
o AIM using land: soil wetness availability account for snow |
111 |
|
o added printMapIncludesZeros to EEPARMS namelist |
112 |
|
|
113 |
|
checkpoint53a_post |
114 |
|
o restore TAMC compatiility for exf_constants.h |
115 |
|
(no usage of _d in .h) |
116 |
|
o Additional storing in KPP in an attempt to fix |
117 |
|
TAMC problem with adjoint of KPP code. |
118 |
|
(no success...) |
119 |
|
Identical code works fine with TAF. |
120 |
|
o Fixed verification/natl_box_adjoint experiments. |
121 |
|
Initial conditions for Experiments 4 and 5 are now |
122 |
|
set to "SEAICE_initialHEFF=0", which is more reasonable, |
123 |
|
and hence gives results closer to that of Experiment 2. |
124 |
|
Experiment 6 requires "SEAICE_initialHEFF=1" and is working once again. |
125 |
|
|
126 |
|
checkpoint53 |
127 |
|
o stable checkpoint with up to date adjoint |
128 |
|
TLM tests only run for 1st grdchk at the moment. Its unclear if |
129 |
|
this is a code problem or a problem with resetting code for g_ |
130 |
|
variables that is being autogenerated wrong. |
131 |
|
Otherwise: |
132 |
|
o code is testing well on Linux (P4 and AMD), SGI Alitix and Irix. |
133 |
|
o IBM and HPQ tests could not be run because NCAR (IBM) and NCCS (HPQ) |
134 |
|
are both still in chaos following their security messes. |
135 |
|
|
136 |
|
checkpoint52n_post |
137 |
|
o various build (mostly genmake2) changes including: |
138 |
|
- ability to build/run more easily within Cygwin and MacOS X |
139 |
|
- more complicated Makefiles with a stronger dependence on Gnu Make |
140 |
|
o pkg/seaice modifications |
141 |
|
- added SEAICE_deltaTtherm and SEAICE_deltaTdyn in order to reduce cost |
142 |
|
of pkg/seaice. For time being, SEAICE_deltaTtherm = deltaTtracer |
143 |
|
and SEAICE_deltaTdyn must be integer multiple of SEAICE_deltaTtherm |
144 |
|
- changed proxy for geostrophic velocity and updated |
145 |
|
verification/lab_sea/results/* accordingly |
146 |
|
- removed ADI dynamic solver from pkg/seaice |
147 |
|
- replaced all occurrences of 1/CSTICE or 1/CSUICE |
148 |
|
they caused a segmentation fault under certain circumstances |
149 |
|
- removed unused field WATR |
150 |
|
o bug fix in exf-package: |
151 |
|
- u/vwind are defined at tracer/pressure points. The values of u/vwindmask |
152 |
|
now reflect that. |
153 |
|
o small fixes in the cal-package: |
154 |
|
- set reference date to first of January for the 'model'-calendar |
155 |
|
- failing of cal_CheckDate in cal_FullDate now actually results in a |
156 |
|
warning |
157 |
|
o small modifications in exf-package to increase flexibility: |
158 |
|
- change climtempfreeze from a constant to a runtime parameter that |
159 |
|
is specified in data.exf_clim (default = -1.9) |
160 |
|
- introduce runtime parameter windstressmax (default = 2.0) that is |
161 |
|
specified in data.exf |
162 |
|
o fix in pkg/thsice: |
163 |
|
- update Evap (Tsf changes) to be consistent with Latent heat flux |
164 |
|
- maintain snow precipitation unchanged (even if Tsf >=0). |
165 |
|
both affect global_ocean.cs32x15/(.thsice) results ; update output.txt.thsice |
166 |
|
|
167 |
|
checkpoint52m_post |
168 |
|
o commented out call to cal_GetMonthsRec in swfrac.F and added some comments; |
169 |
|
this does not change any of the results, because myIter=0 in swfrac always |
170 |
|
lead to jwtype=2 (the default anyway), but the call makes little sense |
171 |
|
as a default |
172 |
|
o no SHORTWAVE HEATING lost at the bottom; affects lab_sea output; updated |
173 |
|
o re-work pkg/thsice interface with ocean & bulk_force pkg to allow |
174 |
|
atmospheric model (AIM) to use it ; add a "slab ocean" component. |
175 |
|
o pkg/aim_v23 : add interface to call thermodynamic sea-ice (thsice) |
176 |
|
o update global_ocean.cs32x15/output (.thsice) after changes in pkg/thsice |
177 |
|
o extending useSingleCpuIO option to work with new exch2 I/O format |
178 |
|
- old-style, missing-tile I/O is still accessible by defining CPP |
179 |
|
option MISSING_TILE_IO in pkg/mdsio/MDSIO_OPTIONS.h |
180 |
|
o monitor package can write to NetCDF files and/or STDOUT |
181 |
|
o fix re-definition bug in MNC_GRID_INIT_ALL() |
182 |
|
o doc/api_reference added |
183 |
|
- a framework for building an API Reference Manual using all |
184 |
|
the "protex" comments embedded in the code |
185 |
|
- see pkg/generic_advdiff, pkg/mnc for examples |
186 |
|
o MNC: |
187 |
|
- make myThid the last argument for all subroutines |
188 |
|
- new default for the grid files: NO halos |
189 |
|
- add useMNC and other run-time flags |
190 |
|
- separate per-file-group handling of the unlimited dimension |
191 |
|
- early initialization of MNC w/ flags read at the eeboot stage |
192 |
|
and lookup tables set in initialize_fixed |
193 |
|
- write all MNC output to a freshly-created directory |
194 |
|
o thermodynamics sea-ice (thsice) is now tested with testreport. |
195 |
|
o test exp. advect_cs: use the standard cs32 grid ; update output. |
196 |
|
o Added functionality to grdchk: |
197 |
|
pick global i,j,k position (or nearest wet) where to perform check. |
198 |
|
|
199 |
|
checkpoint52l_post |
200 |
|
o new land formulation: |
201 |
|
a) use ground enthalpy as prognostic variable to ensure exact |
202 |
|
energy conservation. |
203 |
|
b) account for water temperature and for latent heat of freezing |
204 |
|
in all processes (rain, run-off, ground storage) |
205 |
|
c) compute surface and ground temperature implicitly. |
206 |
|
o aim_v23 modification for new land model: |
207 |
|
a) Treat separately land / ocean / sea-ice surface fluxes |
208 |
|
to allow implicit computation of land & sea-ice surface temp. |
209 |
|
b) add snow precipitation. |
210 |
|
checkpoint52l_pre |
211 |
|
|
212 |
|
o fix problem (when 1 tile is empty) in min/max monitor. |
213 |
|
o fix bug in timeAve (u,vZetatave in common block) |
214 |
|
o no restoring terms under ice for pkg/seaice |
215 |
|
o moved SEAICE_DO_DIAGS to S/R do_the_model_io |
216 |
|
o bug fix for pkg/seaice pickups |
217 |
|
o change MNC call locations and add coordinate attributes |
218 |
|
o mask vorticity at the corner ; affects global_ocean.cs output |
219 |
|
o fix ini_curvilinear_grid ; test CS experiments with mpi |
220 |
|
o aim.5l_cs: modify sea-ice fraction input file ; update output |
221 |
|
o exf: Adding simple range check routine for exf fields after read |
222 |
|
|
223 |
|
checkpoint52k_post |
224 |
|
o removed top-level directory "diags" |
225 |
|
- we migrated these functions to pkg/timeave a long time ago |
226 |
|
o fixed bug introduced in pkg/monitor |
227 |
|
o accuracy ctrlprec = 32 insuffient for gradient checks using |
228 |
|
averaged fields (I/O via cost_averages) |
229 |
|
-> use ctrl.h in active_file*.F to control I/O precision. |
230 |
|
o paramter list of CALL ADTHE_MAIN_LOOP |
231 |
|
o added initial do_the_model_io to ecco |
232 |
|
o set all ...Freq to zero after cost_final |
233 |
|
taveFreq, dumpFreq, pChkptFreq |
234 |
|
o MAIN and ECCO differentiability restored |
235 |
|
|
236 |
|
checkpoint52j_post |
237 |
|
o fix nchklev in tamc.h for global_ocean... |
238 |
|
o Bringing flow and store directives up-to-date |
239 |
|
o Really weird thing! |
240 |
|
call do_the_model_io from the_main_loop with parameters |
241 |
|
starttime, niter0, instead of mytime, myiter, screws up the adjoint: |
242 |
|
TAF places a faulty re-call of initialise_varia |
243 |
|
after cost_final call which should not be there! |
244 |
|
checkpoint52j_pre |
245 |
|
|
246 |
|
o tweaked pkg/mdsio/mdsio_readfield.F to have more useful logic and |
247 |
|
error messages |
248 |
|
o fix errorMessageUnit problem. remove old version of mdsio from eesup/src |
249 |
|
o modified pkg/mdsio/mdsio_readfield.F -- commented out diskspace-eating |
250 |
|
debug output |
251 |
|
o modfied mdsio_writefield.F to handle non-global files under exch2 |
252 |
|
o update AIM Cubed-Sphere exp (aim.5l_cs): |
253 |
|
use land, p*, and Franco.M forcing fields with fractional land-sea mask. |
254 |
|
o update AIM Equatorial Channel exp: |
255 |
|
use standard aim_v23 pkg and change the SST fields to be more realistic. |
256 |
|
o globalFile now works with exch2 |
257 |
|
o merged mom_vi_calc_relvort3.F, mom_vi_del2uv.F and |
258 |
|
mon_vort3.F to make exch2 friendly with >1 tile per cube face |
259 |
|
o limit timeave output for hi-res integrations |
260 |
|
|
261 |
|
checkpoint52i_post |
262 |
|
o removed CPP_EEOPTIONS.h from verification/*/code |
263 |
|
o updated the tiling for global_ocean_pressure |
264 |
|
checkpoint52i_pre |
265 |
|
|
266 |
|
o update aim.5l_LatLon using the standard aim_v23 pkg (instead of |
267 |
|
the old pkg/aim). |
268 |
|
|
269 |
|
checkpoint52h_pre |
270 |
|
o shortened offending lines in exch2_send_rx?.template |
271 |
|
o modified W2_EXCH2_TOPOLOGY.h to reflect current topology generator |
272 |
|
o genmake2: add build & execute test for NetCDF code |
273 |
|
o modded aim.5l_cs and global_ocean.cs32x15 to use exch2, removed |
274 |
|
old grid files, moved CPP_EEMACROS.h to pkg/exch2 |
275 |
|
o added useSingleCPUIO flag to monitor.F and mon_out.F |
276 |
|
o added temporary hack for sea-ice dynamics on the cube: |
277 |
|
metric terms are ignored and it is assumed that |
278 |
|
there is no sea-ice on cube faces 1, 2, 4, and 5. |
279 |
|
|
280 |
|
checkpoint52f_post |
281 |
|
o added exch2 cube routines to pkg/exch2 |
282 |
|
o modified hs94.cs-32x32x5 to use it |
283 |
|
o added new grid files to hs94.cs-32x32x5 |
284 |
|
checkpoint52f_pre |
285 |
|
|
286 |
|
checkpoint52e_post |
287 |
|
o first attempt to solve vertical advection (momemtum & T,S) Implicitly |
288 |
|
for now, only implemented with Lax-Wendroff (tracer) and VectInv (mom) |
289 |
|
o step.1 : rewrite (as in MultiDimAdvec) explicit tracer stepping (gad_calc_rhs.F) |
290 |
|
to work with implicit vertical advection and AB ; |
291 |
|
o Implic. vert. advect. implemented with flux-limiter, c2, u3 and c4 scheme. |
292 |
|
o update output (gad_calc_rhs.F changes affect truncation error) of exp: |
293 |
|
front_relax, global_ocean .cs32x15 & _pressure, internal_wave, lab_sea, natl_box |
294 |
|
checkpoint52e_pre |
295 |
|
|
296 |
|
o fix bug in impldiff when Nr=1 or Nr=2. |
297 |
|
o change the albedo in pkg/thsice (as GISS model); update output_thsice.txt |
298 |
|
o little changes (fftpack, aim/phy_suflux ...) to pass the "checkbounds" test. |
299 |
|
o fix deltaTfreesurf in update_cg2d.F (left from c45d_post): affects 2 |
300 |
|
ocean exp. that use NLFS: global_ocean.cs32x15 & global_ocean_pressure |
301 |
|
o added exf_offset_atemp for Celsius to Kelvin conversion of atemp |
302 |
|
o eesupp/inc/EEPARAMS.h: MAX_NO_PROCS=1024 |
303 |
|
o pkg/cal/cal_toseconds.F fix for long (>60 years) integrations |
304 |
|
|
305 |
|
checkpoint52d_post |
306 |
|
o re-tiled many expts to allow comparison in multi-processor mode |
307 |
|
- updated output accordingly |
308 |
|
- changed hs94.128x64x5 to use intial T from file rather than use the |
309 |
|
random number generator |
310 |
|
o add infrastructure in model routines for fizhi and gridalt packages |
311 |
o change global_ocean.cs32x15 because of Pb with GM on CS-grid. |
o change global_ocean.cs32x15 because of Pb with GM on CS-grid. |
312 |
|
o changes to permit hi-res, cubed-sphere, configuration |
313 |
|
- added useSingleCpuIO capability to mdsio_readfield.F and exf_interp.F |
314 |
|
- added "#undef ALLOW_USE_MPI" support to eesupp/src/scatter_2d.F |
315 |
|
- added pkg/exf/exf_set_uv.F for on-the-fly interpolation and rotation |
316 |
|
of surface winds for the cube |
317 |
|
(A verification experiment, based on global_ocean.cs32x15, but with |
318 |
|
pkg/seaice turned on and with on-the-fly interpolation from the NCEP |
319 |
|
Gaussian grid is described in MITgcm_contrib/high_res_cube/README_ice, |
320 |
|
complete with example surface forcing files and matlab scripts to look |
321 |
|
at the output and compare it with that of global_ocean.cs32x15.) |
322 |
|
o packages pickup: $PKG_write_pickup called from packages_write_pickup ; |
323 |
|
but call to $PKG_read_pickup remains in $PKG_ini_vars: change CD_code |
324 |
|
to conform to the common rule. |
325 |
|
o check-in the first version of the coupler + interfaces for multi-components |
326 |
|
set-up (Chris's version, adapted to work on cubed-sphere grid); use MPI. |
327 |
|
- imply modification in eesupp (MPI_COMM_MODEL < MPI_COMM_WORLD). |
328 |
|
- atmosphere: use pkg aim_v23 ; no sea-ice for now. |
329 |
|
- ocean and atmos. share the same horizontal grid (no interpolation). |
330 |
|
- exchanges between component and coupler is done in forward_step |
331 |
|
o new verification experiment, cpl_aim+ocn: |
332 |
|
coupled ocean - AIM atmosphere on cs32 grid. |
333 |
|
|
334 |
checkpoint52d_pre |
checkpoint52d_pre |
335 |
o surface flux time-av diagnostic modified for NLFS & RealFreshWater |
o surface flux time-av diagnostic modified for NLFS & RealFreshWater |