3 |
Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
4 |
============================== |
============================== |
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checkpoint48f_post |
7 |
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Merging from release1_p12: |
8 |
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o Modifications for using pkg/exf with pkg/seaice |
9 |
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- improved description of the various forcing configurations |
10 |
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- added basic radiation bulk formulae to pkg/exf |
11 |
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- units/sign fix for evap computation in exf_getffields.F |
12 |
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- updated verification/global_with_exf/results/output.txt |
13 |
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o Added pkg/sbo for computing IERS Special Bureau for the Oceans |
14 |
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(SBO) core products, including oceanic mass, center-of-mass, |
15 |
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angular, and bottom pressure (see pkg/sbo/README.sbo). |
16 |
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o Lower bound for viscosity/diffusivity in pkg/kpp/kpp_routines.F |
17 |
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to avoid negative values in shallow regions. |
18 |
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- updated verification/natl_box/results/output.txt |
19 |
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- updated verification/lab_sea/results/output.txt |
20 |
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o MPI gather, scatter: eesupp/src/gather_2d.F and scatter_2d.F |
21 |
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o Added useSingleCpuIO option (see PARAMS.h). |
22 |
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o Updated useSingleCpuIO option in mdsio_writefield.F to |
23 |
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work with multi-field files, e.g., for single-file pickup. |
24 |
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o pkg/seaice: |
25 |
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- bug fix in growth.F: QNET for no shortwave case |
26 |
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- added HeffFile for specifying initial sea-ice thickness |
27 |
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- changed SEAICE_EXTERNAL_FLUXES wind stress implementation |
28 |
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o Added missing /* */ to CPP comments in pkg/seaice, pkg/exf, |
29 |
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kpp_transport_t.F, forward_step.F, and the_main_loop.F |
30 |
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o pkg/seaice: |
31 |
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- adjoint-friendly modifications |
32 |
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- added a SEAICE_WRITE_PICKUP at end of the_model_main.F |
33 |
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|
34 |
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checkpoint48e_post |
35 |
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o New S/R for diagnostic of bottom pressure (phi0surf was missing in c48d_post) |
36 |
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o dynamics: change definition of computational domain & adapt mom_fluxform |
37 |
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accordingly ; when viscA4=0, allows to run the dynamics with Olx=Oly=2. |
38 |
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o following exp works with Olx=Oly=2 (and pass through checkbounds option): |
39 |
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adjust_nlfs.cs-32x32x1 adjustment.128x64x1 adjustment.cs-32x32x1 |
40 |
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exp0 exp1 exp2 exp4 exp5 hs94.cs-32x32x5 hs94.128x64x5 hs94.1x64x5 |
41 |
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global_ocean.90x40x15 global_with_exf global_ocean_pressure |
42 |
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inverted_barometer solid-body.cs-32x32x1 |
43 |
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(high order AdvScheme and/or multiDimAd works with Olx=Oly=2 ? not sure) |
44 |
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|
45 |
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checkpoint48d_post |
46 |
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o in preparation for r*: |
47 |
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a) use pre-computed gradient of hydrostatic potential: |
48 |
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changes in timestep.F & mom_cdscheme.F affects results of ideal_2D_oce |
49 |
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b) move phi0surf from calc_phi_hyd to calc_grad_phi_hyd: |
50 |
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=> affects results of glob_oce_pressure (different truncation error) |
51 |
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update output.txt of ideal_2D_oce & global_ocean_pressure |
52 |
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|
53 |
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checkpoint48d_pre |
54 |
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o in preparation for r*: |
55 |
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new S/R (calc_grad_phi_hyd.F) to compute Hydrostatic potential gradient. |
56 |
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pass the 2 comp. of the grad. as arguments to momentum S/R. |
57 |
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but for the moment, only used if it does not change the results. |
58 |
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o add finite volume form of calc_phi_hyd for buoyancyRelation OCEANIC & OCEANICP |
59 |
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|
60 |
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checkpoint48c_post |
61 |
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Modifications in treatment of initial flux forcing controls |
62 |
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to avoid extra storing of flux fields. |
63 |
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|
64 |
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checkpoint48c_pre |
65 |
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o Added tidal_basin_2d experiment (currently 1D!) |
66 |
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o can use r* Coordinate with OBC (but Orlanski Rad. BC not yet implemented) |
67 |
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|
68 |
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checkpoint48b_post |
69 |
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o r* coordinate added in #ifdef NONLIN_FRSURF block. |
70 |
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(modification to pressure gradient not yet implemented) |
71 |
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o mom_fluxform: new S/R mom_calc_rtrans.F computes vertical transports |
72 |
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(for U & V) that are used for vertical advection of momentum. |
73 |
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|
74 |
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checkpoint48a_post |
75 |
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o In preparation for r*, use temp. array to compute vertical transport |
76 |
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in flux-form momentum pkg. => change results of few test-exp. |
77 |
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Update output of: exp4, exp5, front_relax, global_ocean_pressure, |
78 |
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lab_sea, natl_box & plume_on_slope |
79 |
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|
80 |
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checkpoint48 |
81 |
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o fix small bug that was causing lot of warning (TIMER_STOP 'UPDATE_CG2D') |
82 |
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|
83 |
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checkpoint47j_post |
84 |
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o add new exp. (ideal_2D_oce) to test "exotic" parameters and options. |
85 |
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o moved adexch from forward_step to addummy_in_stepping |
86 |
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o added exch in ctrl_map_... |
87 |
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o aveFreq.=0. at end of cost_final to avoid overwrite in |
88 |
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reverse checkpointing loop |
89 |
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o Yet more changes in gmredi: |
90 |
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* adgmredi_calc_tensor |
91 |
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avoiding all recomputation of gmredi_slope_limit |
92 |
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* adgmredi_x/y/rtransport |
93 |
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added flag for excessive storing to avoid recomp. of |
94 |
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u/v/rtans, dTdx/y/z |
95 |
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-> this is not really necessary and very memory-consuming |
96 |
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* adgmredi_slope_psi: |
97 |
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consistency with gmredi_slope_limit in treatment of GM_slopeSqCutoff |
98 |
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* gmredi_slope_limit |
99 |
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re-activated full calculation of taperfct for case 'ac02' |
100 |
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o updating verification/ adjoints of carbon, global_ocean.90x40x15 |
101 |
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|
102 |
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checkpoint47i_post |
103 |
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o GM_EXCLUDE_() replace GM_TAPER_(): by default, all the code is compiled. |
104 |
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o add GM_Small_Number & GM_slopeSqCutoff as run-time parameters (data.gmredi) |
105 |
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default values = 1.D-12 & 1.D+48 (=> give same results as checkpoint47f_post) |
106 |
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o cg2dTargetResWunit: define tolerance using deltaTmom (and not deltaTfreesurf) |
107 |
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o gmredi: fix few bugs. |
108 |
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|
109 |
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checkpoint47h_post (duplicate tag for PH's c48 tag, in order to move c48) |
110 |
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This will be a good checkpoint to plug into the ecco-branch. |
111 |
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o few modif.'s to get latest version adjointed |
112 |
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(mainly kick out code in ini_linear_phisurf) |
113 |
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o modif's to run adjoint with exactConserv |
114 |
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o case GM_BOLUS_ADVEC should be cleaned |
115 |
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S/R gmredi_slope_psi should be cleaned |
116 |
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o verification/carbon now has exactConserv=.TRUE. |
117 |
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|
118 |
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checkpoint47g_post |
119 |
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o time-average AIM output: becomes independent from statvars time-average |
120 |
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(can be used with #undef ALLOW_TIMEAVE) ; add new variables (e.g., RH) |
121 |
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o After TAF bug fix: |
122 |
|
Tested adjoint of gmredi package. |
123 |
|
Tests were done with checkpoint47 rather than with latest |
124 |
|
checkpoint47f_post since the latter is broken for the adjoint |
125 |
|
verification/carbon/ contains both ADM and TLM gradient checks. |
126 |
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Here they are, before they get changed/lost/stolen. |
127 |
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Mostly modif.'s to fix numerical sensitivities. |
128 |
|
Gradient checks OK for |
129 |
|
- GM_taper_scheme: |
130 |
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* clipping |
131 |
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* ac02 |
132 |
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* linear |
133 |
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* glw91 |
134 |
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* dm95 |
135 |
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* ldd97 |
136 |
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- GMREDI_OPTIONS: |
137 |
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* GM_VISBECK_VARIABLE_K |
138 |
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* GM_NON_UNITY_DIAGONAL |
139 |
|
* GM_EXTRA_DIAGONAL |
140 |
|
* GM_BOLUS_ADVEC |
141 |
|
in conjunction with data.gmredi parameters to be checked in |
142 |
|
in a few minutes under verification/carbon/code/ |
143 |
|
|
144 |
|
checkpoint47f_post |
145 |
|
Merging from release1_p10: |
146 |
|
o modifications for using pkg/exf with pkg/seaice |
147 |
|
- pkg/seaice CPP options SEAICE_EXTERNAL_FORCING |
148 |
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and SEAICE_EXTERNAL_FLUXES |
149 |
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- pkg/exf CPP options EXF_READ_EVAP and |
150 |
|
EXF_NO_BULK_COMPUTATIONS |
151 |
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- usage examples are Experiments 8 and 9 in |
152 |
|
verification/lab_sea/README |
153 |
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- verification/lab_sea default experiment now uses |
154 |
|
pkg/gmredi, pkg/kpp, pkg/seaice, and pkg/exf |
155 |
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|
156 |
|
checkpoint47e_post |
157 |
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o created a tag prior to creating a branch |
158 |
|
|
159 |
|
checkpoint47d_post |
160 |
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o fixed bug in the oceanic pressure coordinates code: vertical viscosity |
161 |
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at the bottom boundary had an erroneous half slip boundary condition |
162 |
|
o added bottom drag and no slip boundary condition capabilities to |
163 |
|
oceanic pressure coordinates code |
164 |
|
o added new verification experiment global_ocean_pressure, this experiment is |
165 |
|
also described in the tutorial section of the manual |
166 |
|
checkpoint47d_pre |
167 |
|
|
168 |
|
checkpoint47c_post |
169 |
|
o Added a verification experiment for a global cubed-sphere ocean run |
170 |
|
- verification/global_ocean.cubed32x32x30 |
171 |
|
- uses pkg/therm_seaice and pkg/bulk_forcing |
172 |
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|
173 |
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o allow to run AIM physics with SPEEDY input files (from Franco Molteni) |
174 |
|
o allow a more accurate definition of Ro_Surf (selectFindRoSurf=1) |
175 |
|
when using P-coordinate; only implemented for atmospheric config. |
176 |
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o OCEANICP & realFreshWater: include P-E direct effect on wVel ; |
177 |
|
NOTES: requires option NONLIN_FRSURF to be "#define". |
178 |
|
o update advect_xz/results/output.txt (left from checkpoint44g_post) |
179 |
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|
180 |
|
checkpoint47b_post |
181 |
|
Merging from release1_p9: |
182 |
|
o pkg/seaice |
183 |
|
- removed GOTO's and added taf directives |
184 |
|
- double precision constants to reduce the g77 (Linux) |
185 |
|
to F77 (SGI) differences reported in release1_p8 |
186 |
|
o tools/genmake |
187 |
|
- added SGI options |
188 |
|
o verification/testscript |
189 |
|
- updated to that of checkpoint47a_post |
190 |
|
o verification/global_ocean.90x40x15/input/eedata |
191 |
|
- modified for SGI f77 compatibility |
192 |
|
o verification/lab_sea |
193 |
|
- added description of sea-ice model |
194 |
|
- added missing matlab routines |
195 |
|
- added test of thermodynamics parallelization |
196 |
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|
197 |
|
checkpoint47a_post |
198 |
|
o new pkg: aim_v23 |
199 |
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= F. Molteni atmos.physics (SPEEDY, ver23) adapted to MITgcm. |
200 |
|
for now, keep the same surface forcing as before. |
201 |
|
- Part-Cell implemented into AIM; check that Heat & Water are conserved |
202 |
|
- aim.5l_cs: use new aim pkg (run 10yr & get better results than before) |
203 |
|
- aim.5l_LatLon & aim.5l_Equatorial_Channel are still using old aim pkg |
204 |
|
o add diagnostic of surface correction term in monitor output |
205 |
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|
206 |
|
o bulk_force and therm_seaice |
207 |
|
- Two packages: bulk_force (Bulk forcing) |
208 |
|
and therm_seaice (thermodynamic_seaice) - adopted from LANL CICE.v2.0.2 |
209 |
|
- Earlier integration from Stephaine Dutkiewicz |
210 |
|
and Patrick Heimbach. |
211 |
|
- Two ifdef statements for compile time, |
212 |
|
ALLOW_THERM_SEAICE and ALLOW_BULK_FORCE |
213 |
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|
214 |
|
checkpoint47 |
215 |
|
differentiable version of checkpoint46n_post |
216 |
|
o bug fix in quasihydrostaticterms |
217 |
|
o * "clean" adjoint code (in terms of extensive recomputations) |
218 |
|
can now be obtained for all GMREDI options (i.e. for |
219 |
|
- GM_VISBECK_VARIABLE_K |
220 |
|
- GM_NON_UNITY_DIAGONAL |
221 |
|
- GM_EXTRA_DIAGONAL |
222 |
|
- GM_BOLUS_ADVEC ) |
223 |
|
* However, wrong gradient check problem remains unsolved. |
224 |
|
* New CPP options have been introduced for different |
225 |
|
tapering schemes |
226 |
|
o external_fields_load now part of differentiation list |
227 |
|
o pressure needs multiple storing; |
228 |
|
would be nice to have store_pressure at beginning or |
229 |
|
end of forward_step, e.g. by having phiHyd global (5-dim.) |
230 |
|
(NB: pressure is needed for certain cases in find_rho, |
231 |
|
which is also invoked through convective_adjustment). |
232 |
|
o recomputations in find_rho for cases |
233 |
|
'JMD95'/'UNESCO' or 'MDJWF' are OK. |
234 |
|
o #define ATMOSPHERIC_LOADING should be differentiable |
235 |
|
o ini_forcing shifted to begining of initialise_varia |
236 |
|
o Incorporating QNVS line search routines into MITgcm |
237 |
|
(this is separate code, and therefore not under pkg) |
238 |
|
lsopt/, optim/ |
239 |
|
o Updated verification/carbon/ |
240 |
|
- #define GM_VISBECK_VARIABLE_K |
241 |
|
- GM_taper_scheme = 'ldd97' |
242 |
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|
243 |
|
checkpoint46n_post |
244 |
|
Merging from release1_p8: |
245 |
|
o verification/natl_box: |
246 |
|
updating new external_fields_load routine |
247 |
|
o New package: pkg/seaice |
248 |
|
Sea ice model by D. Menemenlis (JPL) and Jinlun Zhang (Seattle). |
249 |
|
The sea-ice code is based on Hibler (1979-1980). |
250 |
|
Two sea-ice dynamic solvers, ADI and LSR, are included. |
251 |
|
In addition to computing prognostic sea-ice variables and diagnosing |
252 |
|
the forcing/external data fields that drive the ocean model, |
253 |
|
SEAICE_MODEL also sets theta to the freezing point under sea-ice. |
254 |
|
The implied surface heat flux is then stored in variable |
255 |
|
surfaceTendencyTice, which is needed by KPP package (kpp_calc.F and |
256 |
|
kpp_transport_t.F) to diagnose surface buoyancy fluxes and for the |
257 |
|
non-local transport term. Because this call precedes model |
258 |
|
thermodynamics, temperature under sea-ice may not be "exactly" at |
259 |
|
the freezing point by the time theta is dumped or time-averaged. |
260 |
|
N.B.: fairly large differences in accuracy occur across |
261 |
|
different platforms/compilers; comparison between |
262 |
|
g77 (Linux) and F77 (SGI Origin 2000/MIPSpro) |
263 |
|
generated output gives: |
264 |
|
T S U V |
265 |
|
C D M c m s m s m s m s |
266 |
|
n p a R g m m e . m m e . m m e . m m e . |
267 |
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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 |
268 |
|
g d e n d n x n . n x n . n x n . n x n . |
269 |
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|
270 |
|
Y Y Y Y 5 5 7 7 7 8 10 9 6 6 6 6 7 5 7 5 7 FAIL lab_sea |
271 |
|
o GAD: |
272 |
|
- generated new common blocks to account for call of |
273 |
|
same gad routines with differing traceridentities |
274 |
|
(needed to modify tracerIdentity indices in GAD.h) |
275 |
|
- generated separate common blocks for case useCubedSphereExchange |
276 |
|
(Department of Futurology) |
277 |
|
- parameter lists to gmredi_?transport: added tracerIdentity |
278 |
|
- added new key indices to tamc.h |
279 |
|
o external_fields_load: |
280 |
|
- added this routine to TAF list |
281 |
|
- needed to make some common blocks global and additional storing |
282 |
|
along the same lines as exf package (checkpoint_lev?_directives.h) |
283 |
|
o exf: |
284 |
|
updated external forcing package |
285 |
|
- bug fixes carried over from ecco-branch |
286 |
|
(missing OBCS_OPTIONS.h in two routines) |
287 |
|
- enable easy to use "no forcing". |
288 |
|
- added exf I/O for atmospheric loading |
289 |
|
- added exf I/O for runoff data |
290 |
|
- transfered scaling between exf <-> MITgcm to exf namelist |
291 |
|
o Adding new verification experiment global_with_exf. |
292 |
|
This verification experiment is almost identical to the |
293 |
|
global_ocean.90x40x15 experiment, except that it uses |
294 |
|
the exf (and cal) package instead of the |
295 |
|
external_fields_load routine (cf README file). |
296 |
|
|
297 |
|
checkpoint46m_post |
298 |
|
o modified testscript to return -- when there are no lines of "%MON" output |
299 |
|
o added new flag "quasiHydrostatic" for QH mode |
300 |
|
and new routine quasihydrostaticterms() |
301 |
|
o added 2*Omega*Cos(phi)*W to u equations (non-hydrostatic Coriolis term) |
302 |
|
New routine: mom_u_coriolis_nh() |
303 |
|
o fixed sign of non-hydrostatic metric terms in u and v equations. |
304 |
|
Depend on correct sign of gravitySign. |
305 |
|
o added work.pc* to .cvsignore in aim directories using ifc |
306 |
|
o introduced flag for controllin non-hydrostatic metric terms |
307 |
|
o removed gravitySign from PARM04 |
308 |
|
o switched to g77/ifc from pgf77 in aim experiments |
309 |
|
|
310 |
|
checkpoint46l_post |
311 |
|
o made convective adjustment work with pressure coordinates: |
312 |
|
- changed the direction of k-loop in convective_adjustment.F for the |
313 |
|
case of pressure coordinates (OCEANICP,ATMOSPHERIC buoyancyRelation) |
314 |
|
- adjusted the reference pressure k-index in convective_adjustment.F |
315 |
|
- adjusted the convection condition in convect.F (in analogy to |
316 |
|
calc_ivdc.F) |
317 |
|
- convective_adjustment no longer computes anything on the halos |
318 |
|
- removed the warnings about negative salinity from find_rho.F and |
319 |
|
find_alpha.F; instead the new routine look_for_neg_salinity, called |
320 |
|
at the beginning of find_rho, find_alpha, and find_beta, does a |
321 |
|
check of the entire slice, if CPP-option |
322 |
|
CHECK_SALINITY_FOR_NEGATIVE_VALUES is defined |
323 |
|
checkpoint46l_pre |
324 |
|
|
325 |
|
checkpoint46k_post |
326 |
|
o fixed the verification/global_ocean.90x40x15 experiment: |
327 |
|
- new bathymetry (the world according to A., JMC, and M.) |
328 |
|
- new initial fields and forcing fields (*.bin files) |
329 |
|
- new POLY3.COEFFS (for the next release one should switch to a full |
330 |
|
equation of state: JMD95P or MDJWF) |
331 |
|
- fixed several errors and redundancies in the data file |
332 |
|
- experiment uses looped cells |
333 |
|
- added matlab directory with diagnostic scripts for plotting of output |
334 |
|
|
335 |
|
o S/R aim_initialise.F replace S/R aim_init from file aim_do_inphys.F: |
336 |
|
- read AIM physics parameters from a file (data.aimphys) |
337 |
|
- set defaults values = F.Molteni paper (Clim.Dyn., 2002) |
338 |
|
|
339 |
|
checkpoint46j_post |
340 |
|
o split calc_exact_eta in 2 S/R : integr_continuity & update_etaH |
341 |
|
o move wVel computation at the end of the time step, in S/R integr_continuity |
342 |
|
o create specific S/R to exchange T,S before DYNAMICS (for stagger time step) |
343 |
|
o update timeave pkg for wVel diagnostic. |
344 |
|
checkpoint46j_pre |
345 |
|
|
346 |
|
checkpoint46i_post |
347 |
|
o Clean up AIM package (and keep the results unchanged): |
348 |
|
include CPP_OPTION and use IMPLICT NONE in all routines ; |
349 |
|
declare all the variables _RL ; use _d 0 for all numerical constants. |
350 |
|
use ifdef ALLOW_AIM everywhere. And now AIM can be used with g77 ! |
351 |
|
|
352 |
|
checkpoint46h_post |
353 |
|
o cleaned up the use of rhoNil and rhoConst. |
354 |
|
- rhoNil should only appear in the LINEAR equation of state, everywhere |
355 |
|
else rhoNil is replaced by rhoConst, e.g. find_rho computes rho-rhoConst |
356 |
|
and the dynamical equations are all divided by rhoConst |
357 |
|
o introduced new parameter rhoConstFresh, a reference density of fresh |
358 |
|
water, to remove the fresh water flux's dependence on rhoNil. The default |
359 |
|
value is 999.8 kg/m^3 |
360 |
|
o cleanup up external_forcing.F and external_forcing_surf.F |
361 |
|
- can now be used by both OCEANIC and OCEANICP |
362 |
|
checkpoint46h_pre |
363 |
|
|
364 |
|
Added code to convert surface volume flux (fresh water) into |
365 |
|
a mass flux when using P coordinates in the ocean (OCEANICP). |
366 |
|
Note: It assumes you have set rho0=rhoConst=density of fresh water. |
367 |
|
|
368 |
|
checkpoint46g_post |
369 |
|
o Include a new diagnostic variable phiHydLow for the ocean model |
370 |
|
- in z-coordinates, it is the bottom pressure anomaly |
371 |
|
- in p-coordinates, it is the sea surface elevation |
372 |
|
- in both cases, these variable have global drift, reflecting the mass |
373 |
|
drift in z-coordinates and the volume drift in p-coordinates |
374 |
|
- included time averaging for phiHydLow, be aware of the drift! |
375 |
|
o depth-dependent computation of Bo_surf for pressure coordinates |
376 |
|
in the ocean (buoyancyRelation='OCEANICP') |
377 |
|
- requires a new routine (FIND_RHO_SCALAR) to compute density with only |
378 |
|
Theta, Salinity, and Pressure in the parameter list. This routine is |
379 |
|
presently contained in find_rho.F. This routine does not give the |
380 |
|
correct density for 'POLY3', which would be a z-dependent reference |
381 |
|
density. |
382 |
|
o cleaned up find_rho |
383 |
|
- removed obsolete 'eqn' from the parameter list. |
384 |
|
o added two new verification experiments: gop and goz |
385 |
|
(4x4 degree global ocean, 15 layers in pressure and height coordinates) |
386 |
|
checkpoint46g_pre |
387 |
|
|
388 |
|
checkpoint46f_post |
389 |
|
o Enable tangent linear (forward mode) gradient checks: |
390 |
|
- extended active file handling to g_... files |
391 |
|
- added TANGENT_SIMULATION to theSimulationMode |
392 |
|
- extended grdchk package accordingly |
393 |
|
o added tangent linear setup in verification/carbon/code_ftl |
394 |
|
o added adjoint setup in verification/front_relax/code_ad |
395 |
|
|
396 |
checkpoint46e_post |
checkpoint46e_post |
397 |
o Added new equation of state -> MDJWF |
o Added new equation of state -> MDJWF |
398 |
- EOS of McDougall et al., 2002, JAOT, submitted |
- EOS of McDougall et al., 2002, JAOT, submitted |