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Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
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============================== |
============================== |
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o add monitor diagnostic of vorticity (mon_vort3.F) and potential energy. |
7 |
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o add time-average diagnostic of U*V and vertical diffusive flux for theta. |
8 |
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o bug fixed in convective adjustment diagnostic (multi-tile set-up). |
9 |
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o 4th Order Adv scheme: return to previous (c40pre7) masking near boundaries. |
10 |
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|
11 |
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checkpoint50c_pre |
12 |
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Merging from release1_p13: |
13 |
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o bug fix for pkg/seaice dynamic solver |
14 |
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o Added SEAICE_initialHEFF to pkg/seaice |
15 |
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16 |
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checkpoint50b_post |
17 |
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o store u*,v* in gU,V instead of in guNm1,gvNm1 |
18 |
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o in order to put the momForcing out of the Adams-Bashforth: |
19 |
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move forcing & CD-scheme calls from mom_fluxform & mom_vecinv |
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to timestep.F |
21 |
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o new flag "useCDscheme" (default=F); replace guCD,gvCD by local arrays |
22 |
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o re-generate output for highly sensitive test-exp: |
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global_ocean_pressure, ideal_2D_oce, lab_sea, natl_box |
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|
25 |
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checkpoint50b_pre |
26 |
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o restore the use of momAdvection & useCoriolis flags (mom_vecinv) |
27 |
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o corrected CPP option mismatch in exf_Bulk... functions for case |
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#define ALLOW_ATM_WIND && #undef ALLOW_ATM_TEMP |
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30 |
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checkpoint50a_post |
31 |
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o Bug fix for merging between c50 and KPP. |
32 |
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ikey was passed from thermodynamics to kpp_calc via |
33 |
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common block rather than being recomputed in kpp_calc, |
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in contradiction with new key itdkey. |
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New key ikppkey created, and tamc.h headers updated. |
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37 |
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checkpoint50 |
38 |
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- 2nd step of merge with ecco-branch: |
39 |
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merge changes in ecco-branch back into main trunk |
40 |
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- bug fix in find_alpha |
41 |
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- more storing in gmredi_calc_tensor.F, kpp_routines.F |
42 |
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- avoid iterative loop in ini_pressure for ALLOW_AUTODIFF_TAMC |
43 |
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- merged some sliced AD support routines |
44 |
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45 |
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checkpoint49 |
46 |
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merged from ecco-branch: |
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o exf: |
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- Enable initialisation of forcing fields to constant |
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(runtime) values. |
50 |
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- in exf_getffields.F |
51 |
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Reduce i-/j-loop to interior domain, discarding overlaps. |
52 |
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That also fixes wrong TAF-key computations for key_1, key_2 |
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with bulf formulae. |
54 |
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- exf_init.F modify #ifdef for exf_init_evap |
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- exf_getffieldrec.F, ctrl_getrec.F |
56 |
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The following INT-usages are not safe: |
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fldsecs = int(fldsecs/fldperiod)*fldperiod |
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fldcount = int(fldsecs/fldperiod) + 1 |
59 |
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and were modified. |
60 |
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o autodiff: checkpoint_lev... |
61 |
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- updated storing for bulk formulae (some arrays were missing) |
62 |
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- added state for seaice package |
63 |
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- synchronized with main branch |
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o DIVA: |
65 |
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Modif.s in |
66 |
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- the_main_loop.F |
67 |
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- the_model_main.F |
68 |
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and added cost_final_restore.F cost_final_store.F |
69 |
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o With these changes, it is possible to fully separate |
70 |
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the first forward run to compute the cost function (mdthe_main_loop) |
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and adjoint runs over individual DIVA intervals (adthe_main_loop) |
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into separate model executions. |
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This enables better tuning of DIVA to given queue sizes. |
74 |
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o Loss of cost function value in consecutive DIVA runs is |
75 |
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fixed by storing to 'costfinal' file. |
76 |
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o Appropriate call of ctrl_unpack/_pack,grdchk_main at |
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beginning/end of adjoint integration is accounted for. |
78 |
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The current changes apply to TAF-1.4.26. |
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TAF has one remaining bug, requiring one manual change |
80 |
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(see MITgcm manual). |
81 |
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o cal: synchronized between MAIN and ecco-branch |
82 |
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|
83 |
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checkpoint48i_post |
84 |
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o Changes to restore differentiability of code w.r.t. previous tag |
85 |
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(mostly adding new routines to make list and replacing |
86 |
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pressure by totPhiHyd). |
87 |
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o Updated and merged grdchk package |
88 |
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- has both ADM and TLM checks |
89 |
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- works for single- and multi-proc. |
90 |
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- output cleaned |
91 |
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- worked successfully for parallel DIVA |
92 |
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o genmake: |
93 |
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- Adding -platform=SP4 |
94 |
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- Modif. for DEC Alpha (many don't have makedepend; use mkdep instead). |
95 |
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o Modif. for DIVA: |
96 |
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ctrl_unpack should not be called in intermediate DIVA interval. |
97 |
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(similar thing would apply for active files such as |
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tbar, sbar, psbar, which should not be reinitialised; |
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only relevant for ecco-branch) |
100 |
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101 |
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checkpoint48h_post |
102 |
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o improve "ini_p_ground" when using finite difference form for calc_phi_hyd |
103 |
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o Added net flux to downward flux conversion to pkg/exf/exf_getffields.F |
104 |
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o Added SEAICE_initialHEFF to pkg/seaice |
105 |
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o ecco_the_model_main.F: SEAICE_WRITE_PICKUP must precede WRITE_CHECKPOINT |
106 |
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107 |
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checkpoint48g_post |
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--- EOS: |
109 |
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o compute locally the pressure for use in EOS: UNESCO, JMD95P, MDJWF |
110 |
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store total Potential in totPhyHyd for diagnostics & EOS. |
111 |
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o fix restart and overlap Pb when using Z-coord and EOS funct. of P |
112 |
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--- Pressure/geopotential gradient: |
113 |
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o use Ro_surf & R_low instead of hFac in cal_phi_hyd: |
114 |
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o NLFS + p-coord.: eta*Alpha' is not longer lagging 1.time-step behind |
115 |
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( changes results of global_ocean_pressure ) |
116 |
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o NLFS + z-coord.: add eta*Rho' contribution. |
117 |
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o accurate phiHyd when using interface-W at the middle between 2 centers |
118 |
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( changes results of ideal_2D_oce ) |
119 |
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o includes r* 2nd term in potential gradient. |
120 |
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|
121 |
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checkpoint48f_post |
122 |
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Merging from release1_p12: |
123 |
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o Modifications for using pkg/exf with pkg/seaice |
124 |
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- improved description of the various forcing configurations |
125 |
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- added basic radiation bulk formulae to pkg/exf |
126 |
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- units/sign fix for evap computation in exf_getffields.F |
127 |
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- updated verification/global_with_exf/results/output.txt |
128 |
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o Added pkg/sbo for computing IERS Special Bureau for the Oceans |
129 |
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(SBO) core products, including oceanic mass, center-of-mass, |
130 |
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angular, and bottom pressure (see pkg/sbo/README.sbo). |
131 |
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o Lower bound for viscosity/diffusivity in pkg/kpp/kpp_routines.F |
132 |
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to avoid negative values in shallow regions. |
133 |
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- updated verification/natl_box/results/output.txt |
134 |
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- updated verification/lab_sea/results/output.txt |
135 |
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o MPI gather, scatter: eesupp/src/gather_2d.F and scatter_2d.F |
136 |
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o Added useSingleCpuIO option (see PARAMS.h). |
137 |
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o Updated useSingleCpuIO option in mdsio_writefield.F to |
138 |
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work with multi-field files, e.g., for single-file pickup. |
139 |
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o pkg/seaice: |
140 |
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- bug fix in growth.F: QNET for no shortwave case |
141 |
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- added HeffFile for specifying initial sea-ice thickness |
142 |
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- changed SEAICE_EXTERNAL_FLUXES wind stress implementation |
143 |
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o Added missing /* */ to CPP comments in pkg/seaice, pkg/exf, |
144 |
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kpp_transport_t.F, forward_step.F, and the_main_loop.F |
145 |
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o pkg/seaice: |
146 |
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- adjoint-friendly modifications |
147 |
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- added a SEAICE_WRITE_PICKUP at end of the_model_main.F |
148 |
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149 |
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checkpoint48e_post |
150 |
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o New S/R for diagnostic of bottom pressure (phi0surf was missing in c48d_post) |
151 |
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o dynamics: change definition of computational domain & adapt mom_fluxform |
152 |
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accordingly ; when viscA4=0, allows to run the dynamics with Olx=Oly=2. |
153 |
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o following exp works with Olx=Oly=2 (and pass through checkbounds option): |
154 |
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adjust_nlfs.cs-32x32x1 adjustment.128x64x1 adjustment.cs-32x32x1 |
155 |
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exp0 exp1 exp2 exp4 exp5 hs94.cs-32x32x5 hs94.128x64x5 hs94.1x64x5 |
156 |
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global_ocean.90x40x15 global_with_exf global_ocean_pressure |
157 |
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inverted_barometer solid-body.cs-32x32x1 |
158 |
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(high order AdvScheme and/or multiDimAd works with Olx=Oly=2 ? not sure) |
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160 |
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checkpoint48d_post |
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o in preparation for r*: |
162 |
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a) use pre-computed gradient of hydrostatic potential: |
163 |
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changes in timestep.F & mom_cdscheme.F affects results of ideal_2D_oce |
164 |
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b) move phi0surf from calc_phi_hyd to calc_grad_phi_hyd: |
165 |
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=> affects results of glob_oce_pressure (different truncation error) |
166 |
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update output.txt of ideal_2D_oce & global_ocean_pressure |
167 |
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168 |
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checkpoint48d_pre |
169 |
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o in preparation for r*: |
170 |
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new S/R (calc_grad_phi_hyd.F) to compute Hydrostatic potential gradient. |
171 |
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pass the 2 comp. of the grad. as arguments to momentum S/R. |
172 |
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but for the moment, only used if it does not change the results. |
173 |
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o add finite volume form of calc_phi_hyd for buoyancyRelation OCEANIC & OCEANICP |
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175 |
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checkpoint48c_post |
176 |
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Modifications in treatment of initial flux forcing controls |
177 |
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to avoid extra storing of flux fields. |
178 |
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179 |
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checkpoint48c_pre |
180 |
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o Added tidal_basin_2d experiment (currently 1D!) |
181 |
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o can use r* Coordinate with OBC (but Orlanski Rad. BC not yet implemented) |
182 |
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183 |
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checkpoint48b_post |
184 |
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o r* coordinate added in #ifdef NONLIN_FRSURF block. |
185 |
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(modification to pressure gradient not yet implemented) |
186 |
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o mom_fluxform: new S/R mom_calc_rtrans.F computes vertical transports |
187 |
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(for U & V) that are used for vertical advection of momentum. |
188 |
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189 |
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checkpoint48a_post |
190 |
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o In preparation for r*, use temp. array to compute vertical transport |
191 |
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in flux-form momentum pkg. => change results of few test-exp. |
192 |
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Update output of: exp4, exp5, front_relax, global_ocean_pressure, |
193 |
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lab_sea, natl_box & plume_on_slope |
194 |
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195 |
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checkpoint48 |
196 |
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o fix small bug that was causing lot of warning (TIMER_STOP 'UPDATE_CG2D') |
197 |
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198 |
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checkpoint47j_post |
199 |
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o add new exp. (ideal_2D_oce) to test "exotic" parameters and options. |
200 |
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o moved adexch from forward_step to addummy_in_stepping |
201 |
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o added exch in ctrl_map_... |
202 |
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o aveFreq.=0. at end of cost_final to avoid overwrite in |
203 |
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reverse checkpointing loop |
204 |
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o Yet more changes in gmredi: |
205 |
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* adgmredi_calc_tensor |
206 |
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avoiding all recomputation of gmredi_slope_limit |
207 |
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* adgmredi_x/y/rtransport |
208 |
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added flag for excessive storing to avoid recomp. of |
209 |
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u/v/rtans, dTdx/y/z |
210 |
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-> this is not really necessary and very memory-consuming |
211 |
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* adgmredi_slope_psi: |
212 |
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consistency with gmredi_slope_limit in treatment of GM_slopeSqCutoff |
213 |
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* gmredi_slope_limit |
214 |
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re-activated full calculation of taperfct for case 'ac02' |
215 |
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o updating verification/ adjoints of carbon, global_ocean.90x40x15 |
216 |
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217 |
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checkpoint47i_post |
218 |
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o GM_EXCLUDE_() replace GM_TAPER_(): by default, all the code is compiled. |
219 |
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o add GM_Small_Number & GM_slopeSqCutoff as run-time parameters (data.gmredi) |
220 |
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default values = 1.D-12 & 1.D+48 (=> give same results as checkpoint47f_post) |
221 |
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o cg2dTargetResWunit: define tolerance using deltaTmom (and not deltaTfreesurf) |
222 |
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o gmredi: fix few bugs. |
223 |
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|
224 |
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checkpoint47h_post (duplicate tag for PH's c48 tag, in order to move c48) |
225 |
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This will be a good checkpoint to plug into the ecco-branch. |
226 |
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o few modif.'s to get latest version adjointed |
227 |
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(mainly kick out code in ini_linear_phisurf) |
228 |
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o modif's to run adjoint with exactConserv |
229 |
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o case GM_BOLUS_ADVEC should be cleaned |
230 |
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S/R gmredi_slope_psi should be cleaned |
231 |
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o verification/carbon now has exactConserv=.TRUE. |
232 |
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|
233 |
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checkpoint47g_post |
234 |
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o time-average AIM output: becomes independent from statvars time-average |
235 |
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(can be used with #undef ALLOW_TIMEAVE) ; add new variables (e.g., RH) |
236 |
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o After TAF bug fix: |
237 |
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Tested adjoint of gmredi package. |
238 |
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Tests were done with checkpoint47 rather than with latest |
239 |
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checkpoint47f_post since the latter is broken for the adjoint |
240 |
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verification/carbon/ contains both ADM and TLM gradient checks. |
241 |
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Here they are, before they get changed/lost/stolen. |
242 |
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Mostly modif.'s to fix numerical sensitivities. |
243 |
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Gradient checks OK for |
244 |
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- GM_taper_scheme: |
245 |
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* clipping |
246 |
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* ac02 |
247 |
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* linear |
248 |
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* glw91 |
249 |
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* dm95 |
250 |
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* ldd97 |
251 |
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- GMREDI_OPTIONS: |
252 |
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* GM_VISBECK_VARIABLE_K |
253 |
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* GM_NON_UNITY_DIAGONAL |
254 |
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* GM_EXTRA_DIAGONAL |
255 |
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* GM_BOLUS_ADVEC |
256 |
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in conjunction with data.gmredi parameters to be checked in |
257 |
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in a few minutes under verification/carbon/code/ |
258 |
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|
259 |
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checkpoint47f_post |
260 |
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Merging from release1_p10: |
261 |
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o modifications for using pkg/exf with pkg/seaice |
262 |
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- pkg/seaice CPP options SEAICE_EXTERNAL_FORCING |
263 |
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and SEAICE_EXTERNAL_FLUXES |
264 |
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- pkg/exf CPP options EXF_READ_EVAP and |
265 |
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EXF_NO_BULK_COMPUTATIONS |
266 |
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- usage examples are Experiments 8 and 9 in |
267 |
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verification/lab_sea/README |
268 |
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- verification/lab_sea default experiment now uses |
269 |
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pkg/gmredi, pkg/kpp, pkg/seaice, and pkg/exf |
270 |
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|
271 |
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checkpoint47e_post |
272 |
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o created a tag prior to creating a branch |
273 |
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|
274 |
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checkpoint47d_post |
275 |
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o fixed bug in the oceanic pressure coordinates code: vertical viscosity |
276 |
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at the bottom boundary had an erroneous half slip boundary condition |
277 |
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o added bottom drag and no slip boundary condition capabilities to |
278 |
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oceanic pressure coordinates code |
279 |
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o added new verification experiment global_ocean_pressure, this experiment is |
280 |
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also described in the tutorial section of the manual |
281 |
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checkpoint47d_pre |
282 |
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|
283 |
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checkpoint47c_post |
284 |
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o Added a verification experiment for a global cubed-sphere ocean run |
285 |
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- verification/global_ocean.cubed32x32x30 |
286 |
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- uses pkg/therm_seaice and pkg/bulk_forcing |
287 |
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|
288 |
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o allow to run AIM physics with SPEEDY input files (from Franco Molteni) |
289 |
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o allow a more accurate definition of Ro_Surf (selectFindRoSurf=1) |
290 |
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when using P-coordinate; only implemented for atmospheric config. |
291 |
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o OCEANICP & realFreshWater: include P-E direct effect on wVel ; |
292 |
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NOTES: requires option NONLIN_FRSURF to be "#define". |
293 |
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o update advect_xz/results/output.txt (left from checkpoint44g_post) |
294 |
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|
295 |
checkpoint47b_post |
checkpoint47b_post |
296 |
Merging from release1_p9: |
Merging from release1_p9: |
297 |
o pkg/seaice |
o pkg/seaice |