3 |
Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
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============================== |
============================== |
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ecco_c44_e20 |
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o before major merges from the Scripps setup |
8 |
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here are two small updates: |
9 |
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- field swapping for surface flux controls enabled |
10 |
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(remains t.b.d. for atmos. state plus obcs) |
11 |
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- bug fix in active_file.F for xz-/yz- routines |
12 |
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- added missing xz-/yz- routines to active_file_ad.F |
13 |
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14 |
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ecco_c44_e19 |
15 |
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o merged necessary patches: |
16 |
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- AD-related changes for GMRedi |
17 |
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- fixes i KPP (delZ -> drF) |
18 |
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- hook to OBCS songe layer code in external_forcing |
19 |
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- errorMessageUnit non-zero in eeboot.F |
20 |
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- included GMREDI, EXACT_CONSERV to natl_box_adjoint verif. |
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22 |
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ecco_c44_e18 |
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o sponge layer code for obcs was missing |
24 |
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- added hook in external_forcing.F |
25 |
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- added storing for TAF |
26 |
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o new routine cost_init_barfiles to initialise |
27 |
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adjoint fields adtbar, adsbar, adpsbar |
28 |
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(needed in conjunction with corrected ladinit for active I/O) |
29 |
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o cleaned up and corrected order in packages_readparms, ecco_readparms |
30 |
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o corrected and simplified weights for obcs controls |
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- weight fields simplified |
32 |
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- bug fix in ctrl_pack |
33 |
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- no more write of control vector in ctrl_pack |
34 |
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o i/j index bug fixes in cost_ssh_mean |
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ecco_c44_e17 |
37 |
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o bug fixes in cost package |
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* wrong identifier for active I/O of monthly mean psbar |
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(cost_averagesfields, cost_ssh) xx_psbar_dummy |
40 |
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* cleaned all identifier for active I/O of monthly fields |
41 |
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* wrong ladinit in various cost routines |
42 |
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o merge with interval (chkpt44c_post - chkpt44d_post) |
43 |
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* added missing EXCLUDE_MONITOR flags |
44 |
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* changed "e" to "_d" in gmredi_slope_limit, gmredi_slope_psi |
45 |
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(incompatible typ in MIN/MAX expressions caused problems |
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on IBM SP3) |
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* in genmake added variable MAKEDEPEND |
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plus resetting for case SunOS |
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added timer_stats.c routine for IBM SP3 |
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* removed variables in dynamics |
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ecco_c44_e16 |
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o new ECCO checkpoint, the first since ecco_c43_e15 |
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which is branched from MITgcm. |
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All changes were merged in between (see ecco-branch-mod? tags). |
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o last changes: |
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* assuming path for TAF and TAMC are known (e.g. in $path) |
58 |
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* genmake: |
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- added tools/xmakedepend to circumvene shortcoming of |
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SUN's makedepend (size too small) |
61 |
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- invoking ../tools/xmakedepend instead of makedepend |
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- changed compiler flags for case SunOS |
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64 |
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ecco-branch-mod5 |
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o mod's to reproduce open boundary run |
66 |
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o enable field swapping for OB's and climatology |
67 |
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o update store directives for OB control |
68 |
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o added option ALLOW_OBCS_PRESCRIBE |
69 |
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o call of getobcs now out of obcs_calc (param. list modified) |
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71 |
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ecco-branch-mod4 |
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o this is the second part of changes necessary to reconcile |
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the natl_box_adjoint verification (with and without grdchk). |
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>>>!!! CHANGES BETWEEN THE TAGS ecco-branch-mod3 !!!<<< |
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>>>!!! AND ecco-branch-mod4 !!!<<< |
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>>>!!! SHOULD BE MERGED INTO THE MAIN TRUNK !!!<<< |
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- genmake: removed $S64 overwrite for case SunOS |
78 |
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- pkg/exf: update and corrections for field swapping and obcs |
79 |
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- pkg/ecco: parameter lists for the_model_main, the_main_loop |
80 |
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harmonized between ECCO and MITgcm |
81 |
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- pkg/autodiff: added flow directives for obcs, mdsio_gl_slice |
82 |
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updated checkpointing_lev... lists for obcs |
83 |
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- model/src: minor changes in forward_step, plot_field |
84 |
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- pkg/mdsio: added mdsio_gl_slice |
85 |
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|
86 |
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ecco-branch-mod3 |
87 |
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o this is the first part of changes necessary to reconcile |
88 |
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natl_box_adjoint verification (with and without grdchk). |
89 |
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This set of changes is relevant for ECCO only. |
90 |
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The next set/tag of changes (ecco-branch-mod4) |
91 |
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should be merged into the main trunk. |
92 |
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- update some options |
93 |
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- parameter lists of ecco_the_model_main and ecco_the_main_loop |
94 |
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differed from those of the MITgcm counterparts. |
95 |
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96 |
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ecco-branch-mod2 |
97 |
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o update ecco-branch-mod1 to checkpoint44 |
98 |
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o exclude from updates: |
99 |
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- verification/ |
100 |
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- adjoint/ |
101 |
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- pkg/cost |
102 |
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- pkg/ctrl |
103 |
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- pkg/ecco |
104 |
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- pkg/obcs |
105 |
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- model/src/the_model_main.F |
106 |
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- model/src/the_main_loop.F |
107 |
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108 |
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checkpoint44 |
109 |
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o apply Shapiro filter on T&S before calc_PhiHyd (stagger time stepping) |
110 |
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o fix bug in mom_vi_del2uv |
111 |
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o added some stuff for AD |
112 |
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113 |
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ecco-branch-mod1 |
114 |
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o based on c43 |
115 |
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o replaced packages cost, ctrl, ecco, obcs |
116 |
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o removed MITgcm verif.'s, added ECCO verif.'s |
117 |
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o added lsopt, optim for line search optimization. |
118 |
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119 |
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checkpoint43 |
120 |
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o added two new advection tests |
121 |
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o added global 4x4 degree ocean test |
122 |
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o added test of H&S94 with free surface on cube |
123 |
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o some final mods for gradient check, adjoint,... |
124 |
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|
125 |
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checkpoint42 |
126 |
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Fixed AD-related problems: |
127 |
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o Store directives up-to-date with re-arranged Adams-Bashforth |
128 |
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(mainly thermodynamics.F) |
129 |
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o New store directives for multi-dim. advection schemes |
130 |
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* new CPP flag ALLOW_MULTI_DIM_ADVECTION |
131 |
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* new common block and key passkey |
132 |
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(mainly gad_advection.F) |
133 |
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o Modified store directives for split of dynamics/thermodynamics |
134 |
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for the case ALLOW_KPP |
135 |
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o Cleaned argument list for timestep_tracer.F |
136 |
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|
137 |
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checkpoint41 |
138 |
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o re-formatted/added comments in prologues of key subroutines |
139 |
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to work with protex |
140 |
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|
141 |
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checkpoint40 |
142 |
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o moved calc_gs, calc_gt and calc_tr1 back to model/src |
143 |
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o added FLT (floats) package from Arne along with demo. experiment |
144 |
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o re-arranged Adams-Bashforth scheme for tracers to allow easier |
145 |
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implementation of forward-in-time forcing terms |
146 |
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o more mods for non-linear free-surface including new variable |
147 |
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o modified multi-dim method to work on cube |
148 |
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o bug fix in KPP (from DM) |
149 |
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|
150 |
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checkpoint40pre9 |
151 |
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o added DST advection schemes |
152 |
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o fix MPI bug on SGI's |
153 |
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o modifications for non-linear free-surface |
154 |
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o fixed conditionals for fixed flow/passive tracer only mode |
155 |
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o added tension/strain form of stress tensor |
156 |
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o changes to commenting of arguments for TAF/TAMC |
157 |
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o added/updated many matlab scripts |
158 |
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o added multi-dimensional advection method for tracers |
159 |
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160 |
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checkpoint40pre8 |
161 |
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o new package rw/ |
162 |
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Added method for dumping intermediate local arrays: |
163 |
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mdsio_writetile - same as mdsio_writefield except works from inside |
164 |
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bi,bj loop |
165 |
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mdsio_writelocal - same as mdsio_writetile except works for local |
166 |
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arrays |
167 |
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write_local_r? - higher-level wrapper for mdsio_writelocal |
168 |
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Controlled by diagFreq. Defaults to zero (ie. no dumps) |
169 |
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Example given at end of mom_vecinv.F that dumps some local arrays. |
170 |
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o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to |
171 |
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control flux-form versus vector invariant code. |
172 |
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Switch is runtime flag vectorInvariantMomentum (defaults to false) |
173 |
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or genmake -DISABLE ... |
174 |
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o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F |
175 |
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(additional storing is now needed for case vecinv; |
176 |
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currently nothing implemented to switch this storing off |
177 |
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in case fluxform is used since no CPP flag available). |
178 |
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|
179 |
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checkpoint40pre7 |
180 |
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o bug fix in dynamics.F |
181 |
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calc_viscosity called before k=1,Nr loop. |
182 |
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o added some #ifdef's ALLOW_PASSIVE_TRACER |
183 |
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o cleaned initialisations in ctrl_map_ini |
184 |
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related to TAF |
185 |
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186 |
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checkpoint40pre6 |
187 |
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o split dynamics into thermodynamics & dynamics |
188 |
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o corresponding split of calc_diffusivity into |
189 |
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calc_diffusivity, calc_viscosity |
190 |
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(kpp_calc_diff, kpp_calc_visc). |
191 |
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o Added diffkr, kapgm to control variables |
192 |
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o bug fix in gmredi_slope_limit for ldd97 |
193 |
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194 |
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checkpoint40pre5 |
195 |
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o proper initialization of Adams-Bashforth time stepping |
196 |
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+ uses forward step for very first step of model (iter=0) |
197 |
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o re-generated *all* output since almost all output is modified by this |
198 |
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change (sorry but we've been putting this one off for about 2 years) |
199 |
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+ natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were |
200 |
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*not* regenerated since they are already out of date and I don't |
201 |
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want to create the impression that they are suddenly working. |
202 |
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o removed KAP stuff for DEC's |
203 |
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o modified/added many .cvsignore files in */code and */input |
204 |
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o added new expt "solid-body.cs-32x32x1" |
205 |
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+ this uses an alternative form of ini_curvilinear_grid.F which |
206 |
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is not necessarily any better than the current one... |
207 |
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208 |
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checkpoint40pre4 |
209 |
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o added re-initialisations of utrans,vtrans,rtrans in |
210 |
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calc_common_factors which are crucial for TAF. |
211 |
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o extended iMin,jMin range for calc_common_factors, |
212 |
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calc_diffusivity |
213 |
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o added option ALLOW_PASSIVE_TRACER |
214 |
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o a few minor updates and fixes |
215 |
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|
216 |
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checkpoint40pre3 |
217 |
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o created calc_gtr1.F for gad package |
218 |
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o split the_main_loop and re-introduced forward_step |
219 |
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o some recomputations of nIter0 for TAMC |
220 |
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|
221 |
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checkpoint40pre2 |
222 |
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o Updated to latest branch of AJA, JMC |
223 |
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o Added gradient check package |
224 |
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o Added routines for passive tracer handling |
225 |
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o Added carbon sequestration sensitivity experiment |
226 |
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227 |
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checkpoint39 |
228 |
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o Modifications and fixes to support TAMC |
229 |
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(mainly missing or wrong directives) |
230 |
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o Corrected common blocks when fooling TAMC to produce adjoint I/O |
231 |
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in addummy_in_stepping |
232 |
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o Updated verification/vero/ (bug fixes in code/, correct pickups in input/) |
233 |
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o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs. |
234 |
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o Included following packages: |
235 |
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cal: calendar |
236 |
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exf: external forcing |
237 |
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ecco: essential routines to control use of cal, exf |
238 |
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(NB: this is not the full ECCO environment) |
239 |
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o disabled some packages by default in genmake |
240 |
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|
241 |
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checkpoint38 |
242 |
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o see notes_c37_adj.txt |
243 |
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o corrected wrong layer index in external_forcing_t |
244 |
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o replaced the_main_loop/forward_step by the_main_loop |
245 |
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o removed forceoutput from write_state |
246 |
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(replaced criteria for initial/final state) |
247 |
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o added runtime flag for pre-C35 pickups: usePickupBeforeC35 |
248 |
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|
249 |
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checkpoint37 |
250 |
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o mdsio.F routine split and packaged in pkg/mdsio |
251 |
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(mdsio.F and mdsio_gl.F still exist in eesupp/src but are not |
252 |
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used unless genmake -disable=mdsio) |
253 |
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o allow a more precise surface-geopotential gradient for the atmosphere |
254 |
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taking into account the change in space of Alpha (=1/rho) at the surface. |
255 |
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o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit] |
256 |
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(ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa]) |
257 |
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o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and |
258 |
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Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential |
259 |
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[m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere). |
260 |
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o Time-Average diagnostics defined as a pseudo package "timeave". |
261 |
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o pickup files : old pickup (before c35) did not work with new code (c35 |
262 |
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and after) unless activating 2 commented lines in initialise-varia. |
263 |
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o Non-Hydrostatic pickup file Pb fixed. |
264 |
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o bug with Rigid-lid version (since c35) fixed. |
265 |
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|
266 |
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checkpoint36 |
267 |
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o implement Crank-Nickelson barotropic time-stepping |
268 |
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o recover Time-Average diagnostics |
269 |
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o fix Pb in checkpoint (PR#19) |
270 |
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o AIM become a standard package ; clean unused CPP_kees |
271 |
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|
272 |
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checkpoint35 |
273 |
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o subtantial rewrite of dynamics.f |
274 |
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o allows staggered time-stepping |
275 |
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o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt |
276 |
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o added bottom drag (linear + quadratic) |
277 |
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|
278 |
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checkpoint34 |
279 |
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o Modified exchange routines for correct reverse simulation. |
280 |
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o Added verification output to comply with bug fix in impldiff.F |
281 |
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as of c33 (exp2, natl_box). |
282 |
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o Corrected store directives in dynamics.F |
283 |
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o Corrected array boundaries in impldiff.F |
284 |
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o Corrected array dimensions in gmredi. |
285 |
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Added temporary scalars to avoid storage by TAMC (gmredi, kpp). |
286 |
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o Added routine GLOBAL_SUM_INT to global_sum.F |
287 |
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o Added mdsio_gl.F for ECCO purposes. |
288 |
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|
289 |
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checkpoint33 |
290 |
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o Fixed bug in lower BC in impldiff.F |
291 |
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o Fixed confusion about units of forcing arrays in FFIELDS.h |
292 |
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namely Fu,Fv,Qnet,Qsw,EmPmR: |
293 |
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- Removed verification/natl_box/code/external_fields_scale.F |
294 |
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(did not differ from that in model/src) |
295 |
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- Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units |
296 |
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(see FFIELDS.h for description) |
297 |
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- Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F, |
298 |
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kpp_calc.F and kpp_transport_t.F |
299 |
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- Removed model/src/external_fields_scale.F and calls to it |
300 |
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- verification/natl_box uses flux data with "atmospheric" sign so |
301 |
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a special version of external_fields_load.F is used to |
302 |
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change the data as it's read in. This way, the arrays |
303 |
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have the right units and signs at all times tha a user could |
304 |
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possibly use them. |
305 |
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o Corrected genmake to delete a temporary file during configuration |
306 |
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|
307 |
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checkpoint32 |
308 |
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o Scaling of forcing fields moved from external_forcing.F to |
309 |
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external_fields_scale.F, called directly after loading fields. |
310 |
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o Surface relaxation terms added to surface tendency fields in |
311 |
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extra subroutine. |
312 |
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o impldiff.F changed to avoid storing by TAMC of huge intermediate |
313 |
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fields. |
314 |
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o Changes in GMRedi to comply with packaging structure. |
315 |
|
o Modifications and bug fixes in KPP package. |
316 |
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o Verification experiment for KPP added (verification/nat_box/) |
317 |
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|
318 |
|
checkpoint31 |
319 |
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o Packages interface brought in line with defined standard |
320 |
|
-> new routines packages_...F |
321 |
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-> changes in initialise_fixed.F, initialise_varia.F |
322 |
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-> enables initialisation interface for ECCO package |
323 |
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o Rescaling of external forcing fields immediately after read |
324 |
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(removed from external_forcing.F) |
325 |
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-> new: surface_fields_scale.F |
326 |
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-> affects ini_foorcing.F, external_fields_load.F |
327 |
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o Computation of surface tendencies before tendency updates. |
328 |
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-> new: external_forcing_surf.F |
329 |
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o Change of variable names useGMRedi, useKPP, useECCO |
330 |
|
o Further changes in dynamics.F, impldiff.F for TAMC |
331 |
|
o Tested for experiments 0, 2, 4. |
332 |
|
- not yet tested for GMRedi. |
333 |
|
- not yet tested for KPP. |
334 |
|
|
335 |
|
checkpoint30 |
336 |
|
o Updates for OBCs |
337 |
|
o New experiment for test OBCs (internal_wave) |
338 |
|
o New output.txt in verification/exp4/results/ |
339 |
|
o Updates for KPP: calculation of viscosity corrected, new variables |
340 |
|
kpp_dumpFreq and kpp_taveFreq |
341 |
|
o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.) |
342 |
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and entry for T90 in genmake |
343 |
|
|
344 |
|
checkpoint29 |
345 |
|
o packaged KPP and GM/Redi |
346 |
|
|
347 |
|
checkpoint28 |
348 |
|
o Corrected initialization of hFacMin for difference vertical coordinates |
349 |
|
o Modified calculation of partial cell thickness to more robust algorithm |
350 |
|
o config_summary.F: replaced write_1D_... by write_0D_... |
351 |
|
read_write.F: added subroutines write_0D_... |
352 |
|
o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho: |
353 |
|
included some initialisations required for TAMC. |
354 |
|
o routine calc_isoslopes: modified sqrt computation to make it |
355 |
|
differentiable for zero argument. |
356 |
|
o routines dynamics, impldiff: |
357 |
|
included store directives and tape key computations required for TAMC. |
358 |
|
o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC |
359 |
|
|
360 |
checkpoint27 |
checkpoint27 |
361 |
o fixed calc_isoslopes() to so that cancellation of terms in tensor |
o fixed calc_isoslopes() to so that cancellation of terms in tensor |
362 |
formulation works properly with variable resolution. |
formulation works properly with variable resolution. |