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$Header: /u/gcmpack/MITgcm/doc/tag-index,v 1.67 2002/03/06 02:14:02 jmc Exp $ |
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|
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Notes on tags used in MITgcmUV |
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============================== |
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|
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o vertical grid option: allow to put the Interface at the middle between |
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2 cell-centers ; replace delZ in pkg/kpp by drF. |
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o GM Advective form: Tracers are advected using the residual transport (= |
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Euler+GM-bolus); set param GM_AdvSeparate=T to return to previous form. |
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|
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checkpoint44g_post |
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o fix surface correction term in multiDimAdvection (affects plume_on_slope |
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results) ; ifdef missing in thermodynamics.F |
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|
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checkpoint44f_pre,checkpoint44f_post |
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o added PTRACERS package |
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This allows an arbitrary number of passive tracers to be integrated |
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forward simultaneously with the dynamicaly model. |
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+ Implemented so far: |
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- basic forward algorithm (time-stepping, advection, diffusion, convection) |
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- I/O and checkpointing |
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- GM/Redi *but* using the GM/Redi coefficient of Salt |
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+ Not implemented so far: |
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- KPP |
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- OBCS |
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+ No specific example supplied (yet) but global_ocean.90x40x15 has the |
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necessary data.ptracer file. Simply use -enable=ptracers and uncomment |
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line in data.pkg. |
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+ This package is disabled by default since it increases storage. |
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|
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|
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o testscript: added -cleanup option |
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o Shap_filt: a) new shap_filt S/R to use no-slip BC with S2 filter |
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b) enable to filter 2D fields. |
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|
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checkpoint44e_pre,post |
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o re-wrote convective adjustment to use pre-calculated weights |
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Affects: model/src/convective_adjustment.F, convective_adjustment_ini.F |
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Adds: model/src/convective_weights.F, convectively_mixtracer.F |
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Original calls to convect() still in place. |
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|
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chkpt44d_pre,post |
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o added missing EXCLUDE_MONITOR flags |
44 |
o changed "e" to "_d" in gmredi_slope_limit, gmredi_slope_psi |
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(incompatible typ in MIN/MAX expressions caused problems |
46 |
on IBM SP3) |
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o in genmake added variable MAKEDEPEND |
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plus resetting for case SunOS |
49 |
o added timer_stats.c routine for IBM SP3 |
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o removed variables in dynamics |
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!!! I forgot to create tag chkpt44d_pre !!! |
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!!! But chkpt44d_pre = chkpt44c_post !!! |
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|
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o real fresh water flux implemented with non-linear free-surface. |
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|
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chkpt44c_pre,post |
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o few fix (mask in shap_s2, EmPmR in external_field_load, |
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USE_NATURAL_BCS in solve_for_P); |
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o add arguments myIter & myTime to S/R obcs_calc & solve_for_P |
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|
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checkpoint44b_pre/_post |
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o merge of relevant stuff from the ecco-branch: |
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- genmake: removed $S64 overwrite for case SunOS |
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- pkg/exf: update and corrections for field swapping and obcs |
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- pkg/ecco: parameter lists for the_model_main, the_main_loop |
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harmonized between ECCO and MITgcm |
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- pkg/autodiff: added flow directives for obcs, mdsio_gl_slice |
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updated checkpointing_lev... lists for obcs |
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- model/src: minor changes in forward_step, plot_field |
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added directive for divided adjoint in the_main_loop |
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- pkg/mdsio: added mdsio_gl_slice |
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|
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o check parameters & config (chkpt44a_pre,post) |
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o OBC and NonLin_FrSurf. |
75 |
|
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checkpoint44 |
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o fix bug in mom_vi_del2uv |
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o select when filters are applied ; add options to zonal_filter (data.zonfilt) |
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o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection) |
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o update AIM experiments (NCEP input files) |
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o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf) |
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o added some stuff for AD |
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|
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checkpoint43 |
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o added two new advection tests |
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o added global 4x4 degree ocean test |
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o added test of H&S94 with free surface on cube |
88 |
o some final mods for gradient check, adjoint,... |
89 |
|
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checkpoint42 |
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Fixed AD-related problems: |
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o Store directives up-to-date with re-arranged Adams-Bashforth |
93 |
(mainly thermodynamics.F) |
94 |
o New store directives for multi-dim. advection schemes |
95 |
* new CPP flag ALLOW_MULTI_DIM_ADVECTION |
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* new common block and key passkey |
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(mainly gad_advection.F) |
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o Modified store directives for split of dynamics/thermodynamics |
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for the case ALLOW_KPP |
100 |
o Cleaned argument list for timestep_tracer.F |
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|
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checkpoint41 |
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o re-formatted/added comments in prologues of key subroutines |
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to work with protex |
105 |
|
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checkpoint40 |
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o moved calc_gs, calc_gt and calc_tr1 back to model/src |
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o added FLT (floats) package from Arne along with demo. experiment |
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o re-arranged Adams-Bashforth scheme for tracers to allow easier |
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implementation of forward-in-time forcing terms |
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o more mods for non-linear free-surface including new variable |
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o modified multi-dim method to work on cube |
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o bug fix in KPP (from DM) |
114 |
|
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checkpoint40pre9 |
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o added DST advection schemes |
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o fix MPI bug on SGI's |
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o modifications for non-linear free-surface |
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o fixed conditionals for fixed flow/passive tracer only mode |
120 |
o added tension/strain form of stress tensor |
121 |
o changes to commenting of arguments for TAF/TAMC |
122 |
o added/updated many matlab scripts |
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o added multi-dimensional advection method for tracers |
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|
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checkpoint40pre8 |
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o new package rw/ |
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Added method for dumping intermediate local arrays: |
128 |
mdsio_writetile - same as mdsio_writefield except works from inside |
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bi,bj loop |
130 |
mdsio_writelocal - same as mdsio_writetile except works for local |
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arrays |
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write_local_r? - higher-level wrapper for mdsio_writelocal |
133 |
Controlled by diagFreq. Defaults to zero (ie. no dumps) |
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Example given at end of mom_vecinv.F that dumps some local arrays. |
135 |
o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to |
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control flux-form versus vector invariant code. |
137 |
Switch is runtime flag vectorInvariantMomentum (defaults to false) |
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or genmake -DISABLE ... |
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o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F |
140 |
(additional storing is now needed for case vecinv; |
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currently nothing implemented to switch this storing off |
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in case fluxform is used since no CPP flag available). |
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|
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checkpoint40pre7 |
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o bug fix in dynamics.F |
146 |
calc_viscosity called before k=1,Nr loop. |
147 |
o added some #ifdef's ALLOW_PASSIVE_TRACER |
148 |
o cleaned initialisations in ctrl_map_ini |
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related to TAF |
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|
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checkpoint40pre6 |
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o split dynamics into thermodynamics & dynamics |
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o corresponding split of calc_diffusivity into |
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calc_diffusivity, calc_viscosity |
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(kpp_calc_diff, kpp_calc_visc). |
156 |
o Added diffkr, kapgm to control variables |
157 |
o bug fix in gmredi_slope_limit for ldd97 |
158 |
|
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checkpoint40pre5 |
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o proper initialization of Adams-Bashforth time stepping |
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+ uses forward step for very first step of model (iter=0) |
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o re-generated *all* output since almost all output is modified by this |
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change (sorry but we've been putting this one off for about 2 years) |
164 |
+ natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were |
165 |
*not* regenerated since they are already out of date and I don't |
166 |
want to create the impression that they are suddenly working. |
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o removed KAP stuff for DEC's |
168 |
o modified/added many .cvsignore files in */code and */input |
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o added new expt "solid-body.cs-32x32x1" |
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+ this uses an alternative form of ini_curvilinear_grid.F which |
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is not necessarily any better than the current one... |
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|
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checkpoint40pre4 |
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o added re-initialisations of utrans,vtrans,rtrans in |
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calc_common_factors which are crucial for TAF. |
176 |
o extended iMin,jMin range for calc_common_factors, |
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calc_diffusivity |
178 |
o added option ALLOW_PASSIVE_TRACER |
179 |
o a few minor updates and fixes |
180 |
|
181 |
checkpoint40pre3 |
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o created calc_gtr1.F for gad package |
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o split the_main_loop and re-introduced forward_step |
184 |
o some recomputations of nIter0 for TAMC |
185 |
|
186 |
checkpoint40pre2 |
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o Updated to latest branch of AJA, JMC |
188 |
o Added gradient check package |
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o Added routines for passive tracer handling |
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o Added carbon sequestration sensitivity experiment |
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|
192 |
checkpoint39 |
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o Modifications and fixes to support TAMC |
194 |
(mainly missing or wrong directives) |
195 |
o Corrected common blocks when fooling TAMC to produce adjoint I/O |
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in addummy_in_stepping |
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o Updated verification/vero/ (bug fixes in code/, correct pickups in input/) |
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o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs. |
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o Included following packages: |
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cal: calendar |
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exf: external forcing |
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ecco: essential routines to control use of cal, exf |
203 |
(NB: this is not the full ECCO environment) |
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o disabled some packages by default in genmake |
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|
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checkpoint38 |
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o see notes_c37_adj.txt |
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o corrected wrong layer index in external_forcing_t |
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o replaced the_main_loop/forward_step by the_main_loop |
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o removed forceoutput from write_state |
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(replaced criteria for initial/final state) |
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o added runtime flag for pre-C35 pickups: usePickupBeforeC35 |
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|
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checkpoint37 |
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o mdsio.F routine split and packaged in pkg/mdsio |
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(mdsio.F and mdsio_gl.F still exist in eesupp/src but are not |
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used unless genmake -disable=mdsio) |
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o allow a more precise surface-geopotential gradient for the atmosphere |
219 |
taking into account the change in space of Alpha (=1/rho) at the surface. |
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o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit] |
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(ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa]) |
222 |
o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and |
223 |
Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential |
224 |
[m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere). |
225 |
o Time-Average diagnostics defined as a pseudo package "timeave". |
226 |
o pickup files : old pickup (before c35) did not work with new code (c35 |
227 |
and after) unless activating 2 commented lines in initialise-varia. |
228 |
o Non-Hydrostatic pickup file Pb fixed. |
229 |
o bug with Rigid-lid version (since c35) fixed. |
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|
231 |
checkpoint36 |
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o implement Crank-Nickelson barotropic time-stepping |
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o recover Time-Average diagnostics |
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o fix Pb in checkpoint (PR#19) |
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o AIM become a standard package ; clean unused CPP_kees |
236 |
|
237 |
checkpoint35 |
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o subtantial rewrite of dynamics.f |
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o allows staggered time-stepping |
240 |
o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt |
241 |
o added bottom drag (linear + quadratic) |
242 |
|
243 |
checkpoint34 |
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o Modified exchange routines for correct reverse simulation. |
245 |
o Added verification output to comply with bug fix in impldiff.F |
246 |
as of c33 (exp2, natl_box). |
247 |
o Corrected store directives in dynamics.F |
248 |
o Corrected array boundaries in impldiff.F |
249 |
o Corrected array dimensions in gmredi. |
250 |
Added temporary scalars to avoid storage by TAMC (gmredi, kpp). |
251 |
o Added routine GLOBAL_SUM_INT to global_sum.F |
252 |
o Added mdsio_gl.F for ECCO purposes. |
253 |
|
254 |
checkpoint33 |
255 |
o Fixed bug in lower BC in impldiff.F |
256 |
o Fixed confusion about units of forcing arrays in FFIELDS.h |
257 |
namely Fu,Fv,Qnet,Qsw,EmPmR: |
258 |
- Removed verification/natl_box/code/external_fields_scale.F |
259 |
(did not differ from that in model/src) |
260 |
- Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units |
261 |
(see FFIELDS.h for description) |
262 |
- Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F, |
263 |
kpp_calc.F and kpp_transport_t.F |
264 |
- Removed model/src/external_fields_scale.F and calls to it |
265 |
- verification/natl_box uses flux data with "atmospheric" sign so |
266 |
a special version of external_fields_load.F is used to |
267 |
change the data as it's read in. This way, the arrays |
268 |
have the right units and signs at all times tha a user could |
269 |
possibly use them. |
270 |
o Corrected genmake to delete a temporary file during configuration |
271 |
|
272 |
checkpoint32 |
273 |
o Scaling of forcing fields moved from external_forcing.F to |
274 |
external_fields_scale.F, called directly after loading fields. |
275 |
o Surface relaxation terms added to surface tendency fields in |
276 |
extra subroutine. |
277 |
o impldiff.F changed to avoid storing by TAMC of huge intermediate |
278 |
fields. |
279 |
o Changes in GMRedi to comply with packaging structure. |
280 |
o Modifications and bug fixes in KPP package. |
281 |
o Verification experiment for KPP added (verification/nat_box/) |
282 |
|
283 |
checkpoint31 |
284 |
o Packages interface brought in line with defined standard |
285 |
-> new routines packages_...F |
286 |
-> changes in initialise_fixed.F, initialise_varia.F |
287 |
-> enables initialisation interface for ECCO package |
288 |
o Rescaling of external forcing fields immediately after read |
289 |
(removed from external_forcing.F) |
290 |
-> new: surface_fields_scale.F |
291 |
-> affects ini_foorcing.F, external_fields_load.F |
292 |
o Computation of surface tendencies before tendency updates. |
293 |
-> new: external_forcing_surf.F |
294 |
o Change of variable names useGMRedi, useKPP, useECCO |
295 |
o Further changes in dynamics.F, impldiff.F for TAMC |
296 |
o Tested for experiments 0, 2, 4. |
297 |
- not yet tested for GMRedi. |
298 |
- not yet tested for KPP. |
299 |
|
300 |
checkpoint30 |
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o Updates for OBCs |
302 |
o New experiment for test OBCs (internal_wave) |
303 |
o New output.txt in verification/exp4/results/ |
304 |
o Updates for KPP: calculation of viscosity corrected, new variables |
305 |
kpp_dumpFreq and kpp_taveFreq |
306 |
o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.) |
307 |
and entry for T90 in genmake |
308 |
|
309 |
checkpoint29 |
310 |
o packaged KPP and GM/Redi |
311 |
|
312 |
checkpoint28 |
313 |
o Corrected initialization of hFacMin for difference vertical coordinates |
314 |
o Modified calculation of partial cell thickness to more robust algorithm |
315 |
o config_summary.F: replaced write_1D_... by write_0D_... |
316 |
read_write.F: added subroutines write_0D_... |
317 |
o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho: |
318 |
included some initialisations required for TAMC. |
319 |
o routine calc_isoslopes: modified sqrt computation to make it |
320 |
differentiable for zero argument. |
321 |
o routines dynamics, impldiff: |
322 |
included store directives and tape key computations required for TAMC. |
323 |
o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC |
324 |
|
325 |
checkpoint27 |
326 |
o fixed calc_isoslopes() to so that cancellation of terms in tensor |
327 |
formulation works properly with variable resolution. |
328 |
o restructured the calling tree between the_model_main() and dynamics() |
329 |
o split initialise() into initialise_fixed() and initialise_varia() |
330 |
o introduced initialization file pSurfInitFile for free surface (cg2d_x) |
331 |
in new routine ini_psurf() |
332 |
|
333 |
checkpoint26 |
334 |
o moved some #ifdef in optional routines to encompass everything |
335 |
except the argument declarations. This was using up some memory. |
336 |
o fixed macros like _ADT to work with both versions of Linux cpp |
337 |
o cleaned up some unused and uninitialized variables |
338 |
(helps when debugging with strict compile options) |
339 |
o split up CPP_EEOPTIONS.h into options and macros |
340 |
(macros are now in eesupp/inc/CPP_EEMACROS.h) |
341 |
o patch for 2 processor JAM mode |
342 |
|
343 |
checkpoint25 |
344 |
o updates for OBCs and NH |
345 |
o dramatically reduced memory usage |
346 |
o added "JAM" routines for use on Artic network |
347 |
o parameterization of convection by implicit vertical diffusion |
348 |
o added a diagnostic of convective index |
349 |
o moved call to calc_divg_hat() from dynamics() to solve_for_pressure() |
350 |
(this is was partly for OBCs and NH but also in anticipation of |
351 |
an explicit free-surface option) |
352 |
o initial state input files for U and V |
353 |
|
354 |
checkpoint24 |
355 |
o Removed some spurious "REAL"s |
356 |
o Updated KPP to latest version from JPL |
357 |
o Added a COS(latitude) in horizontal viscosity |
358 |
|
359 |
checkpoint23 |
360 |
o Added del^4 diffusion for salt and temperature |
361 |
o Multiple minor fixes (implicit none's, arguments to global_sum, etc.) |
362 |
|
363 |
checkpoint22 |
364 |
o Made many small changes: implicit none, format(i5), etc... |
365 |
o Introduced KPP mixing scheme (compiles and runs but *not* tested) |
366 |
|
367 |
checkpoint21 |
368 |
o Introduced new I/O package that supports direct-access records (mdsio.F) |
369 |
o Split-up mid-level I/O routines |
370 |
o Updated input data for experiments 0,1,2,4 and 5 |
371 |
o Finally removed the genmake.* scripts (everyone seems happy with genmake) |
372 |
|
373 |
checkpoint20 |
374 |
o Tidied up open-boundaries some more |
375 |
o Added non-hydrostatic code |
376 |
o Fixed some input data |
377 |
o Modified MPI start-up to work in "coupled" context. |
378 |
|
379 |
checkpoint19 |
380 |
o Tidied up directory structure for verification experiments. |
381 |
o Added new code for open boundaries. |
382 |
o Corrected advective terms near boundaries. |
383 |
o Added CPP flag for "old UV" geometry and corrected spherical geometry. |
384 |
o Implemented free-slip/no-slip BCs and del^4 dissipation. |
385 |
o Split default parameters out of ini_parms.F into set_defaults.F. |
386 |
|
387 |
checkpoint18 |
388 |
o Further changes for optional code generation with |
389 |
CPP - ugh! |
390 |
|
391 |
checkpoint17 |
392 |
o Beginning to incorporating modularity |
393 |
for supporting atmos. and ocean configs. |
394 |
o Small changes for TAMC complinace |
395 |
o New ultra simple test case. Barotropic box |
396 |
configuration "exp0". |
397 |
|
398 |
checkpoint16 |
399 |
o Minor changes to exchange routines to support |
400 |
accumulation in reverse mode. Adjoint of an |
401 |
assignment is an addition. |
402 |
o Changes to support compilation by TAMC (LR(1) |
403 |
syntax) and by g77 under Linux ( 72 character |
404 |
limit ). |
405 |
|
406 |
checkpoint15 |
407 |
Rewrote exchange routines to allow |
408 |
o General tile <-> tile connectivity. |
409 |
o TAMC reverse mode flag ( is this really needed? ) |
410 |
o Variable width overlap and exchange region widths. |
411 |
o Hooks for sharing data via DMA, Arctic, Memory Channel, |
412 |
shmput/shmget, VIA, SYSV shmem and every other cool |
413 |
communication method. |
414 |
|
415 |
checkpoint14 |
416 |
Consistent isomorphism chages made. These allow dynamical core |
417 |
to support both pressure and meters as a vertical coordinate. |
418 |
|
419 |
checkpoint13 |
420 |
Release which corrects global_max problem and a couple |
421 |
of KGM time-averaging diagnostic errors. Also contains |
422 |
a double-gyre experiment setup as well as the baseline |
423 |
4 degree global template. The double gyre template is |
424 |
organised to allow it to be applied automatically to |
425 |
the baseline configuration. |
426 |
|
427 |
branch-point-rdot |
428 |
A few tidy-ups have been made bt the real point of this |
429 |
check-point (excuse the pun) is to allow a branch to be |
430 |
made for the purposes of adding the rDot alterations. |
431 |
I don't want to commit the rDot to the main-trunk until |
432 |
we've actually tested it... |
433 |
|
434 |
checkpoint12 |
435 |
Tidy up and added generic genmake script (formerly |
436 |
configure script). |
437 |
Released to testers. |
438 |
|
439 |
checkpoint11 |
440 |
Re-arranged initialise() and introduced ini_vertical_grid() |
441 |
and ini_masks_etc(). |
442 |
|
443 |
checkpoint10 |
444 |
Introduced the configure script. |
445 |
Separated out the diags package. |
446 |
Added template for writing time-averages of tile/intermediate quantities. |
447 |
Updated SIZE.h in exp2 and made the data big-endian. |
448 |
|
449 |
checkpoint9 |
450 |
MPI fix. Filename changes (meta/data). salbin*y stuff. |
451 |
General tidy-up. |
452 |
SST.bin SSS.bin added to verification/exp2 |
453 |
|
454 |
checkpoint8 |
455 |
Inludes time-dependant forcing and time-averaging. |
456 |
Works at 4x4 and 2.8125x2.8125 global |
457 |
|
458 |
checkpoint7-4degree-ref |
459 |
Branch from checkpoint7. Released for application to |
460 |
global modeling and general modeling - process studies, regional |
461 |
model etc.. |
462 |
Configured for verification/exp2 - 4 degree global, two process. |
463 |
|
464 |
checkpoint7 |
465 |
Created by cnh |
466 |
Simple 4 degree global simulation |
467 |
configuration. |
468 |
Includes climatological wind, |
469 |
hydrography, bathymetry etc |
470 |
Does not include Heat Flux and E-P |
471 |
|
472 |
checkpoint6 |
473 |
Created by cnh |
474 |
merged checkpoint5 with CD and |
475 |
spherical polar code. |
476 |
Still some problems with GM Redi |
477 |
abd full topography. |
478 |
|
479 |
checkpoint5 |
480 |
Created by AJA |
481 |
contains updates to GM Redi |
482 |
and reordered timestepping loop |
483 |
for Implicit Diffusion. |
484 |
|
485 |
checkpoint4 |
486 |
Created by cnh |
487 |
Contains memory saving macros ( _rdxc etc..) for when |
488 |
grid variations are limited. |
489 |
Contains polynomial coeffs for EOS and knudsen program |
490 |
for generation. |
491 |
|
492 |
checkpoint3 |
493 |
Created by cnh |
494 |
Added extra flags for runtime options |
495 |
Added this file |
496 |
Added implicit free-surface |
497 |
Added pre-conditioner |
498 |
Put compare01 into repository ( compare01/... ) |
499 |
Put data and eedata into repository ( verification/exp1 ) |
500 |
|
501 |
checkpoint2 |
502 |
Created by AJA |
503 |
Added GM/Redi |
504 |
|
505 |
checkpoint1 |
506 |
Created by AJA |
507 |
Restructured kloop in dynamics.F |
508 |
Added non-linear EOS |
509 |
|
510 |
baseline |
511 |
Original checked in code |