--- MITgcm/doc/tag-index 2000/04/05 15:37:10 1.25 +++ MITgcm/doc/tag-index 2002/02/10 20:07:14 1.60 @@ -1,8 +1,287 @@ -$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.25 2000/04/05 15:37:10 adcroft Exp $ +$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.60 2002/02/10 20:07:14 jmc Exp $ Notes on tags used in MITgcmUV ============================== +o real fresh water flux implemented with non-linear free-surface. + +chkpt44c_pre,post +o few fix (mask in shap_s2, EmPmR in external_field_load, + USE_NATURAL_BCS in solve_for_P); +o add arguments myIter & myTime to S/R obcs_calc & solve_for_P + +checkpoint44b_pre/_post +o merge of relevant stuff from the ecco-branch: + - genmake: removed $S64 overwrite for case SunOS + - pkg/exf: update and corrections for field swapping and obcs + - pkg/ecco: parameter lists for the_model_main, the_main_loop + harmonized between ECCO and MITgcm + - pkg/autodiff: added flow directives for obcs, mdsio_gl_slice + updated checkpointing_lev... lists for obcs + - model/src: minor changes in forward_step, plot_field + added directive for divided adjoint in the_main_loop + - pkg/mdsio: added mdsio_gl_slice + +o check parameters & config (chkpt44a_pre,post) +o OBC and NonLin_FrSurf. + +checkpoint44 +o fix bug in mom_vi_del2uv +o select when filters are applied ; add options to zonal_filter (data.zonfilt) +o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection) +o update AIM experiments (NCEP input files) +o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf) +o added some stuff for AD + +checkpoint43 +o added two new advection tests +o added global 4x4 degree ocean test +o added test of H&S94 with free surface on cube +o some final mods for gradient check, adjoint,... + +checkpoint42 + Fixed AD-related problems: +o Store directives up-to-date with re-arranged Adams-Bashforth + (mainly thermodynamics.F) +o New store directives for multi-dim. advection schemes + * new CPP flag ALLOW_MULTI_DIM_ADVECTION + * new common block and key passkey + (mainly gad_advection.F) +o Modified store directives for split of dynamics/thermodynamics + for the case ALLOW_KPP +o Cleaned argument list for timestep_tracer.F + +checkpoint41 +o re-formatted/added comments in prologues of key subroutines + to work with protex + +checkpoint40 +o moved calc_gs, calc_gt and calc_tr1 back to model/src +o added FLT (floats) package from Arne along with demo. experiment +o re-arranged Adams-Bashforth scheme for tracers to allow easier + implementation of forward-in-time forcing terms +o more mods for non-linear free-surface including new variable +o modified multi-dim method to work on cube +o bug fix in KPP (from DM) + +checkpoint40pre9 +o added DST advection schemes +o fix MPI bug on SGI's +o modifications for non-linear free-surface +o fixed conditionals for fixed flow/passive tracer only mode +o added tension/strain form of stress tensor +o changes to commenting of arguments for TAF/TAMC +o added/updated many matlab scripts +o added multi-dimensional advection method for tracers + +checkpoint40pre8 +o new package rw/ + Added method for dumping intermediate local arrays: + mdsio_writetile - same as mdsio_writefield except works from inside + bi,bj loop + mdsio_writelocal - same as mdsio_writetile except works for local + arrays + write_local_r? - higher-level wrapper for mdsio_writelocal + Controlled by diagFreq. Defaults to zero (ie. no dumps) + Example given at end of mom_vecinv.F that dumps some local arrays. +o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to + control flux-form versus vector invariant code. + Switch is runtime flag vectorInvariantMomentum (defaults to false) + or genmake -DISABLE ... +o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F + (additional storing is now needed for case vecinv; + currently nothing implemented to switch this storing off + in case fluxform is used since no CPP flag available). + +checkpoint40pre7 +o bug fix in dynamics.F + calc_viscosity called before k=1,Nr loop. +o added some #ifdef's ALLOW_PASSIVE_TRACER +o cleaned initialisations in ctrl_map_ini + related to TAF + +checkpoint40pre6 +o split dynamics into thermodynamics & dynamics +o corresponding split of calc_diffusivity into + calc_diffusivity, calc_viscosity + (kpp_calc_diff, kpp_calc_visc). +o Added diffkr, kapgm to control variables +o bug fix in gmredi_slope_limit for ldd97 + +checkpoint40pre5 +o proper initialization of Adams-Bashforth time stepping + + uses forward step for very first step of model (iter=0) +o re-generated *all* output since almost all output is modified by this + change (sorry but we've been putting this one off for about 2 years) + + natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were + *not* regenerated since they are already out of date and I don't + want to create the impression that they are suddenly working. +o removed KAP stuff for DEC's +o modified/added many .cvsignore files in */code and */input +o added new expt "solid-body.cs-32x32x1" + + this uses an alternative form of ini_curvilinear_grid.F which + is not necessarily any better than the current one... + +checkpoint40pre4 +o added re-initialisations of utrans,vtrans,rtrans in + calc_common_factors which are crucial for TAF. +o extended iMin,jMin range for calc_common_factors, + calc_diffusivity +o added option ALLOW_PASSIVE_TRACER +o a few minor updates and fixes + +checkpoint40pre3 +o created calc_gtr1.F for gad package +o split the_main_loop and re-introduced forward_step +o some recomputations of nIter0 for TAMC + +checkpoint40pre2 +o Updated to latest branch of AJA, JMC +o Added gradient check package +o Added routines for passive tracer handling +o Added carbon sequestration sensitivity experiment + +checkpoint39 + o Modifications and fixes to support TAMC + (mainly missing or wrong directives) + o Corrected common blocks when fooling TAMC to produce adjoint I/O + in addummy_in_stepping + o Updated verification/vero/ (bug fixes in code/, correct pickups in input/) + o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs. + o Included following packages: + cal: calendar + exf: external forcing + ecco: essential routines to control use of cal, exf + (NB: this is not the full ECCO environment) + o disabled some packages by default in genmake + +checkpoint38 + o see notes_c37_adj.txt + o corrected wrong layer index in external_forcing_t + o replaced the_main_loop/forward_step by the_main_loop + o removed forceoutput from write_state + (replaced criteria for initial/final state) + o added runtime flag for pre-C35 pickups: usePickupBeforeC35 + +checkpoint37 + o mdsio.F routine split and packaged in pkg/mdsio + (mdsio.F and mdsio_gl.F still exist in eesupp/src but are not + used unless genmake -disable=mdsio) + o allow a more precise surface-geopotential gradient for the atmosphere + taking into account the change in space of Alpha (=1/rho) at the surface. + o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit] + (ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa]) + o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and + Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential + [m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere). + o Time-Average diagnostics defined as a pseudo package "timeave". + o pickup files : old pickup (before c35) did not work with new code (c35 + and after) unless activating 2 commented lines in initialise-varia. + o Non-Hydrostatic pickup file Pb fixed. + o bug with Rigid-lid version (since c35) fixed. + +checkpoint36 + o implement Crank-Nickelson barotropic time-stepping + o recover Time-Average diagnostics + o fix Pb in checkpoint (PR#19) + o AIM become a standard package ; clean unused CPP_kees + +checkpoint35 + o subtantial rewrite of dynamics.f + o allows staggered time-stepping + o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt + o added bottom drag (linear + quadratic) + +checkpoint34 + o Modified exchange routines for correct reverse simulation. + o Added verification output to comply with bug fix in impldiff.F + as of c33 (exp2, natl_box). + o Corrected store directives in dynamics.F + o Corrected array boundaries in impldiff.F + o Corrected array dimensions in gmredi. + Added temporary scalars to avoid storage by TAMC (gmredi, kpp). + o Added routine GLOBAL_SUM_INT to global_sum.F + o Added mdsio_gl.F for ECCO purposes. + +checkpoint33 + o Fixed bug in lower BC in impldiff.F + o Fixed confusion about units of forcing arrays in FFIELDS.h + namely Fu,Fv,Qnet,Qsw,EmPmR: + - Removed verification/natl_box/code/external_fields_scale.F + (did not differ from that in model/src) + - Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units + (see FFIELDS.h for description) + - Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F, + kpp_calc.F and kpp_transport_t.F + - Removed model/src/external_fields_scale.F and calls to it + - verification/natl_box uses flux data with "atmospheric" sign so + a special version of external_fields_load.F is used to + change the data as it's read in. This way, the arrays + have the right units and signs at all times tha a user could + possibly use them. + o Corrected genmake to delete a temporary file during configuration + +checkpoint32 + o Scaling of forcing fields moved from external_forcing.F to + external_fields_scale.F, called directly after loading fields. + o Surface relaxation terms added to surface tendency fields in + extra subroutine. + o impldiff.F changed to avoid storing by TAMC of huge intermediate + fields. + o Changes in GMRedi to comply with packaging structure. + o Modifications and bug fixes in KPP package. + o Verification experiment for KPP added (verification/nat_box/) + +checkpoint31 + o Packages interface brought in line with defined standard + -> new routines packages_...F + -> changes in initialise_fixed.F, initialise_varia.F + -> enables initialisation interface for ECCO package + o Rescaling of external forcing fields immediately after read + (removed from external_forcing.F) + -> new: surface_fields_scale.F + -> affects ini_foorcing.F, external_fields_load.F + o Computation of surface tendencies before tendency updates. + -> new: external_forcing_surf.F + o Change of variable names useGMRedi, useKPP, useECCO + o Further changes in dynamics.F, impldiff.F for TAMC + o Tested for experiments 0, 2, 4. + - not yet tested for GMRedi. + - not yet tested for KPP. + +checkpoint30 + o Updates for OBCs + o New experiment for test OBCs (internal_wave) + o New output.txt in verification/exp4/results/ + o Updates for KPP: calculation of viscosity corrected, new variables + kpp_dumpFreq and kpp_taveFreq + o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.) + and entry for T90 in genmake + +checkpoint29 + o packaged KPP and GM/Redi + +checkpoint28 + o Corrected initialization of hFacMin for difference vertical coordinates + o Modified calculation of partial cell thickness to more robust algorithm + o config_summary.F: replaced write_1D_... by write_0D_... + read_write.F: added subroutines write_0D_... + o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho: + included some initialisations required for TAMC. + o routine calc_isoslopes: modified sqrt computation to make it + differentiable for zero argument. + o routines dynamics, impldiff: + included store directives and tape key computations required for TAMC. + o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC + +checkpoint27 + o fixed calc_isoslopes() to so that cancellation of terms in tensor + formulation works properly with variable resolution. + o restructured the calling tree between the_model_main() and dynamics() + o split initialise() into initialise_fixed() and initialise_varia() + o introduced initialization file pSurfInitFile for free surface (cg2d_x) + in new routine ini_psurf() + checkpoint26 o moved some #ifdef in optional routines to encompass everything except the argument declarations. This was using up some memory.