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Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
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============================== |
============================== |
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checkpoint46n_post |
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Merging from release1_p8: |
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o verification/natl_box: |
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updating new external_fields_load routine |
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o New package: pkg/seaice |
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Sea ice model by D. Menemenlis (JPL) and Jinlun Zhang (Seattle). |
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The sea-ice code is based on Hibler (1979-1980). |
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Two sea-ice dynamic solvers, ADI and LSR, are included. |
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In addition to computing prognostic sea-ice variables and diagnosing |
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the forcing/external data fields that drive the ocean model, |
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SEAICE_MODEL also sets theta to the freezing point under sea-ice. |
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The implied surface heat flux is then stored in variable |
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surfaceTendencyTice, which is needed by KPP package (kpp_calc.F and |
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kpp_transport_t.F) to diagnose surface buoyancy fluxes and for the |
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non-local transport term. Because this call precedes model |
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thermodynamics, temperature under sea-ice may not be "exactly" at |
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the freezing point by the time theta is dumped or time-averaged. |
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N.B.: fairly large differences in accuracy occur across |
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different platforms/compilers; comparison between |
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g77 (Linux) and F77 (SGI Origin 2000/MIPSpro) |
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generated output gives: |
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T S U V |
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C D M c m s m s m s m s |
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n p a R g m m e . m m e . m m e . m m e . |
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f n k u 2 i a a d i a a d i a a d i a a d |
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g d e n d n x n . n x n . n x n . n x n . |
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|
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Y Y Y Y 5 5 7 7 7 8 10 9 6 6 6 6 7 5 7 5 7 FAIL lab_sea |
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o GAD: |
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- generated new common blocks to account for call of |
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same gad routines with differing traceridentities |
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(needed to modify tracerIdentity indices in GAD.h) |
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- generated separate common blocks for case useCubedSphereExchange |
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(Department of Futurology) |
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- parameter lists to gmredi_?transport: added tracerIdentity |
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- added new key indices to tamc.h |
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o external_fields_load: |
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- added this routine to TAF list |
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- needed to make some common blocks global and additional storing |
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along the same lines as exf package (checkpoint_lev?_directives.h) |
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o exf: |
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updated external forcing package |
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- bug fixes carried over from ecco-branch |
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(missing OBCS_OPTIONS.h in two routines) |
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- enable easy to use "no forcing". |
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- added exf I/O for atmospheric loading |
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- added exf I/O for runoff data |
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- transfered scaling between exf <-> MITgcm to exf namelist |
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o Adding new verification experiment global_with_exf. |
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This verification experiment is almost identical to the |
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global_ocean.90x40x15 experiment, except that it uses |
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the exf (and cal) package instead of the |
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external_fields_load routine (cf README file). |
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checkpoint46m_post |
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o modified testscript to return -- when there are no lines of "%MON" output |
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o added new flag "quasiHydrostatic" for QH mode |
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and new routine quasihydrostaticterms() |
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o added 2*Omega*Cos(phi)*W to u equations (non-hydrostatic Coriolis term) |
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New routine: mom_u_coriolis_nh() |
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o fixed sign of non-hydrostatic metric terms in u and v equations. |
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Depend on correct sign of gravitySign. |
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o added work.pc* to .cvsignore in aim directories using ifc |
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o introduced flag for controllin non-hydrostatic metric terms |
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o removed gravitySign from PARM04 |
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o switched to g77/ifc from pgf77 in aim experiments |
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checkpoint46l_post |
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o made convective adjustment work with pressure coordinates: |
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- changed the direction of k-loop in convective_adjustment.F for the |
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case of pressure coordinates (OCEANICP,ATMOSPHERIC buoyancyRelation) |
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- adjusted the reference pressure k-index in convective_adjustment.F |
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- adjusted the convection condition in convect.F (in analogy to |
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calc_ivdc.F) |
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- convective_adjustment no longer computes anything on the halos |
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- removed the warnings about negative salinity from find_rho.F and |
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find_alpha.F; instead the new routine look_for_neg_salinity, called |
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at the beginning of find_rho, find_alpha, and find_beta, does a |
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check of the entire slice, if CPP-option |
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CHECK_SALINITY_FOR_NEGATIVE_VALUES is defined |
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checkpoint46l_pre |
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checkpoint46k_post |
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o fixed the verification/global_ocean.90x40x15 experiment: |
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- new bathymetry (the world according to A., JMC, and M.) |
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- new initial fields and forcing fields (*.bin files) |
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- new POLY3.COEFFS (for the next release one should switch to a full |
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equation of state: JMD95P or MDJWF) |
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- fixed several errors and redundancies in the data file |
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- experiment uses looped cells |
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- added matlab directory with diagnostic scripts for plotting of output |
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|
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o S/R aim_initialise.F replace S/R aim_init from file aim_do_inphys.F: |
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- read AIM physics parameters from a file (data.aimphys) |
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- set defaults values = F.Molteni paper (Clim.Dyn., 2002) |
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checkpoint46j_post |
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o split calc_exact_eta in 2 S/R : integr_continuity & update_etaH |
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o move wVel computation at the end of the time step, in S/R integr_continuity |
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o create specific S/R to exchange T,S before DYNAMICS (for stagger time step) |
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o update timeave pkg for wVel diagnostic. |
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checkpoint46j_pre |
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checkpoint46i_post |
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o Clean up AIM package (and keep the results unchanged): |
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include CPP_OPTION and use IMPLICT NONE in all routines ; |
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declare all the variables _RL ; use _d 0 for all numerical constants. |
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use ifdef ALLOW_AIM everywhere. And now AIM can be used with g77 ! |
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|
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checkpoint46h_post |
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o cleaned up the use of rhoNil and rhoConst. |
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- rhoNil should only appear in the LINEAR equation of state, everywhere |
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else rhoNil is replaced by rhoConst, e.g. find_rho computes rho-rhoConst |
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and the dynamical equations are all divided by rhoConst |
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o introduced new parameter rhoConstFresh, a reference density of fresh |
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water, to remove the fresh water flux's dependence on rhoNil. The default |
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value is 999.8 kg/m^3 |
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o cleanup up external_forcing.F and external_forcing_surf.F |
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- can now be used by both OCEANIC and OCEANICP |
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checkpoint46h_pre |
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|
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Added code to convert surface volume flux (fresh water) into |
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a mass flux when using P coordinates in the ocean (OCEANICP). |
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Note: It assumes you have set rho0=rhoConst=density of fresh water. |
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|
131 |
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checkpoint46g_post |
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o Include a new diagnostic variable phiHydLow for the ocean model |
133 |
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- in z-coordinates, it is the bottom pressure anomaly |
134 |
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- in p-coordinates, it is the sea surface elevation |
135 |
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- in both cases, these variable have global drift, reflecting the mass |
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drift in z-coordinates and the volume drift in p-coordinates |
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- included time averaging for phiHydLow, be aware of the drift! |
138 |
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o depth-dependent computation of Bo_surf for pressure coordinates |
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in the ocean (buoyancyRelation='OCEANICP') |
140 |
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- requires a new routine (FIND_RHO_SCALAR) to compute density with only |
141 |
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Theta, Salinity, and Pressure in the parameter list. This routine is |
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presently contained in find_rho.F. This routine does not give the |
143 |
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correct density for 'POLY3', which would be a z-dependent reference |
144 |
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density. |
145 |
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o cleaned up find_rho |
146 |
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- removed obsolete 'eqn' from the parameter list. |
147 |
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o added two new verification experiments: gop and goz |
148 |
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(4x4 degree global ocean, 15 layers in pressure and height coordinates) |
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checkpoint46g_pre |
150 |
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|
151 |
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checkpoint46f_post |
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o Enable tangent linear (forward mode) gradient checks: |
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- extended active file handling to g_... files |
154 |
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- added TANGENT_SIMULATION to theSimulationMode |
155 |
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- extended grdchk package accordingly |
156 |
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o added tangent linear setup in verification/carbon/code_ftl |
157 |
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o added adjoint setup in verification/front_relax/code_ad |
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|
159 |
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checkpoint46e_post |
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o Added new equation of state -> MDJWF |
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- EOS of McDougall et al., 2002, JAOT, submitted |
162 |
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- caveat: the equation of state is only valid for a smaller (more |
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realistic?) range of values than JMD95P/Z and UNESCO |
164 |
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- added masks to the calculation of pressure in store_pressure |
165 |
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- added more check values for density in check_eos (ini_eos.F), some of |
166 |
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the old check values are out of the range of the MDJWF-eos, so don't |
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expect perfect matches for those |
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checkpoint46e_pre |
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|
170 |
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checkpoint46d_post |
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o fixed store_pressure to work with both buoyancy relation = 'OCEANIC' and |
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'OCEANICP', also initialised field pressure correctly in ini_eos in the |
173 |
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case of pressure coordinates. eosType='JMD95Z' in |
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combination with buoyancyRelation='OCEANICP' now causes an error. |
175 |
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o Changed p = pressure(i,j,k,bi,bj) to p = pressure(i,j,kRef,bi,bj) |
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in find_alpha/beta. |
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checkpoint46d_pre |
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|
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o Changed p = pressure(i,j,k,bi,bj) to p = pressure(i,j,kRef,bi,bj) |
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so that JMD95Z and JMD95P give approptiate static stability in find_rho. |
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|
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checkpoint46c_post |
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o Changes necessary for ocean in p-coordinates |
184 |
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- Added new buoyancy relation = 'OCEANICP' |
185 |
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- Added new parameters = gravitySign (this used to be contained inside |
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the factor dRdZ which I added when we first switched to R coordinates). |
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X GM/Redi is not compatible (yet) |
188 |
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X bottom drag and no-slip need to be debugged. |
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checkpoint46c_pre |
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checkpoint46b_post |
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o Added new equation of state -> JMD95Z and JMD95P |
193 |
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- EOS of Jackett and McDougall, 1995, JAOT |
194 |
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- moved all EOS parameters into EOS.h |
195 |
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- new routines ini_eos.F, store_pressure.F |
196 |
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o Added UNESCO EOS, but not recommended because it requires |
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in-situ temperature (see JMD95) |
198 |
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o Modified formatting for knudsen2.f in utils/knudsen2 and added |
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unesco.f to be used with POLY3 |
200 |
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checkpoint46b_pre |
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checkpoint46a_post |
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o Added (atmospheric) pressure loading |
204 |
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- new field in FFIELDS.h, etc... |
205 |
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- new cpp flag ATMOSPHERIC_LOADING |
206 |
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o Changed hFacC to _hFacC in calc_phi_hyd.F |
207 |
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o Added SHORTWAVE_HEATING to some files for consistency |
208 |
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checkpoint46a_pre |
209 |
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|
210 |
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checkpoint46 |
211 |
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further merges from release1_p5 |
212 |
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o new ctrl package |
213 |
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- adopted from ECCO environment to enable optimization |
214 |
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- added Eliassen Palm fluxes to controls |
215 |
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o added Eliassen Palm flux controls to gradient check package |
216 |
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o cost package |
217 |
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- Compatible with new ctrl package |
218 |
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- added Eliassen Palm cost hooks |
219 |
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- modif's of existing cost functions |
220 |
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o Adjoint-related bug fixes in kpp: |
221 |
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- kpp_calc: sore of kpphbl avoids recomputation/call to S/R kppmix |
222 |
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- kpp_routines: store of Rib avoids partial recomputation bug of TAF. |
223 |
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o autodiff package |
224 |
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- flow directives: |
225 |
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+ new for S/R do_the_model_io |
226 |
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+ enhanced for S/R checkpoint |
227 |
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+ new gmredi.flow |
228 |
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- Introduced CPP option ALLOW_AUTODIFF_MONITOR to |
229 |
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disable adcommon.h/g_common.h by default. |
230 |
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- fixed problem for adjoint of global_max |
231 |
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o modified verification/carbon/ |
232 |
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o New setup for adjoint of global_ocean |
233 |
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o added hooks for Eliassen Palm fluxes (dynamics.F, ini_fields.F) |
234 |
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o cleaned TAF keys iikey, idkey (dynamics.F, thermodynamics.F) |
235 |
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o incorporated hooks for sponge layer code (external_forcing.F) |
236 |
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|
237 |
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checkpoint45d_post |
238 |
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o import 2 fixes from release1_p5 (CG2D.h & packages_readparms.F) |
239 |
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o use recip_dx*,recip_dy* instead of /dx*,/dy* in orlanski_E,W,N,S |
240 |
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(affects plume_on_slope "cg2d" output) |
241 |
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o add new parameter deltaTfreesurf for free-surface time stepping |
242 |
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o exchange gT,gS when using staggerTimeStep & GM & Oly<4 |
243 |
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o NONLIN_FRSURF: rescale gNm1 to get a better conservation with A-B |
244 |
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o change phiMin in exp1 (to agree with documentation) |
245 |
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o add new flags: |
246 |
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- T,S forcing inside/outside Adams-Bashforth |
247 |
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- turn off temp,salt advection and/or forcing |
248 |
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- for each tracer, define internal flag for multiDimAdvection & A-B |
249 |
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o monitor: change definition of KE to check conservation of Energy |
250 |
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|
251 |
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checkpoint45c_post |
252 |
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o Removed f90 comments ("!") |
253 |
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o Modified initialisations to enable exf package for MITgcm |
254 |
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(without invoking ECCO_PACKAGE). |
255 |
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o modifications to gradient check package (Martin Losch) |
256 |
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- enable centered differences |
257 |
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- modified format of standard output |
258 |
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|
259 |
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checkpoint45b_post |
260 |
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o cleaned exchange calls in cg2d |
261 |
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o Included CPP option ALLOW_AUTODIFF_MONITOR in forward_step |
262 |
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o included CPP option SINGLE_LAYER_MODE in thermodynamics |
263 |
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to configure barotropic setup (Martin Losch) |
264 |
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o moved some initialisations within bi,bj loop in dynamics |
265 |
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(TAF flow dependency) |
266 |
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o in initialise_varia, moved call packages_init_variables |
267 |
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before convective_adjustment_init |
268 |
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(corresponding adjustment of TAF tape initialisation). |
269 |
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o in calc_diffusivity/calc_viscosity extended domain to full overlap. |
270 |
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|
271 |
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checkpoint45a_post |
272 |
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o compute Rho over the whole domain (extend iMin,jMin indices) |
273 |
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o specific exchange for X-slice domain (case Ny=1) |
274 |
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o argument futureIter of S/R obcs_calc missing in exp4 & internal_wave /code |
275 |
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o solve_for_pressure : set cg2d_x to zero where OBCS are applied |
276 |
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|
277 |
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checkpoint44h_post = checkpoint45 |
278 |
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o Fix to restore differentiability: |
279 |
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place at which packages_init_variables is called in |
280 |
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initialise_varia is crucial for reverse control flow. |
281 |
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o modifications in GMRedi to enable stable adjoint |
282 |
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(corresponding modif's in thermodynamics, dynamics) |
283 |
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o added missing hook for sponge layer code in external_forcing |
284 |
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o modified test cost functions |
285 |
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o storing in gad_advection (plus removal of write(0,*)! |
286 |
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o missing headers TR1.h added in convective_adjustment routines |
287 |
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o errorMessageUnit set non-equal zero in eeboot |
288 |
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(conflict on some platforms, e.g. IBM SP3) |
289 |
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o modified carbon verif. |
290 |
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|
291 |
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checkpoint44h_pre |
292 |
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o vertical grid option: allow to put the Interface at the middle between |
293 |
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2 cell-centers ; replace delZ in pkg/kpp by drF. |
294 |
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o GM Advective form: Tracers are advected using the residual transport (= |
295 |
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Euler+GM-bolus); set param GM_AdvSeparate=T to return to previous form. |
296 |
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|
297 |
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checkpoint44g_post |
298 |
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o fix surface correction term in multiDimAdvection (affects plume_on_slope |
299 |
|
results) ; ifdef missing in thermodynamics.F |
300 |
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|
301 |
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checkpoint44f_pre,checkpoint44f_post |
302 |
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o added PTRACERS package |
303 |
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This allows an arbitrary number of passive tracers to be integrated |
304 |
|
forward simultaneously with the dynamicaly model. |
305 |
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+ Implemented so far: |
306 |
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- basic forward algorithm (time-stepping, advection, diffusion, convection) |
307 |
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- I/O and checkpointing |
308 |
|
- GM/Redi *but* using the GM/Redi coefficient of Salt |
309 |
|
+ Not implemented so far: |
310 |
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- KPP |
311 |
|
- OBCS |
312 |
|
+ No specific example supplied (yet) but global_ocean.90x40x15 has the |
313 |
|
necessary data.ptracer file. Simply use -enable=ptracers and uncomment |
314 |
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line in data.pkg. |
315 |
|
+ This package is disabled by default since it increases storage. |
316 |
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|
317 |
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|
318 |
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o testscript: added -cleanup option |
319 |
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o Shap_filt: a) new shap_filt S/R to use no-slip BC with S2 filter |
320 |
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b) enable to filter 2D fields. |
321 |
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|
322 |
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checkpoint44e_pre,post |
323 |
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o re-wrote convective adjustment to use pre-calculated weights |
324 |
|
Affects: model/src/convective_adjustment.F, convective_adjustment_ini.F |
325 |
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Adds: model/src/convective_weights.F, convectively_mixtracer.F |
326 |
|
Original calls to convect() still in place. |
327 |
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|
328 |
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chkpt44d_pre,post |
329 |
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o added missing EXCLUDE_MONITOR flags |
330 |
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o changed "e" to "_d" in gmredi_slope_limit, gmredi_slope_psi |
331 |
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(incompatible typ in MIN/MAX expressions caused problems |
332 |
|
on IBM SP3) |
333 |
|
o in genmake added variable MAKEDEPEND |
334 |
|
plus resetting for case SunOS |
335 |
|
o added timer_stats.c routine for IBM SP3 |
336 |
|
o removed variables in dynamics |
337 |
|
!!! I forgot to create tag chkpt44d_pre !!! |
338 |
|
!!! But chkpt44d_pre = chkpt44c_post !!! |
339 |
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|
340 |
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o real fresh water flux implemented with non-linear free-surface. |
341 |
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|
342 |
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chkpt44c_pre,post |
343 |
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o few fix (mask in shap_s2, EmPmR in external_field_load, |
344 |
|
USE_NATURAL_BCS in solve_for_P); |
345 |
|
o add arguments myIter & myTime to S/R obcs_calc & solve_for_P |
346 |
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|
347 |
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checkpoint44b_pre/_post |
348 |
|
o merge of relevant stuff from the ecco-branch: |
349 |
|
- genmake: removed $S64 overwrite for case SunOS |
350 |
|
- pkg/exf: update and corrections for field swapping and obcs |
351 |
|
- pkg/ecco: parameter lists for the_model_main, the_main_loop |
352 |
|
harmonized between ECCO and MITgcm |
353 |
|
- pkg/autodiff: added flow directives for obcs, mdsio_gl_slice |
354 |
|
updated checkpointing_lev... lists for obcs |
355 |
|
- model/src: minor changes in forward_step, plot_field |
356 |
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added directive for divided adjoint in the_main_loop |
357 |
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- pkg/mdsio: added mdsio_gl_slice |
358 |
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|
359 |
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o check parameters & config (chkpt44a_pre,post) |
360 |
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o OBC and NonLin_FrSurf. |
361 |
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|
362 |
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checkpoint44 |
363 |
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o fix bug in mom_vi_del2uv |
364 |
|
o select when filters are applied ; add options to zonal_filter (data.zonfilt) |
365 |
|
o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection) |
366 |
|
o update AIM experiments (NCEP input files) |
367 |
|
o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf) |
368 |
|
o added some stuff for AD |
369 |
|
|
370 |
|
checkpoint43 |
371 |
|
o added two new advection tests |
372 |
|
o added global 4x4 degree ocean test |
373 |
|
o added test of H&S94 with free surface on cube |
374 |
|
o some final mods for gradient check, adjoint,... |
375 |
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|
376 |
|
checkpoint42 |
377 |
|
Fixed AD-related problems: |
378 |
|
o Store directives up-to-date with re-arranged Adams-Bashforth |
379 |
|
(mainly thermodynamics.F) |
380 |
|
o New store directives for multi-dim. advection schemes |
381 |
|
* new CPP flag ALLOW_MULTI_DIM_ADVECTION |
382 |
|
* new common block and key passkey |
383 |
|
(mainly gad_advection.F) |
384 |
|
o Modified store directives for split of dynamics/thermodynamics |
385 |
|
for the case ALLOW_KPP |
386 |
|
o Cleaned argument list for timestep_tracer.F |
387 |
|
|
388 |
|
checkpoint41 |
389 |
|
o re-formatted/added comments in prologues of key subroutines |
390 |
|
to work with protex |
391 |
|
|
392 |
|
checkpoint40 |
393 |
|
o moved calc_gs, calc_gt and calc_tr1 back to model/src |
394 |
|
o added FLT (floats) package from Arne along with demo. experiment |
395 |
|
o re-arranged Adams-Bashforth scheme for tracers to allow easier |
396 |
|
implementation of forward-in-time forcing terms |
397 |
|
o more mods for non-linear free-surface including new variable |
398 |
|
o modified multi-dim method to work on cube |
399 |
|
o bug fix in KPP (from DM) |
400 |
|
|
401 |
|
checkpoint40pre9 |
402 |
|
o added DST advection schemes |
403 |
|
o fix MPI bug on SGI's |
404 |
|
o modifications for non-linear free-surface |
405 |
|
o fixed conditionals for fixed flow/passive tracer only mode |
406 |
|
o added tension/strain form of stress tensor |
407 |
|
o changes to commenting of arguments for TAF/TAMC |
408 |
|
o added/updated many matlab scripts |
409 |
|
o added multi-dimensional advection method for tracers |
410 |
|
|
411 |
|
checkpoint40pre8 |
412 |
|
o new package rw/ |
413 |
|
Added method for dumping intermediate local arrays: |
414 |
|
mdsio_writetile - same as mdsio_writefield except works from inside |
415 |
|
bi,bj loop |
416 |
|
mdsio_writelocal - same as mdsio_writetile except works for local |
417 |
|
arrays |
418 |
|
write_local_r? - higher-level wrapper for mdsio_writelocal |
419 |
|
Controlled by diagFreq. Defaults to zero (ie. no dumps) |
420 |
|
Example given at end of mom_vecinv.F that dumps some local arrays. |
421 |
|
o replaced calc_mom_rhs.F by mom_fluxform.F/mom_vecinc.F to |
422 |
|
control flux-form versus vector invariant code. |
423 |
|
Switch is runtime flag vectorInvariantMomentum (defaults to false) |
424 |
|
or genmake -DISABLE ... |
425 |
|
o TAMC-related update to cope with mom_fluxform.F/mom_vecinc.F |
426 |
|
(additional storing is now needed for case vecinv; |
427 |
|
currently nothing implemented to switch this storing off |
428 |
|
in case fluxform is used since no CPP flag available). |
429 |
|
|
430 |
|
checkpoint40pre7 |
431 |
|
o bug fix in dynamics.F |
432 |
|
calc_viscosity called before k=1,Nr loop. |
433 |
|
o added some #ifdef's ALLOW_PASSIVE_TRACER |
434 |
|
o cleaned initialisations in ctrl_map_ini |
435 |
|
related to TAF |
436 |
|
|
437 |
|
checkpoint40pre6 |
438 |
|
o split dynamics into thermodynamics & dynamics |
439 |
|
o corresponding split of calc_diffusivity into |
440 |
|
calc_diffusivity, calc_viscosity |
441 |
|
(kpp_calc_diff, kpp_calc_visc). |
442 |
|
o Added diffkr, kapgm to control variables |
443 |
|
o bug fix in gmredi_slope_limit for ldd97 |
444 |
|
|
445 |
|
checkpoint40pre5 |
446 |
|
o proper initialization of Adams-Bashforth time stepping |
447 |
|
+ uses forward step for very first step of model (iter=0) |
448 |
|
o re-generated *all* output since almost all output is modified by this |
449 |
|
change (sorry but we've been putting this one off for about 2 years) |
450 |
|
+ natl_box, aim.5l_Equatorial_Channel and aim.5l_zon-ave were |
451 |
|
*not* regenerated since they are already out of date and I don't |
452 |
|
want to create the impression that they are suddenly working. |
453 |
|
o removed KAP stuff for DEC's |
454 |
|
o modified/added many .cvsignore files in */code and */input |
455 |
|
o added new expt "solid-body.cs-32x32x1" |
456 |
|
+ this uses an alternative form of ini_curvilinear_grid.F which |
457 |
|
is not necessarily any better than the current one... |
458 |
|
|
459 |
|
checkpoint40pre4 |
460 |
|
o added re-initialisations of utrans,vtrans,rtrans in |
461 |
|
calc_common_factors which are crucial for TAF. |
462 |
|
o extended iMin,jMin range for calc_common_factors, |
463 |
|
calc_diffusivity |
464 |
|
o added option ALLOW_PASSIVE_TRACER |
465 |
|
o a few minor updates and fixes |
466 |
|
|
467 |
|
checkpoint40pre3 |
468 |
|
o created calc_gtr1.F for gad package |
469 |
|
o split the_main_loop and re-introduced forward_step |
470 |
|
o some recomputations of nIter0 for TAMC |
471 |
|
|
472 |
|
checkpoint40pre2 |
473 |
|
o Updated to latest branch of AJA, JMC |
474 |
|
o Added gradient check package |
475 |
|
o Added routines for passive tracer handling |
476 |
|
o Added carbon sequestration sensitivity experiment |
477 |
|
|
478 |
|
checkpoint39 |
479 |
|
o Modifications and fixes to support TAMC |
480 |
|
(mainly missing or wrong directives) |
481 |
|
o Corrected common blocks when fooling TAMC to produce adjoint I/O |
482 |
|
in addummy_in_stepping |
483 |
|
o Updated verification/vero/ (bug fixes in code/, correct pickups in input/) |
484 |
|
o Enabled "sliced" (xz-,yz-) exchanges, needed for obcs. |
485 |
|
o Included following packages: |
486 |
|
cal: calendar |
487 |
|
exf: external forcing |
488 |
|
ecco: essential routines to control use of cal, exf |
489 |
|
(NB: this is not the full ECCO environment) |
490 |
|
o disabled some packages by default in genmake |
491 |
|
|
492 |
|
checkpoint38 |
493 |
|
o see notes_c37_adj.txt |
494 |
|
o corrected wrong layer index in external_forcing_t |
495 |
|
o replaced the_main_loop/forward_step by the_main_loop |
496 |
|
o removed forceoutput from write_state |
497 |
|
(replaced criteria for initial/final state) |
498 |
|
o added runtime flag for pre-C35 pickups: usePickupBeforeC35 |
499 |
|
|
500 |
|
checkpoint37 |
501 |
|
o mdsio.F routine split and packaged in pkg/mdsio |
502 |
|
(mdsio.F and mdsio_gl.F still exist in eesupp/src but are not |
503 |
|
used unless genmake -disable=mdsio) |
504 |
|
o allow a more precise surface-geopotential gradient for the atmosphere |
505 |
|
taking into account the change in space of Alpha (=1/rho) at the surface. |
506 |
|
o variable "etaN" (replace cg2d_x) is the surface R-anomaly [r unit] |
507 |
|
(ocean: sea surface height [m] / atmos: surface pressure anomaly [Pa]) |
508 |
|
o Change units: Phi_Hydrostatic (=phiHyd), Phi_Surface(=cg2d_x) and |
509 |
|
Phi_NonHydrostatic (=cg3d_x), all have now the dimension of a potential |
510 |
|
[m2/s2] (pressure/rhoConst in the ocean ; Geo-Potential in the atmosphere). |
511 |
|
o Time-Average diagnostics defined as a pseudo package "timeave". |
512 |
|
o pickup files : old pickup (before c35) did not work with new code (c35 |
513 |
|
and after) unless activating 2 commented lines in initialise-varia. |
514 |
|
o Non-Hydrostatic pickup file Pb fixed. |
515 |
|
o bug with Rigid-lid version (since c35) fixed. |
516 |
|
|
517 |
|
checkpoint36 |
518 |
|
o implement Crank-Nickelson barotropic time-stepping |
519 |
|
o recover Time-Average diagnostics |
520 |
|
o fix Pb in checkpoint (PR#19) |
521 |
|
o AIM become a standard package ; clean unused CPP_kees |
522 |
|
|
523 |
|
checkpoint35 |
524 |
|
o subtantial rewrite of dynamics.f |
525 |
|
o allows staggered time-stepping |
526 |
|
o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt |
527 |
|
o added bottom drag (linear + quadratic) |
528 |
|
|
529 |
|
checkpoint34 |
530 |
|
o Modified exchange routines for correct reverse simulation. |
531 |
|
o Added verification output to comply with bug fix in impldiff.F |
532 |
|
as of c33 (exp2, natl_box). |
533 |
|
o Corrected store directives in dynamics.F |
534 |
|
o Corrected array boundaries in impldiff.F |
535 |
|
o Corrected array dimensions in gmredi. |
536 |
|
Added temporary scalars to avoid storage by TAMC (gmredi, kpp). |
537 |
|
o Added routine GLOBAL_SUM_INT to global_sum.F |
538 |
|
o Added mdsio_gl.F for ECCO purposes. |
539 |
|
|
540 |
|
checkpoint33 |
541 |
|
o Fixed bug in lower BC in impldiff.F |
542 |
|
o Fixed confusion about units of forcing arrays in FFIELDS.h |
543 |
|
namely Fu,Fv,Qnet,Qsw,EmPmR: |
544 |
|
- Removed verification/natl_box/code/external_fields_scale.F |
545 |
|
(did not differ from that in model/src) |
546 |
|
- Changed units of fu,fv,Qnet,Qsw,EmPmR back to proper units |
547 |
|
(see FFIELDS.h for description) |
548 |
|
- Scale fu,fv,Qnet,Qsw,EmPmR when used in external_forcing_surf.F, |
549 |
|
kpp_calc.F and kpp_transport_t.F |
550 |
|
- Removed model/src/external_fields_scale.F and calls to it |
551 |
|
- verification/natl_box uses flux data with "atmospheric" sign so |
552 |
|
a special version of external_fields_load.F is used to |
553 |
|
change the data as it's read in. This way, the arrays |
554 |
|
have the right units and signs at all times tha a user could |
555 |
|
possibly use them. |
556 |
|
o Corrected genmake to delete a temporary file during configuration |
557 |
|
|
558 |
|
checkpoint32 |
559 |
|
o Scaling of forcing fields moved from external_forcing.F to |
560 |
|
external_fields_scale.F, called directly after loading fields. |
561 |
|
o Surface relaxation terms added to surface tendency fields in |
562 |
|
extra subroutine. |
563 |
|
o impldiff.F changed to avoid storing by TAMC of huge intermediate |
564 |
|
fields. |
565 |
|
o Changes in GMRedi to comply with packaging structure. |
566 |
|
o Modifications and bug fixes in KPP package. |
567 |
|
o Verification experiment for KPP added (verification/nat_box/) |
568 |
|
|
569 |
|
checkpoint31 |
570 |
|
o Packages interface brought in line with defined standard |
571 |
|
-> new routines packages_...F |
572 |
|
-> changes in initialise_fixed.F, initialise_varia.F |
573 |
|
-> enables initialisation interface for ECCO package |
574 |
|
o Rescaling of external forcing fields immediately after read |
575 |
|
(removed from external_forcing.F) |
576 |
|
-> new: surface_fields_scale.F |
577 |
|
-> affects ini_foorcing.F, external_fields_load.F |
578 |
|
o Computation of surface tendencies before tendency updates. |
579 |
|
-> new: external_forcing_surf.F |
580 |
|
o Change of variable names useGMRedi, useKPP, useECCO |
581 |
|
o Further changes in dynamics.F, impldiff.F for TAMC |
582 |
|
o Tested for experiments 0, 2, 4. |
583 |
|
- not yet tested for GMRedi. |
584 |
|
- not yet tested for KPP. |
585 |
|
|
586 |
|
checkpoint30 |
587 |
|
o Updates for OBCs |
588 |
|
o New experiment for test OBCs (internal_wave) |
589 |
|
o New output.txt in verification/exp4/results/ |
590 |
|
o Updates for KPP: calculation of viscosity corrected, new variables |
591 |
|
kpp_dumpFreq and kpp_taveFreq |
592 |
|
o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.) |
593 |
|
and entry for T90 in genmake |
594 |
|
|
595 |
|
checkpoint29 |
596 |
|
o packaged KPP and GM/Redi |
597 |
|
|
598 |
|
checkpoint28 |
599 |
|
o Corrected initialization of hFacMin for difference vertical coordinates |
600 |
|
o Modified calculation of partial cell thickness to more robust algorithm |
601 |
|
o config_summary.F: replaced write_1D_... by write_0D_... |
602 |
|
read_write.F: added subroutines write_0D_... |
603 |
|
o routines calc_common_factors, calc_gs, calc_gt, calc_phi_hyd, find_rho: |
604 |
|
included some initialisations required for TAMC. |
605 |
|
o routine calc_isoslopes: modified sqrt computation to make it |
606 |
|
differentiable for zero argument. |
607 |
|
o routines dynamics, impldiff: |
608 |
|
included store directives and tape key computations required for TAMC. |
609 |
|
o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC |
610 |
|
|
611 |
|
checkpoint27 |
612 |
|
o fixed calc_isoslopes() to so that cancellation of terms in tensor |
613 |
|
formulation works properly with variable resolution. |
614 |
|
o restructured the calling tree between the_model_main() and dynamics() |
615 |
|
o split initialise() into initialise_fixed() and initialise_varia() |
616 |
|
o introduced initialization file pSurfInitFile for free surface (cg2d_x) |
617 |
|
in new routine ini_psurf() |
618 |
|
|
619 |
|
checkpoint26 |
620 |
|
o moved some #ifdef in optional routines to encompass everything |
621 |
|
except the argument declarations. This was using up some memory. |
622 |
|
o fixed macros like _ADT to work with both versions of Linux cpp |
623 |
|
o cleaned up some unused and uninitialized variables |
624 |
|
(helps when debugging with strict compile options) |
625 |
|
o split up CPP_EEOPTIONS.h into options and macros |
626 |
|
(macros are now in eesupp/inc/CPP_EEMACROS.h) |
627 |
|
o patch for 2 processor JAM mode |
628 |
|
|
629 |
|
checkpoint25 |
630 |
|
o updates for OBCs and NH |
631 |
|
o dramatically reduced memory usage |
632 |
|
o added "JAM" routines for use on Artic network |
633 |
|
o parameterization of convection by implicit vertical diffusion |
634 |
|
o added a diagnostic of convective index |
635 |
|
o moved call to calc_divg_hat() from dynamics() to solve_for_pressure() |
636 |
|
(this is was partly for OBCs and NH but also in anticipation of |
637 |
|
an explicit free-surface option) |
638 |
|
o initial state input files for U and V |
639 |
|
|
640 |
|
checkpoint24 |
641 |
|
o Removed some spurious "REAL"s |
642 |
|
o Updated KPP to latest version from JPL |
643 |
|
o Added a COS(latitude) in horizontal viscosity |
644 |
|
|
645 |
|
checkpoint23 |
646 |
|
o Added del^4 diffusion for salt and temperature |
647 |
|
o Multiple minor fixes (implicit none's, arguments to global_sum, etc.) |
648 |
|
|
649 |
|
checkpoint22 |
650 |
|
o Made many small changes: implicit none, format(i5), etc... |
651 |
|
o Introduced KPP mixing scheme (compiles and runs but *not* tested) |
652 |
|
|
653 |
checkpoint21 |
checkpoint21 |
654 |
o Introduced new I/O package that supports direct-access records (mdsio.F) |
o Introduced new I/O package that supports direct-access records (mdsio.F) |
655 |
o Split-up mid-level I/O routines |
o Split-up mid-level I/O routines |