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Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
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============================== |
============================== |
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o overhaul of IO so that we now have flags for MDSIO and/or MNC |
| 7 |
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- all verification tests compile and run with linux_ia32_g77 |
| 8 |
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- defaults are compatible with current input files--nothing |
| 9 |
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should change if you were not previously using MNC |
| 10 |
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- MNC output has been added in numerous places (eg. timeave) |
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but there are still a few writes not yet do-able with MNC |
| 12 |
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(this is in progress) |
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- flags now allow for either/or/both use of MDSIO and MNC and |
| 14 |
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documentation will soon follow |
| 15 |
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- numerous small formatting cleanups for ProTeX |
| 16 |
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o add version info (via BUILD_INFO.h) to MNC and stdout |
| 17 |
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| 18 |
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checkpoint54e_post |
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o add two new packages |
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- pp81 (Packanowski and Philander, 1981), Richardson number and |
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stratification dependent mixing |
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- my82 (Mellor and Yamada, 1982) level 2 turbulence closure scheme |
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- these scheme operate in a similar manner as KPP (without ghat, of |
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course), however there is only one diffusivity that is used for both |
| 25 |
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temperature and salinity (and passive tracers)ç |
| 26 |
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o add offline package |
| 27 |
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o add "verification/dic_example" which contains a dic-gchem-ptracer setup |
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provided by Stephanie Dutkiewicz |
| 29 |
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o genmake2: add ability to search for C compilers and cleanup test output |
| 30 |
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- fixes recent SX-6 problems and should help with others (eg. HP-UX) |
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checkpoint54d_post |
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o data.diagnostics: if levels() is unspecified then ALL levels are diagnosed |
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o bug fix in pkg/cal/cal_addtime.F for TheCalendar='model' day count is wrong, |
| 35 |
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leading to additional shift by 5 days each year of integration |
| 36 |
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(i.e. leading to considerable offset over the years) |
| 37 |
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o update global_ocean.cs32x15/thsice: use z* + RealFW + staggerTimeStep |
| 38 |
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o start with no AB and no initial filtering (staggerTimeStep): |
| 39 |
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change the results of test-exp: hs94.128x64x5, hs94.1x64x5 & hs94.cs-32x32x5 |
| 40 |
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o move ocean specific S/R calls from forward_step.F to do_oceanic_phys.F |
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(external loading & cpl import/export stay in forward_step.F) |
| 42 |
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o update coupling interface to work with new staggerTimeStep |
| 43 |
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o change MDSIO ptracers_pickup. |
| 44 |
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o fix a bug in Flux deriv. vs Ts (pkg/aim_v23/phy_suflux_sice.F); |
| 45 |
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o genmake2 fixes so netcdf now works on halem ("osf1_alpha_*") |
| 46 |
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o bugs fixed in kpp_calc.F (ustarY) and external_forcing.F (Qsw & Partial-cell) |
| 47 |
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| 48 |
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checkpoint54c_post |
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o replace surfaceTendency U,V,S,T,Tice,Ptr by surfaceForcing U,V,S,T,Tice,Ptr |
| 50 |
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this affects (truncation error) output.txt of test-exp: |
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global_ocean_ebm,_pressure,.cs32x15(&.thsice), lab_sea & natl_box |
| 52 |
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o pkg/kpp: replace pMask by maskC to reduce memory size (one 3.D array) |
| 53 |
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o change Qnet to always be the net heat flux, (+upward). |
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affects (truncation error) output of natl_box exp.: updated |
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o define the max number of passive tracers in PTRACERS_SIZE.h |
| 56 |
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o start to test mnc routinely in exp0 |
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o add sea-ice loading (sIceLoad) as a new forcing field. |
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checkpoint54b_post |
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o add testreport "-j JOBS" option for parallel builds (tested and pretty |
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impressive on Altix and Opteron systems) |
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o diagnostics can now write NetCDF files through the mnc package |
| 63 |
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o staggerTimeStep & NLFS: update pkg aim_v23 & thsice; update aim.5l_cs output |
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o staggerTimeStep & multi-Dim-Advec: Exch(U,V) added |
| 65 |
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o staggerTimeStep & NLFS: rescale T & S surface tendencies. |
| 66 |
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affects (truncation error) output of lab_sea & natl_box exp.: updated |
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o change pickup _cd & _ptracers (old pickup restart: usePickupBeforeC54=.T.) |
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checkpoint54a_post |
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o re-write staggerTimeStep: step fwd U,V and then T,S (reverse the order). |
| 71 |
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o change pickup file (to restart from old pickup, set usePickupBeforeC54=.T.) |
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o get a perfect restart when using RealFreshWaterFlux + NLFS (not finished) |
| 73 |
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o update output of all exp. that use staggerTimeStep (except hs94.cs & 2D) |
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+ internal_wave (shift in writing cg2d_ini_res) |
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checkpoint54a_pre |
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o require forcing_In_AB=.FALSE. and remove surfaceTendencyTice from pkg/seaice |
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- modified verification/lab_sea and natl_box_adjoint accordingly |
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checkpoint54 |
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checkpoint53g_post |
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o prepare splitting of thermodynamics: store convect.counter in common block |
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o store d.etaH/dt (instead of Div.hV) in common ; affects (truncation error) |
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output of: global_ocean.cs32x15, global_ocean_pressure & internal_wave |
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o cnh's modifs to gad_advection.F for cube-sphere multi-dim advection |
| 86 |
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o new parameter "nShapS": allow to treat differently S from T (nShapT) |
| 87 |
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o separate Vert.Advec.Scheme from horizontal Advec.Scheme (T & S) |
| 88 |
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o restore adjointability |
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checkpoint53f_post |
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o modifications that affect AIM experiment results (update output.txt): |
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- no advection of S at top interface Nr (pkg/generic_advdiff) |
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- air surf. temp: use lower value between T0 & T1 (phy_suflux_prep.F) |
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o AIM pkg: |
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- include stability function into surf.Flux derivative relative to Tsurf |
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- calculate clear-sky radiation & surface temp. change (for diagnostics) |
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| 98 |
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checkpoint53e_post |
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o merged cylindrical coord configuration |
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o added rotating_tank experiment |
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checkpoint53e_pre |
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checkpoint53d_post |
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o faulks upgraded: re-generate output.txt that have changed: |
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global_ocean.cs32x15(.thsice), global_ocean_ebm, lab_sea, natl_box |
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o Added Bryan and Lewis, 1979, vertical diffusivity profile |
| 107 |
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o pkg/land: fix problem in land_impl_temp.F when Ts arround freezing. |
| 108 |
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o added Sadourny discretization of Coriolis |
| 109 |
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- moved some PARAMETERS from mom_*_coriolis.F to PARAMS.h |
| 110 |
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- re-enabled use of omega3 (useAbsVorticity) |
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o added Leith (Phys. Fluids, 1968, 10, 1409-1416) variable viscosity for |
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vector-invariant equations |
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- note: does *NOT* yet use same variable visc. for no-slip BC's. |
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o recoded the lateral boundary conditions for non-hydrostatic w, this time |
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hopefully without new bugs |
| 116 |
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- still to do: biharmonic friction for non-hydrostatic w |
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o bug fix for mom_*_sidedrag: rA -> rAs,rAw |
| 118 |
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o regenerated output for global_ocean_ebm (using -ieee) |
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o fix mom_common/mom_*_sidedrag.F to recover numeric output prior to creation |
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of mom_common/ |
| 121 |
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- simple re-arrangement of instructions within computing loop |
| 122 |
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checkpoint53d_pre |
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checkpoint53c_post |
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o new version of coupler for AIM+thSIce and Ocean models |
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- new fields (SSS,h_MixLayer ...) are exchanged through the coupler |
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- land: change Evaporation of snow |
| 128 |
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- aim with thSIce: fix bug in snow-precip. |
| 129 |
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o changes to calc_gw.F |
| 130 |
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- bug fix for w^2 term near the bottom boundary |
| 131 |
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- (hopefully) improve the lateral slip boundary condtions for use with |
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partial/looped cells |
| 133 |
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- because the bug fix changes two verification experiments anyway (exp5 |
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and plume on slope), change the lateral boundary condition from half slip |
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to the value of no_slip_sides |
| 136 |
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o ebm package wasnt quite up to the parallel task. Fixed that. |
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o Adjoint of EBM package + verification |
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* TLM OK |
| 139 |
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* ADM not sufficient accuracy yet (needs further testing) |
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checkpoint53b_post |
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o Commiting new energy balance model to repository |
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* package is pkg/ebm |
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* verif. is verification/global_ocean_ebm |
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* references are in ebm_driver.F |
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C * X. Wang, P. Stone and J. Marotzke, 1999: |
| 147 |
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C Global thermohaline circulation. Part I: |
| 148 |
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C Sensitivity to atmospheric moisture transport. |
| 149 |
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C J. Climate 12(1), 71-82 |
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C * X. Wang, P. Stone and J. Marotzke, 1999: |
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C Global thermohaline circulation. Part II: |
| 152 |
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C Sensitivity with interactive transport. |
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C J. Climate 12(1), 83-91 |
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C * M. Nakamura, P. Stone and J. Marotzke, 1994: |
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C Destabilization of the thermohaline circulation |
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C by atmospheric eddy transports. |
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C J. Climate 7(12), 1870-1882 |
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o Will need long integration testing. |
| 159 |
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checkpoint53b_pre |
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o created pkg/mom_common in preparation for variable viscosity code |
| 162 |
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o renamed and split ini_mnc_io |
| 163 |
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o pkg/land: only liquid water can diffuse or run-off |
| 164 |
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o AIM using land: soil wetness availability account for snow |
| 165 |
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o added printMapIncludesZeros to EEPARMS namelist |
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| 167 |
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checkpoint53a_post |
| 168 |
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o restore TAMC compatiility for exf_constants.h |
| 169 |
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(no usage of _d in .h) |
| 170 |
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o Additional storing in KPP in an attempt to fix |
| 171 |
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TAMC problem with adjoint of KPP code. |
| 172 |
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(no success...) |
| 173 |
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Identical code works fine with TAF. |
| 174 |
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o Fixed verification/natl_box_adjoint experiments. |
| 175 |
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Initial conditions for Experiments 4 and 5 are now |
| 176 |
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set to "SEAICE_initialHEFF=0", which is more reasonable, |
| 177 |
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and hence gives results closer to that of Experiment 2. |
| 178 |
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Experiment 6 requires "SEAICE_initialHEFF=1" and is working once again. |
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| 180 |
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checkpoint53 |
| 181 |
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o stable checkpoint with up to date adjoint |
| 182 |
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TLM tests only run for 1st grdchk at the moment. Its unclear if |
| 183 |
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this is a code problem or a problem with resetting code for g_ |
| 184 |
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variables that is being autogenerated wrong. |
| 185 |
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Otherwise: |
| 186 |
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o code is testing well on Linux (P4 and AMD), SGI Alitix and Irix. |
| 187 |
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o IBM and HPQ tests could not be run because NCAR (IBM) and NCCS (HPQ) |
| 188 |
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are both still in chaos following their security messes. |
| 189 |
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| 190 |
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checkpoint52n_post |
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o various build (mostly genmake2) changes including: |
| 192 |
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- ability to build/run more easily within Cygwin and MacOS X |
| 193 |
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- more complicated Makefiles with a stronger dependence on Gnu Make |
| 194 |
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o pkg/seaice modifications |
| 195 |
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- added SEAICE_deltaTtherm and SEAICE_deltaTdyn in order to reduce cost |
| 196 |
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of pkg/seaice. For time being, SEAICE_deltaTtherm = deltaTtracer |
| 197 |
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and SEAICE_deltaTdyn must be integer multiple of SEAICE_deltaTtherm |
| 198 |
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- changed proxy for geostrophic velocity and updated |
| 199 |
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verification/lab_sea/results/* accordingly |
| 200 |
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- removed ADI dynamic solver from pkg/seaice |
| 201 |
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- replaced all occurrences of 1/CSTICE or 1/CSUICE |
| 202 |
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they caused a segmentation fault under certain circumstances |
| 203 |
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- removed unused field WATR |
| 204 |
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o bug fix in exf-package: |
| 205 |
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- u/vwind are defined at tracer/pressure points. The values of u/vwindmask |
| 206 |
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now reflect that. |
| 207 |
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o small fixes in the cal-package: |
| 208 |
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- set reference date to first of January for the 'model'-calendar |
| 209 |
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- failing of cal_CheckDate in cal_FullDate now actually results in a |
| 210 |
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warning |
| 211 |
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o small modifications in exf-package to increase flexibility: |
| 212 |
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- change climtempfreeze from a constant to a runtime parameter that |
| 213 |
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is specified in data.exf_clim (default = -1.9) |
| 214 |
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- introduce runtime parameter windstressmax (default = 2.0) that is |
| 215 |
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specified in data.exf |
| 216 |
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o fix in pkg/thsice: |
| 217 |
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- update Evap (Tsf changes) to be consistent with Latent heat flux |
| 218 |
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- maintain snow precipitation unchanged (even if Tsf >=0). |
| 219 |
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both affect global_ocean.cs32x15/(.thsice) results ; update output.txt.thsice |
| 220 |
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|
| 221 |
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checkpoint52m_post |
| 222 |
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o commented out call to cal_GetMonthsRec in swfrac.F and added some comments; |
| 223 |
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this does not change any of the results, because myIter=0 in swfrac always |
| 224 |
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lead to jwtype=2 (the default anyway), but the call makes little sense |
| 225 |
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as a default |
| 226 |
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o no SHORTWAVE HEATING lost at the bottom; affects lab_sea output; updated |
| 227 |
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o re-work pkg/thsice interface with ocean & bulk_force pkg to allow |
| 228 |
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atmospheric model (AIM) to use it ; add a "slab ocean" component. |
| 229 |
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o pkg/aim_v23 : add interface to call thermodynamic sea-ice (thsice) |
| 230 |
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o update global_ocean.cs32x15/output (.thsice) after changes in pkg/thsice |
| 231 |
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o extending useSingleCpuIO option to work with new exch2 I/O format |
| 232 |
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- old-style, missing-tile I/O is still accessible by defining CPP |
| 233 |
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option MISSING_TILE_IO in pkg/mdsio/MDSIO_OPTIONS.h |
| 234 |
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o monitor package can write to NetCDF files and/or STDOUT |
| 235 |
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o fix re-definition bug in MNC_GRID_INIT_ALL() |
| 236 |
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o doc/api_reference added |
| 237 |
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- a framework for building an API Reference Manual using all |
| 238 |
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the "protex" comments embedded in the code |
| 239 |
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- see pkg/generic_advdiff, pkg/mnc for examples |
| 240 |
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o MNC: |
| 241 |
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- make myThid the last argument for all subroutines |
| 242 |
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- new default for the grid files: NO halos |
| 243 |
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- add useMNC and other run-time flags |
| 244 |
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- separate per-file-group handling of the unlimited dimension |
| 245 |
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- early initialization of MNC w/ flags read at the eeboot stage |
| 246 |
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and lookup tables set in initialize_fixed |
| 247 |
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- write all MNC output to a freshly-created directory |
| 248 |
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o thermodynamics sea-ice (thsice) is now tested with testreport. |
| 249 |
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o test exp. advect_cs: use the standard cs32 grid ; update output. |
| 250 |
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o Added functionality to grdchk: |
| 251 |
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pick global i,j,k position (or nearest wet) where to perform check. |
| 252 |
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|
| 253 |
checkpoint52l_post |
checkpoint52l_post |
| 254 |
o new land formulation: |
o new land formulation: |
| 255 |
a) use ground enthalpy as prognostic variable to ensure exact |
a) use ground enthalpy as prognostic variable to ensure exact |
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