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Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
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============================== |
============================== |
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checkpoint65t (2016/02/10) |
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o pkg/atm_phys: |
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- from Ruth Geen: add optical depth dependence on CO2 concentration. |
| 10 |
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o model/src: |
| 11 |
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- fix vertical inter/extra-polation of density factor rhoFacF (for anelastic) |
| 12 |
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for the case setCenterDr=T (delRc set from "data"); add output of rhoFacC&F. |
| 13 |
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Update output of exp. deep_anelastic (changes at truncation level). |
| 14 |
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o tools: |
| 15 |
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- add a hack in "remove_comments_sed" (used only with TAF) for recent |
| 16 |
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version of OpenMPI (shipped with FC.23): comment out the new header |
| 17 |
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file "mpif-sizeof.h" which causes problems to TAF. |
| 18 |
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o pkg/seaice: |
| 19 |
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- change the termination criterion so that maxits (SEAICElinearIterMax) |
| 20 |
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has an effect |
| 21 |
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- unify iteration parameters for implicit solvers (JFNK and Picard) |
| 22 |
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SEAICEnonLinIterMax replaces SEAICEnewtonIterMax/NPSEUDOTIMESTEPS |
| 23 |
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SEAICElinearIterMax replaces SEAICEkrylovIterMax/SOLV_MAX_ITER |
| 24 |
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SEAICEpreLinIterMax replaces SOLV_MAX_ITER in preconditioner |
| 25 |
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SEAICEpreNL_IterMax replaces NPSEUDOTIMESTEPS in preconditioner |
| 26 |
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SEAICEnonLinTol replaces JFNKgamma_nonlin |
| 27 |
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- remove S/R SEAICE_FGMRES_DRIVER and put content into S/R SEAICE_JFKN |
| 28 |
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- add new Picard-Krylov solver, compile with SEAICE_ALLOW_KRYLOV and |
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use with SEAICEuseKrylov |
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o pkg/seaice/seaice_lsr.F |
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fix small bug: replace zetaZ by zetaZloc in S/R seaice_lsr_rhsu/v; only |
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relevant if SEAICEuseStrImpCpl=T, and even then it does not seem to have |
| 33 |
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an effect. |
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o pkg/seaice: add two new parameters |
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- SEAICEuseLSR to simplify the logic in seaice_dynsolver (this |
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parameter is not in any namelist) |
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- SEAICEusrPicardAsPrecon to allow s/r seaice_lsr to be used as |
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a preconditioner for the non-linear Newton iteration of the JFNK |
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solver |
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o pkg/seaice/seaice_lsr.F: replace 1./SEAICE_deltaTdyn with recip_deltaT, |
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affects some experiments at truncation level: |
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- global_ocean.cs32x15.icedyn (11 digits), |
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- global_ocean.cs32x15.seaice (11 digits), |
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- seaice_itd (12 digits), seaice_itd.lipscomb07 (12 digits) -> update |
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- also update global_ocean.cs32x15 adjoint and tangent-linear results |
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o pkg/salt_plume & pkg/thsice: |
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- for coupled set-up with pkg/thsice in ATM and pkg/salt_plume in OCN, |
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connect salt_plume flux to ATM-OCN coupling pkgs interface: |
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a) in ATM: also cumulate salt-plume flux in S/R THSICE_SALT_PLUME (for |
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export to coupler interface) even without compiling pkg/salt_plume ; |
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b) in OCN: apply coupler salt-plume flux to pkg/salt_plume field |
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(saltPlumeFlux) just before exch call, in S/R SALT_PLUME_DO_EXCH. |
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o pkg/dic: |
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- use the updated seaice fraction (from seaice pkgs) for DIC forcing |
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instead of the previous time-step value ; done in new S/R DIC_FIELDS_UPDATE |
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called from the top of dic_biotic_forcing.F (instead of in DIC_FIELDS_LOAD); |
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- move also update with values from ATM-OCN Coupler in the same new S/R |
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(previously done in ocn_apply_import.F). |
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o tools/adjoint_options: |
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- specify explicitly "-f77" or "-f90" in default ad-optfile since TAF (default) |
| 61 |
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has been changed on Jan 14, 2016. |
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o pkg/ggl90: |
| 63 |
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- add alternative discretisation of vertical shear (off by default), to |
| 64 |
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compute the mean (@ grid-cell center) of vertical shear compon instead of |
| 65 |
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vertical shear of mean flow (@ grid-cell center). |
| 66 |
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- add correct parenthesis in ALLOW_GGL90_SMOOTH code to get the same truncated |
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results on adjacent faces of cubed-sphere grids; this fix the restart. |
| 68 |
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o pkg/atm_compon_interf: |
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- skip time-ave over cpl_atmSendFrq of Sea-Level Pressure (atmSLPr) and just |
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pass last value, stored directly before export to CPL ; |
| 71 |
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Note: this affects results of Coupled set-up where OCN uses useImportSLP=T |
| 72 |
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- remove atmSLPr from pickup files (no longer needed for restart) |
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|
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checkpoint65s (2016/01/13) |
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o eesupp & genmake2: |
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- first check for Function ETIME and, if it fails, then check for subroutine |
| 77 |
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ETIME and consistent output; use the appropriate version in timers.F |
| 78 |
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o model/src: |
| 79 |
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- to check restart test, add option to apply EXCH to U,V earlier, just before |
| 80 |
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integr_continuity; turned off by default. |
| 81 |
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o pkg/dic: |
| 82 |
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- remove CPP option USE_ATMOSCO2 (not needed) |
| 83 |
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o tools/tst_2+2: |
| 84 |
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- try to ignore difference between +0 and -0 in binary file, causing test |
| 85 |
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to fail for no good reason. |
| 86 |
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o eesupp & genmake2: |
| 87 |
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- put back modif from Jinxuan Zhu - change etime fct call to S/R call - |
| 88 |
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but also check (in genmake2) that test runs and returns meaningful results. |
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o coupler pkgs: |
| 90 |
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Finish implementation of optionally-exchanged variable switches (started on |
| 91 |
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Nov 12) with addition of few more exchanged fields, including 2-way exchange |
| 92 |
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of pkg/thsice vars to allow to use seaice dynamics (from pkg/seaice) & seaice |
| 93 |
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advection in OCN component; this requires sequential coupling. |
| 94 |
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coupler (pkg/atm_ocn_coupler): |
| 95 |
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- add argument msgUnit and iter number to CPL_SEND/RECV_ATM/OCN_FIELDS |
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routines (useful for debug). |
| 97 |
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- only export/import optionally exchanged fields (RunOff, seaice, Salt-Plume |
| 98 |
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flux, DIC fields) if corresponding switch is ON. |
| 99 |
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- add option to export RunOff to OCN (to use for DIC river input) |
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- add 2-way thSIce vars exchange; check for consistent cpl_sequential setting. |
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components (pkg/atm_ & ocn_compon_interf): |
| 102 |
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- to save memory space in ATM & OCN comp: add some #ifdef ALLOW_${PKG} around |
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optionally exchanged fields; add a check & stop in cpl_readparms.F. |
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ATMCPL.h: ALLOW_LAND for RunOff, ALLOW_THSICE for seaice, ALLOW_AIM for CO2; |
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OCNCPL.h: ALLOW_SALT_PLUME, ALLOW_DIC for DIC, ALLOW_THSICE for 2-W thsice. |
| 106 |
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- rename: fracIce -> sIceFrac_cpl (<- match coupler var name) |
| 107 |
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+ in ATM: fracIceTime -> sIceFracTime ; seaIceTime -> sIceMassTime. |
| 108 |
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- add 2-way thSIce vars exchange ; add Salt-Plume flux ; add RunOff in OCN. |
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- hold in common block coupler optionally-exchanged variable switch |
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and set default "useImportXXX" accordingly; + check & stop if inconsistent. |
| 111 |
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- add diagnostics for all imported fields from coupler (in both OCN & ATM); |
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this is intended to replace the OCN cplFldtave.* output files (not updated |
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to contain new additional exchanged fields). |
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o pkg/dic: |
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- fix an other bug (also from 2014/08/30) in dic_atmos.F, in dic_int1=3 code. |
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o pkg/thsice: |
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- when coupled to ATM (useCoupler) with thSIce_skipThermo=T, skip reading |
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and writing of thsice pickup files. |
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o pkg/atm_compon_interf: |
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- move all field individual export-call out of cpl_export_import_data.F |
| 121 |
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into new S/R ATM_EXPORT_FIELDS |
| 122 |
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o pkg/atm_compon_interf: |
| 123 |
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- store state variables (for now, only thSIce fields) just before beeing |
| 124 |
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exported (in cpl_export_import_data.F, like on ocean side) instead of from |
| 125 |
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atm_store_my_data.F like all exported fluxes. |
| 126 |
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- new version of pickup_cpl: write field names into meta file and read meta |
| 127 |
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file to find field postion in pickup. Also only write/read fields meeded for |
| 128 |
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restart (same logic as main pickup file ; also using pickupStrictlyMatch) |
| 129 |
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o pkg/dic: |
| 130 |
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- fix bug (added on 2014/08/30) in dic_atmos.F for the case dic_int1= 2 or 3. |
| 131 |
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o pkg/seaice: add new parameter SEAICEpressReplFac to choose between |
| 132 |
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pressure replacement method (=1., default) or original Hibler (1979) (=0.) |
| 133 |
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value can be from domain [0,1] to average between the two methods |
| 134 |
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o pkg/atm_phys: |
| 135 |
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- allow to provide 2-d map of albedo and mixed-layer depth from files (but |
| 136 |
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hold fixed in time). |
| 137 |
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|
| 138 |
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checkpoint65r (2015/12/21) |
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o pkg/seaice: |
| 140 |
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fix bug in tridiagonal solvers for SEAICE_OLx/y>0, this affects the JFNK |
| 141 |
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solver (offline.dyn_jfnk) and global_ocean.cs32x15.seaice -> updated |
| 142 |
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o pkg/seaice: |
| 143 |
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- fix a bug in computing areaS in (J-J -> J-1) that affects runs |
| 144 |
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when SEAICEscaleSurfStress=.TRUE., |
| 145 |
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- apply areaW and areaS in S/R seaice_calc_lhs |
| 146 |
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o pkg/atm_phys: |
| 147 |
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- add diagnostics for 3-D, Nr+1 levels diagnostics of radiative fluxes |
| 148 |
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(shortwave & longwave, net & downward) and diagnostics of temp. tendency |
| 149 |
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for individual contribution (convection, LSC cond, radiation) |
| 150 |
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- add Ruth Geen etal, GRL 2016, radiation optionis (see paper supp. |
| 151 |
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information); activated with: solar_exponent=0. and wv_exponent=-1. |
| 152 |
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o pkg/ggl90: |
| 153 |
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- within IDEMIX add upper limit for horizontal group velocity to |
| 154 |
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avoid instability problems in the explicit horizontal diffusion term for |
| 155 |
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long time steps or high resolution |
| 156 |
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o pkg/diagnostics: |
| 157 |
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- simplify setting of local-array size in diagstats_output.F: uses "numLevels" |
| 158 |
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(from DIAGNOSTICS_SIZE.h) to allow to write out more than Nr levels. |
| 159 |
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o testreport: |
| 160 |
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- remove "-v" (verbose option) in default mpirun command. |
| 161 |
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o pkg/seaice/seaice_growth: |
| 162 |
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- catch potential division by zero in ITD code, does not change |
| 163 |
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verification results |
| 164 |
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o pkg/ecco: |
| 165 |
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- retire old codes to the Attic. The calls to retired functions are |
| 166 |
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left in a commented form in case they ever need to be re-activated. |
| 167 |
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- ecco_check.F: issue warning if any old CPP option is |
| 168 |
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defined that corresponds to retired codes -- then stop. |
| 169 |
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o pkg/atm_compon_interf: |
| 170 |
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- change seaice fraction (use for OCN dic surf.flux) stored and sent to |
| 171 |
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coupler: use last time-step value instead of average over cplSendFrq_iter |
| 172 |
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time-step, similar to what is done for seaIceMass. |
| 173 |
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This will affect results (pkg/dic) of coupled ATM-OCN+dic set-up. |
| 174 |
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o eesupp & genmake2: |
| 175 |
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- from Jinxuan Zhu: change etime fct call to S/R call (fix gfortran ETIME); |
| 176 |
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<= remove until a fix is found for some ifort version on ia32 machine. |
| 177 |
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o pkg/seaice/seaice_evp: |
| 178 |
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- refine residual computation |
| 179 |
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|
| 180 |
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checkpoint65q (2015/11/18) |
| 181 |
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o pkg/seaice/seaice_evp: |
| 182 |
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- fix residual computations so that they no longer affect the actual |
| 183 |
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simulation code |
| 184 |
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- fix seaice_readparams to be able to actually set new parameters |
| 185 |
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SEAICEaEVPcStar and SEAICEaEVPalphaMin, also fix logic a little |
| 186 |
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o model/src: |
| 187 |
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- fix wrong truncation (single prec) from "FLOAT" function in expressions |
| 188 |
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like: deltaT*FLOAT(myIter) when myIter is large: |
| 189 |
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a) replaced by DFLOAT (if not seen by TAF); |
| 190 |
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b) remove "FLOAT" and use implicit type conversion (if seen by TAF). |
| 191 |
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o pkg/aim_v23: |
| 192 |
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- write/read the expected CO2 pickups (from S/R AIM_DO_CO2): fix reading |
| 193 |
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when pickupSuff is set ; do write rolling pickups + at the end of the run. |
| 194 |
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o pkg/atm_ocn_coupler + ocn_compon_interf: |
| 195 |
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- in prep for using pkg/seaice Dyn in coupled set-up, implement sequential |
| 196 |
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coupling option-1: ATM -(cpl)-> OCN and then OCN -(cpl)-> ATM ; |
| 197 |
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add corresponding call in DO_OCEANIC_PHYS. |
| 198 |
|
o coupler pkgs: |
| 199 |
|
Start a new way to set-up optionally-exchanged variables (previously, only |
| 200 |
|
there for exchange_DIC): switch on/off from 1 place, at run-time, in coupler |
| 201 |
|
data.cpl (new) instead of at compile time in ATMIDS.h & OCNIDS.h ; |
| 202 |
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send switch to ATM & OCN compon before reading their own "data.cpl" (so that |
| 203 |
|
compononent param default can be set accordingly). |
| 204 |
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Note: this new switch (cpl_exchange_[xxx]) is not a per variable switch |
| 205 |
|
but rather applies to a group a fields (going both ways like for DIC) |
| 206 |
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and corresponds to an option of coupling config. |
| 207 |
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coupler (pkg/atm_ocn_coupler): |
| 208 |
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- change parameter file from "data" to "data.cpl" (in cpl_read_params.F), |
| 209 |
|
and read namelist directly (without eessup S/R calls) instead of |
| 210 |
|
in the very un-flexible old way, 1 param per line, in fixed order; |
| 211 |
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- add error-counter to track errors (e.g., missing "data.cpl") and to stop |
| 212 |
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cleanly in CPL_CHECK_CPLCONFIG |
| 213 |
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- add new coupling-exchange selectors (some not yet active) including |
| 214 |
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cpl_exchange_DIC (to set to 3 to replace atmCpl_exchange_DIC=T in ATMIDS.h |
| 215 |
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and ocnCpl_exchange_DIC=T in OCNIDS.h); |
| 216 |
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- add 2 new S/R (CPL_SEND_ATM/OCN_CPLPARMS) to send coupler-params to each |
| 217 |
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component ; called directly from coupler.F, after comp. registrations; |
| 218 |
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- rename few variable-ID names (in ATMIDS.h & OCNIDS.h): |
| 219 |
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atm/ocnSeaIceName --> atm/ocnSIceMassName ; atm/ocnFCO2Name -> |
| 220 |
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-> atm/ocnCO2FluxName ; atm/ocnWSpdName --> atm/ocnWindSpdName |
| 221 |
|
components (pkg/atm_ & ocn_compon_interf): |
| 222 |
|
- add ATM/OCN_CPL_OPTIONS.h in component pkgs and include the corresponding |
| 223 |
|
CPP header file in all pkg source files. |
| 224 |
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- move checking of comp. configs out of cpl_exch_configs.F into new S/R |
| 225 |
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ATM/OCN_CHECK_CPLCONFIG; |
| 226 |
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- add error-counter to track errors (e.g., in "data.cpl") and to stop |
| 227 |
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cleanly in ATM/OCN_CHECK_CPLCONFIG; |
| 228 |
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- add new S/R CPL_IMPORT_CPLPARMS to import coupling-exchange selectors |
| 229 |
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from coupler ; called from initialise_fixed.F, after PACKAGES_BOOT and |
| 230 |
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before PACKAGES_READPARMS; |
| 231 |
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verification/cpl_aim+ocn/: |
| 232 |
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- update ATMIDS.h & OCNIDS.h (in shared_code) and use new parameter file |
| 233 |
|
"data.cpl" for coupler (in input_cpl). |
| 234 |
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o eesupp/inc: |
| 235 |
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- change the MPI-global-sum default (in CPP_EEOPTIONS.h) to: |
| 236 |
|
#define GLOBAL_SUM_ORDER_TILES (only affects MPI built of global_sum_tile.F) |
| 237 |
|
to always cumulate tile local-sum in the same order (still uses |
| 238 |
|
MPI_Allreduce like standard code). |
| 239 |
|
- in verification experiment code, remove local CPP_EEOPTIONS.h_mpi files |
| 240 |
|
that are now identical to standard version (in eesupp/inc). |
| 241 |
|
o pkg/shelfice: |
| 242 |
|
- add SHELFICETransCoeffTFile for initializing spatially varying |
| 243 |
|
heat and salt transfer coefficients |
| 244 |
|
o pkg/atm_compon_interf & ocn_compon_interf: |
| 245 |
|
- combine into 1 (new) S/R CPL_EXPORT_IMPORT_DATA the two previous |
| 246 |
|
S/R CPL_EXPORT_MY_DATA & CPL_IMPORT_EXTERNAL_DATA |
| 247 |
|
- move bi,bj loops inside S/R OCN_STORE_MY_DATA |
| 248 |
|
o pkg/atm_ocn_coupler: |
| 249 |
|
- initialise to zero ATMVARS.h & OCNVARS.h arrays. |
| 250 |
|
o pkg/rbcs: |
| 251 |
|
- select RBCS-mask for Temp & Salt the same way as for pTracer ; this allows |
| 252 |
|
to compile with maskLEN=1 when all tracers use the same RBCS-mask. |
| 253 |
|
- add a short report (to STDOUT) about RBCS-mask settings. |
| 254 |
|
|
| 255 |
|
checkpoint65p (2015/10/23) |
| 256 |
|
o pkg/seaice/seaice_evp.F: fix store directives and key computations, since |
| 257 |
|
there is no adjoint test for EVP, we don't know what it does to the adjoint |
| 258 |
|
solution, but at least there are no more recomputation warnings left |
| 259 |
|
o pkg/seaice/seaice_evp.F: slight modification of averaging so that EVP stands |
| 260 |
|
a chance of giving the same results as a fully converged VP (JFNK) solver |
| 261 |
|
o tools/adjoint_options/adjoint_diva: |
| 262 |
|
- fix bug (typo) in Tang-Linear FLAGS setting for MPI + DIVA |
| 263 |
|
o pkg/streamice: |
| 264 |
|
- spotted bug in streamice_driving_stress using dyG where should have been dxG |
| 265 |
o pkg/exf: |
o pkg/exf: |
| 266 |
- remove STOP statement that prevented to use wind or (wind-)stress |
- remove STOP statement that prevented to use wind or (wind-)stress |
| 267 |
interpolation for constant-in-time forcing fields (wind/stress period = 0). |
interpolation for constant-in-time forcing fields (wind/stress period = 0). |
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