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Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
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============================== |
============================== |
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untagged |
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o added "#undef ALLOW_USE_MPI" support to eesupp/src/gather_2d.F |
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o added [#include "AD_CONFIG.h"] to all files that use the following |
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defines: |
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- ALLOW_ADJOINT_RUN |
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- ALLOW_TANGENTLINEAR_RUN |
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- ALLOW_ECCO_OPTIMIZATION |
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checkpoint51m_post |
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o incorporating changes to get TAMC/TAF working in genmake2 |
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- added new TAMC/TAF targets to the Makefile |
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- various cleanups related to package handling |
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- these changes should have no impact on the forward model |
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checkpoint51l_post |
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o changes to pkg/cal and pkg/exf that allow and speed-up long integrations |
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- faster algorithm for cal_addtime.F |
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- higher precision arithmetic, where needed |
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- pkg/exf *startdate variables changed from calendar date to |
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model integration time |
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checkpoint51l_pre |
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o add salt flux to forcing fields (used when salty sea-ice forms or melts) |
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o enable to apply restoring on S & T only in a latitude band. |
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o update output (external_forcing_surf modif. change truncation errors) |
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global_ocean.cs32x15, global_ocean_pressure, lab_sea, natl_box |
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checkpoint51k_post |
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o change default to: useNHMTerms=.FALSE. |
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- new output.txt for atmos. exp (NHMTerms were wrong but now turned off): |
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adjustment.128x64x1, aim.5l_Eq_Ch, aim.5l_LatLon, hs94.128x64x5, hs94.1x64x5 |
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- new output.txt for idealized oceanic exp (NHMTerms are now turned off): |
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exp1, ideal_2D_oce |
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- change data file of oceanic exp (leave the results unchanged for now) |
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exp2, global_ocean[90x40x15,pressure,with_exf], lab_sea, natl_box |
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o set gravitySign automatically according to the vertical coordinate used |
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(and change sign: back to "logical" value: +1 when R increases downward) |
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o added an include barrier to the default CPP_OPTIONS.h and |
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removed the #include "PACKAGES_CONFIG.h" from it |
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o fix a bug in mom_fluxform (from chk51j_post) |
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checkpoint51j_post |
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o Added some AD-related initialisations in mom_vecinv/ mom_fluxform/ |
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o adjusted some flow directives (dynamics, thermodynamics) |
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o added cubed-sphere case to test cost function |
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o heckpoint_lev?_directives.h now include |
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pkg-specific directives, whenever those are enabled. |
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o Moving pkg-specific flow directives to corresponding pkg |
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Moving pkg-specific differentiation list to corresponding pkg |
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Moving pkg-specific checkpoint-lev storing to corresponding pkg |
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---> conventions are |
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- pkg_ad.flow |
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- pkg_ad_diff.list |
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- pkg_ad_check_lev?_dir.h |
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checkpoint51i_post |
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o merge of the branch-genmake2 |
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- knowingly breaks the older genmake |
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- automatic generation of all ALLOW_${PKG_NAME} defines |
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- new testreport supersedes older testscript |
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o large number of package inclusion and header cleanups |
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checkpoint51i_pre |
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o new output for adjoin of global ocean vector invariant |
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o fix for checkpoint of thermodynamic seaice and bulk_force |
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o Steph gchem various cleanups |
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checkpoint 51h_pre |
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o fixed some single quotes |
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o modify gchem pkg to be more versatile |
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o modifications to clean up dic pkg |
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o add pkg/cfc |
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checkpoint51g_post |
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o provide links for ARPACK and ADM*TLM |
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o start removing verification/vero/ |
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o update AD-related stuff |
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(in particular some IF-statements in model/src/ routines) |
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o adding to verification/global_ocean.90x40x15/ adjoint of |
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vector invariant setup |
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checkpoint51f_post |
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o update advect_xz/output.txt (left from chekpoint50f_pre, ini_vel modif) |
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o Mods and bug fixes to pkg/cal, pkg/exf, etc., needed for computation |
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of tracer Green's fucntions for ocean inversion project. |
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checkpoint51f_pre |
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o Added on-the-fly spatial interpolation capability |
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"USE_EXF_INTERPOLATION" to pkg/exf. |
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- This is a temporary Cartesian-grid hack until |
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the super-duper ESMF coupler becomes available. |
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- See verification/global_with_exf/README for usage example. |
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- Removed obsolete EXFwindOnBgrid and SEAICEwindOnCgrid |
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flags and modified pkg/seaice accordingly. |
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o Bug fix to pkg/ptracers, pkg/generic_advdiff/gad_calc_rhs.F, |
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and pkg/kpp/kpp_transport_ptr.F for dealing with tracer |
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non-local transport term. |
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checkpoint51e_post |
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o pkg/mom_vecinv: |
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- changes related to hFac: use S/R from aim.5l_cs/code (coriolis & vort.advec) |
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- add time-ave diagnostic of vorticity advection. |
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o add diagnostic (instantaneous) of Shapiro Filter effect for T,S & UV. |
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o atmospheric geopotential: - include water vapor effect; |
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- use p^kappa in p* scaling. |
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o land pkg: read initial state from files. |
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o AIM : add stratospheric drag in the upper level |
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checkpoint51d_post |
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o change function ILNBLNK (=> last non-blank char.) to return zero |
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(instead of the string length) when the string. char is empty |
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o fix bug in dxV,dyU definition of cubed-sphere grid (ini_curvilinear_grid) |
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o modif's to restore TAMC compatibility |
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- avoid "_d" constructs in PARAMETER declarations |
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- avoid interrupting lines by comment lines |
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o Use cluster local disks for purely local I/O |
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vs. globally visible disks needed for ctrl stuff |
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(merged from ecco-branch) |
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- new active_file_loc... and mdsio_..._loc routines |
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- affected packages: autodiff, ctrl, grdchk, mdsio |
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checkpoint51c_post |
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o introducing integer flag debugLevel |
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- debLevZero: suppress all output |
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- debLevA: standard |
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- debLevB: equivalent to current debugMode=.TRUE. |
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o introducing pathname variable mdsioLocalDir for mdsio |
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that can be specified at runtime |
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(relevant for cluster I/O to local disk) |
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` |
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>>>checkpoint51b_post |
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adjoint of ptracers |
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o disentangled ALLOW_PTRACERS using new ALLOW_GCHEM |
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o extended state in checkpoint_lev?, etc. |
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o alternative ctrl/cost with tr1 or ptracer |
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o new comlev1_bibj_ptracers |
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o new ptracers.flow |
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o made ptracers_forcing same as external_forcing_s |
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o added verification for adjoint with ptracers |
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- adm. grdchk fail so far |
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- tlm. grdchk OK |
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- checked tapelev/comlev recomputations: OK |
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<<<checkpoint51b_pre |
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checkpoint51a_post |
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o added code for biogeochemistry package |
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- new pkgs: dic, gchem |
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- new subroutine in ptracers |
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o modify code for biogeo packages |
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- in model/src and pkg/ptracers |
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checkpoint51 |
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o merged improved packages from ecco-branch (ecco_c51_e34) to MAIN |
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- autodiff, ctrl, exf, grdchk, seaice |
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kept separate packages |
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- cost, ecco, obcs |
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o updating verification/internal_wave, verification/lab_sea |
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(all verif's pass on faulks.lcs.mit.edu RH7.3, g77) |
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checkpoint50i_post |
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o Preparing next differentiable checkpoint and sync |
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of MAIN vs. ecco-branch |
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- 1st step: this one is differentiable |
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- 2nd step: next(! not this) checkpoint will have updated packages |
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from ecco-branch) |
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checkpoint50h_post |
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o new package "land": provide surface BC for AIM. |
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o pkg/ptracers: apply exchange to all tracers after reading a pickup. |
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o AIM: use true log-P extrapolation for near surface temp (= as in |
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F.Molteni paper) ; update aim.5l_cs output. |
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o New variable in PARM03 for more flexible pickups |
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o somewhat cleaned package initialisation sequence for |
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ctrl/ cost/ ecco/ in packages_... routines |
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checkpoint50g_post |
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o merged with release1_p17 (pkg/seaice and verification/lab_sea) |
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- added SEAICE_MULTILEVEL for 8-category sea-ice thermodynamics |
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- LSR sea-ice dynamic solver moved to SouthWest B-grid location and |
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made the default because of faster convergence than ADI |
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checkpoint50f_post |
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o exf totally restructured |
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- replaced all exf_set_ routines by one generic exf_set_gen.F |
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and made sure it's still differentiable |
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- split exf_getffields.F into new exf_bulkformulae.F |
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- exf_inscal_/exf_outscal_ suffixes consistent with field names |
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- updated adjoint/makefile and relevant verif. accordingly |
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checkpoint50f_pre |
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o AIM: near surface temp evaluated from Pot.Temp: fixed for Part Cell ; |
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+ change Evap over land. (update aim.5l_cs output) |
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o added missing .cvsignores and made uniform across expts |
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o changed configuration of tidal_basin_2d expt |
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o added pkg/debug functions for tracing code in fatal crashes |
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o tidied pkg/monitor to use MONITOR_OPTIONS.h |
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o new fn in pkg/monitor to stop model if solution grows too big |
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o removed lots of single quotes from comments |
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checkpoint50e_post |
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o make KPP work with PTRACERS |
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- fix gad_calc_rhs to call new routine kpp_transport_ptr, which is |
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nearly a copy of kpp_transport_s |
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- there is no analogue to SurfaceTendencyS, so I have to use |
| 210 |
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gPtr(of the surface layer) instead |
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o add a new platform SunFire+mpi (SunFire 15000) to genmake |
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checkpoint50e_pre |
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checkpoint50d_post |
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o change kpp output from multiple-record state files to single-record state |
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files analogous to write_state.F |
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o reduce the output frequency of cg3d-related stuff to the monitor frequency, |
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analogous to the cg2d-related output. |
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o fix small problem with in ptracers_write_checkpoint.F: len(suff)=512, |
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so that writing to internal file fn (with length 512) fails. |
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checkpoint50d_pre |
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checkpoint50c_post |
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o fix problem in ini_procs.F when using MPI (was there since checkpoint48f) |
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o add monitor diagnostic of vorticity (mon_vort3.F) and potential energy. |
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o add time-average diagnostic of U*V and vertical diffusive flux for theta. |
| 227 |
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o bug fixed in convective adjustment diagnostic (multi-tile set-up). |
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o 4th Order Adv scheme: return to previous (c40pre7) masking near boundaries. |
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checkpoint50c_pre |
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Merging from release1_p13: |
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o bug fix for pkg/seaice dynamic solver |
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o Added SEAICE_initialHEFF to pkg/seaice |
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checkpoint50b_post |
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o store u*,v* in gU,V instead of in guNm1,gvNm1 |
| 237 |
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o in order to put the momForcing out of the Adams-Bashforth: |
| 238 |
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move forcing & CD-scheme calls from mom_fluxform & mom_vecinv |
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to timestep.F |
| 240 |
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o new flag "useCDscheme" (default=F); replace guCD,gvCD by local arrays |
| 241 |
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o re-generate output for highly sensitive test-exp: |
| 242 |
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global_ocean_pressure, ideal_2D_oce, lab_sea, natl_box |
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| 244 |
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checkpoint50b_pre |
| 245 |
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o restore the use of momAdvection & useCoriolis flags (mom_vecinv) |
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o corrected CPP option mismatch in exf_Bulk... functions for case |
| 247 |
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#define ALLOW_ATM_WIND && #undef ALLOW_ATM_TEMP |
| 248 |
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| 249 |
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checkpoint50a_post |
| 250 |
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o Bug fix for merging between c50 and KPP. |
| 251 |
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ikey was passed from thermodynamics to kpp_calc via |
| 252 |
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common block rather than being recomputed in kpp_calc, |
| 253 |
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in contradiction with new key itdkey. |
| 254 |
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New key ikppkey created, and tamc.h headers updated. |
| 255 |
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| 256 |
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checkpoint50 |
| 257 |
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- 2nd step of merge with ecco-branch: |
| 258 |
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merge changes in ecco-branch back into main trunk |
| 259 |
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- bug fix in find_alpha |
| 260 |
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- more storing in gmredi_calc_tensor.F, kpp_routines.F |
| 261 |
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- avoid iterative loop in ini_pressure for ALLOW_AUTODIFF_TAMC |
| 262 |
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- merged some sliced AD support routines |
| 263 |
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checkpoint49 |
checkpoint49 |
| 265 |
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merged from ecco-branch: |
| 266 |
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o exf: |
| 267 |
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- Enable initialisation of forcing fields to constant |
| 268 |
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(runtime) values. |
| 269 |
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- in exf_getffields.F |
| 270 |
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Reduce i-/j-loop to interior domain, discarding overlaps. |
| 271 |
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That also fixes wrong TAF-key computations for key_1, key_2 |
| 272 |
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with bulf formulae. |
| 273 |
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- exf_init.F modify #ifdef for exf_init_evap |
| 274 |
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- exf_getffieldrec.F, ctrl_getrec.F |
| 275 |
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The following INT-usages are not safe: |
| 276 |
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fldsecs = int(fldsecs/fldperiod)*fldperiod |
| 277 |
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fldcount = int(fldsecs/fldperiod) + 1 |
| 278 |
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and were modified. |
| 279 |
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o autodiff: checkpoint_lev... |
| 280 |
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- updated storing for bulk formulae (some arrays were missing) |
| 281 |
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- added state for seaice package |
| 282 |
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- synchronized with main branch |
| 283 |
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o DIVA: |
| 284 |
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Modif.s in |
| 285 |
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- the_main_loop.F |
| 286 |
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- the_model_main.F |
| 287 |
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and added cost_final_restore.F cost_final_store.F |
| 288 |
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o With these changes, it is possible to fully separate |
| 289 |
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the first forward run to compute the cost function (mdthe_main_loop) |
| 290 |
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and adjoint runs over individual DIVA intervals (adthe_main_loop) |
| 291 |
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into separate model executions. |
| 292 |
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This enables better tuning of DIVA to given queue sizes. |
| 293 |
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o Loss of cost function value in consecutive DIVA runs is |
| 294 |
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fixed by storing to 'costfinal' file. |
| 295 |
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o Appropriate call of ctrl_unpack/_pack,grdchk_main at |
| 296 |
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beginning/end of adjoint integration is accounted for. |
| 297 |
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The current changes apply to TAF-1.4.26. |
| 298 |
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TAF has one remaining bug, requiring one manual change |
| 299 |
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(see MITgcm manual). |
| 300 |
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o cal: synchronized between MAIN and ecco-branch |
| 301 |
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|
| 302 |
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checkpoint48i_post |
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o Changes to restore differentiability of code w.r.t. previous tag |
o Changes to restore differentiability of code w.r.t. previous tag |
| 304 |
(mostly adding new routines to make list and replacing |
(mostly adding new routines to make list and replacing |
| 305 |
pressure by totPhiHyd). |
pressure by totPhiHyd). |
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