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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 MNC: |
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- make myThid the last argument for all subroutines |
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- new default for the grid files: NO halos |
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- add useMNC and other run-time flags |
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- separate per-file-group handling of the unlimited dimension |
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- early initialization of MNC w/ flags read at the eeboot stage |
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and lookup tables set in initialize_fixed |
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- write all MNC output to a freshly-created directory |
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o thermodynamics sea-ice (thsice) is now tested with testreport. |
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o test exp. advect_cs: use the standard cs32 grid ; update output. |
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o Added functionality to grdchk: |
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pick global i,j,k position (or nearest wet) where to perform check. |
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checkpoint52l_post |
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o new land formulation: |
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a) use ground enthalpy as prognostic variable to ensure exact |
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energy conservation. |
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b) account for water temperature and for latent heat of freezing |
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in all processes (rain, run-off, ground storage) |
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c) compute surface and ground temperature implicitly. |
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o aim_v23 modification for new land model: |
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a) Treat separately land / ocean / sea-ice surface fluxes |
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to allow implicit computation of land & sea-ice surface temp. |
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b) add snow precipitation. |
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checkpoint52l_pre |
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o fix problem (when 1 tile is empty) in min/max monitor. |
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o fix bug in timeAve (u,vZetatave in common block) |
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o no restoring terms under ice for pkg/seaice |
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o moved SEAICE_DO_DIAGS to S/R do_the_model_io |
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o bug fix for pkg/seaice pickups |
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o change MNC call locations and add coordinate attributes |
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o mask vorticity at the corner ; affects global_ocean.cs output |
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o fix ini_curvilinear_grid ; test CS experiments with mpi |
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o aim.5l_cs: modify sea-ice fraction input file ; update output |
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o exf: Adding simple range check routine for exf fields after read |
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checkpoint52k_post |
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o removed top-level directory "diags" |
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- we migrated these functions to pkg/timeave a long time ago |
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o fixed bug introduced in pkg/monitor |
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o accuracy ctrlprec = 32 insuffient for gradient checks using |
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averaged fields (I/O via cost_averages) |
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-> use ctrl.h in active_file*.F to control I/O precision. |
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o paramter list of CALL ADTHE_MAIN_LOOP |
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o added initial do_the_model_io to ecco |
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o set all ...Freq to zero after cost_final |
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taveFreq, dumpFreq, pChkptFreq |
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o MAIN and ECCO differentiability restored |
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checkpoint52j_post |
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o fix nchklev in tamc.h for global_ocean... |
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o Bringing flow and store directives up-to-date |
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o Really weird thing! |
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call do_the_model_io from the_main_loop with parameters |
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starttime, niter0, instead of mytime, myiter, screws up the adjoint: |
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TAF places a faulty re-call of initialise_varia |
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after cost_final call which should not be there! |
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checkpoint52j_pre |
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o tweaked pkg/mdsio/mdsio_readfield.F to have more useful logic and |
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error messages |
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o fix errorMessageUnit problem. remove old version of mdsio from eesup/src |
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o modified pkg/mdsio/mdsio_readfield.F -- commented out diskspace-eating |
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debug output |
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o modfied mdsio_writefield.F to handle non-global files under exch2 |
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o update AIM Cubed-Sphere exp (aim.5l_cs): |
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use land, p*, and Franco.M forcing fields with fractional land-sea mask. |
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o update AIM Equatorial Channel exp: |
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use standard aim_v23 pkg and change the SST fields to be more realistic. |
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o globalFile now works with exch2 |
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o merged mom_vi_calc_relvort3.F, mom_vi_del2uv.F and |
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mon_vort3.F to make exch2 friendly with >1 tile per cube face |
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o limit timeave output for hi-res integrations |
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checkpoint52i_post |
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o removed CPP_EEOPTIONS.h from verification/*/code |
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o updated the tiling for global_ocean_pressure |
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checkpoint52i_pre |
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o update aim.5l_LatLon using the standard aim_v23 pkg (instead of |
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the old pkg/aim). |
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checkpoint52h_pre |
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o shortened offending lines in exch2_send_rx?.template |
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o modified W2_EXCH2_TOPOLOGY.h to reflect current topology generator |
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o genmake2: add build & execute test for NetCDF code |
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o modded aim.5l_cs and global_ocean.cs32x15 to use exch2, removed |
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old grid files, moved CPP_EEMACROS.h to pkg/exch2 |
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o added useSingleCPUIO flag to monitor.F and mon_out.F |
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o added temporary hack for sea-ice dynamics on the cube: |
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metric terms are ignored and it is assumed that |
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there is no sea-ice on cube faces 1, 2, 4, and 5. |
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checkpoint52f_post |
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o added exch2 cube routines to pkg/exch2 |
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o modified hs94.cs-32x32x5 to use it |
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o added new grid files to hs94.cs-32x32x5 |
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checkpoint52f_pre |
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checkpoint52e_post |
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o first attempt to solve vertical advection (momemtum & T,S) Implicitly |
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for now, only implemented with Lax-Wendroff (tracer) and VectInv (mom) |
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o step.1 : rewrite (as in MultiDimAdvec) explicit tracer stepping (gad_calc_rhs.F) |
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to work with implicit vertical advection and AB ; |
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o Implic. vert. advect. implemented with flux-limiter, c2, u3 and c4 scheme. |
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o update output (gad_calc_rhs.F changes affect truncation error) of exp: |
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front_relax, global_ocean .cs32x15 & _pressure, internal_wave, lab_sea, natl_box |
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checkpoint52e_pre |
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o fix bug in impldiff when Nr=1 or Nr=2. |
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o change the albedo in pkg/thsice (as GISS model); update output_thsice.txt |
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o little changes (fftpack, aim/phy_suflux ...) to pass the "checkbounds" test. |
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o fix deltaTfreesurf in update_cg2d.F (left from c45d_post): affects 2 |
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ocean exp. that use NLFS: global_ocean.cs32x15 & global_ocean_pressure |
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o added exf_offset_atemp for Celsius to Kelvin conversion of atemp |
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o eesupp/inc/EEPARAMS.h: MAX_NO_PROCS=1024 |
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o pkg/cal/cal_toseconds.F fix for long (>60 years) integrations |
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checkpoint52d_post |
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o re-tiled many expts to allow comparison in multi-processor mode |
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- updated output accordingly |
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- changed hs94.128x64x5 to use intial T from file rather than use the |
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random number generator |
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o add infrastructure in model routines for fizhi and gridalt packages |
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o change global_ocean.cs32x15 because of Pb with GM on CS-grid. |
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o changes to permit hi-res, cubed-sphere, configuration |
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- added useSingleCpuIO capability to mdsio_readfield.F and exf_interp.F |
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- added "#undef ALLOW_USE_MPI" support to eesupp/src/scatter_2d.F |
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- added pkg/exf/exf_set_uv.F for on-the-fly interpolation and rotation |
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of surface winds for the cube |
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(A verification experiment, based on global_ocean.cs32x15, but with |
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pkg/seaice turned on and with on-the-fly interpolation from the NCEP |
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Gaussian grid is described in MITgcm_contrib/high_res_cube/README_ice, |
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complete with example surface forcing files and matlab scripts to look |
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at the output and compare it with that of global_ocean.cs32x15.) |
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o packages pickup: $PKG_write_pickup called from packages_write_pickup ; |
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but call to $PKG_read_pickup remains in $PKG_ini_vars: change CD_code |
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to conform to the common rule. |
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o check-in the first version of the coupler + interfaces for multi-components |
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set-up (Chris's version, adapted to work on cubed-sphere grid); use MPI. |
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- imply modification in eesupp (MPI_COMM_MODEL < MPI_COMM_WORLD). |
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- atmosphere: use pkg aim_v23 ; no sea-ice for now. |
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- ocean and atmos. share the same horizontal grid (no interpolation). |
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- exchanges between component and coupler is done in forward_step |
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o new verification experiment, cpl_aim+ocn: |
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coupled ocean - AIM atmosphere on cs32 grid. |
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checkpoint52d_pre |
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o surface flux time-av diagnostic modified for NLFS & RealFreshWater |
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o add call to AIM pendant S/R in external_forcing & external_fields_load.F |
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checkpoint52c_post |
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o Fixing OPTIONS files for use of exf: |
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- ALLOW_ECCO not needed |
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- ECCO_CPPOPTIONS.h should not be included from |
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EXF_OPTIONS.h/CAL_OPTIONS.h, but from CPP_OPTIONS.h |
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as has been the case in the past |
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- All cal/exf related options are currently set in |
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single header file. Should remain so until we |
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agree on a consistent new policy. |
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o Removed all CPP options for cal package. |
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cal has no more CPP options. |
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o modified STOREs in GAD_ADVECTION |
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o corrected key comp. for passkey |
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checkpoint52b_post |
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o new version: "thsice" of thermodynamic sea-ice pkg: |
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- only 1 call from "forward_step"; conserve energy, fresh-water & salt. |
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- modify fluxes but do not change theta directly; |
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- light cleaning of bulk_force pkg (still needed with thsice). |
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- add forcing fields + data files in global_ocean.cs32x15/inp_thsice |
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+ output_thsice.txt to test thsice & bulk_force pkgs. |
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o put back grid & coriolis monitor output. |
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checkpoint52b_pre |
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o call "do_the_model_io" at the beginning (=> dump initial state) |
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o use rhoConstFresh to define convertEmP2rUnit (was done only in ocean-P) |
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o sort out interplay between tamc.h and PTRACERS_OPTIONS.h |
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(need info on NUMBER_OF_PTRACERS) |
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o missing PTRACERS headers in some routines |
| 186 |
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o default tamc.h in pkg/autodiff supposed to crash |
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to ensure proper customization |
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checkpoint52a_post |
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o modifications to make FREEZE (_SURFACE) flux visible to pkg/kpp |
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- moved surfaceTendencyTice from pkg/seaice to main code |
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- subroutine FREEZE_SURFACE now limits only surface temperature |
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and is called in FORWARD_STEP (if allowFreezing=.TRUE.) |
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=> new output.txt for global_ocean.cs32x15 & global_with_exf |
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- keep the old version of FREEZE for backward compatibility; |
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global_ocean.90x40x15 left unchanged using useOldFreezing=.TRUE. |
| 197 |
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- corresponding modifs for TAF directives |
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o added surface flux output variables to TIMEAVE_STATVARS |
| 199 |
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o time-averaged output for pkg/ptracers |
| 200 |
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o fix problem with ECCO-related divided adjoint |
| 201 |
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snapshot file was missing some ad-variables, |
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but no warning issued by TAF |
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checkpoint52a_pre |
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o some bug fixes for #undef REAL4_IS_SLOW |
| 206 |
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|
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checkpoint52 = ecco_c52_e35 |
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o after testing adjoints of checkpoint51u_post |
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checkpoint51u_post |
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o this is the post-merge tag of the ecco-branch |
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(needs another clean checkout and re-testing) |
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o various natl_box_adjoint configs and results |
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but no input fields |
| 215 |
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o obcs adjoint not yet merged! |
| 216 |
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o adding ECCO global 1x1 and 2x2 degree configs |
| 217 |
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o updated/extended some store directives for seaice |
| 218 |
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o pkg/ecco now containes ecco-specific part of cost function |
| 219 |
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o top level routines the_main_loop, forward_step |
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supersede those in model/src/ |
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previous input data.cost now in data.ecco |
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(new namelist ecco_cost_nml) |
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o in ctrl/ cleaned some cross-dependencies and updated CPP options |
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checkpoint51t_post |
| 226 |
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o this is the pre-merge tag of the ecco-branch |
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checkpoint51s_post |
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o cleanup: removed various obsolete #define-s |
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o pkg/grdchk |
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- renamed 'ph-grd 3' to 'grad-res' |
| 232 |
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- merged from ecco-branch |
| 233 |
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(remaining bug fixes for obcs gradient checks) |
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- additional high-precision output for testreport |
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(grep for 'precision_grdchk_result') |
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checkpoint51r_post |
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o cleaned up or removed CPP_OPTIONS.h files |
| 239 |
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o updated results for some of the tests to reflect the new |
| 240 |
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optfiles (-ieee: -O0 instead of -O3) |
| 241 |
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checkpoint51q_post |
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o cd_code: |
| 244 |
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- moved cd_scheme.F -> cd_code_scheme.F |
| 245 |
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- separate read_checkpoint from cd_code_ini_vars.F |
| 246 |
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- separated cd_code part from write_checkpoint |
| 247 |
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- updated AD_SOURCE, generated .flow |
| 248 |
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- added CD_CODE_VARS.h to the_main_loop |
| 249 |
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- Moving cd_code specific store dir.s to pkg/cd_code |
| 250 |
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o ctrl package totally restructured |
| 251 |
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- pack/unpack now optional and decoupled from |
| 252 |
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xx_/adxx_ I/O |
| 253 |
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- ctrl_pack/unpack cleaned |
| 254 |
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(new routines ctrl_init_ctrlvar.F, pkg/ctrl/ctrl_init_wet.F) |
| 255 |
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- confined inclusion of AD_CONFIG.h to where necessary. |
| 256 |
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o genmake2: changed AD dependencies from SRCFILES to AD_FILES |
| 257 |
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| 258 |
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checkpoint51p_post |
| 259 |
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o create initial cd_code package |
| 260 |
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- WARNING: the initialization of fields within packages |
| 261 |
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is broken because INI_FIELDS (where READ_CHECKPOINT is |
| 262 |
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called) is called *before* PACKAGES_INIT_VARIABLES. |
| 263 |
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This seems to be backwards since |
| 264 |
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1) its important to initially zero the entire field including |
| 265 |
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the "halo" region |
| 266 |
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2) zeroing needs to be done *before* reading pickup info |
| 267 |
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and the pickup call might or might not happen in any |
| 268 |
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particular run |
| 269 |
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- this needs an overhaul for R2 |
| 270 |
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o cleanup verification/*/code/GMREDI_OPTIONS.h |
| 271 |
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o cleanup testreport |
| 272 |
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|
| 273 |
checkpoint51o_post |
checkpoint51o_post |
| 274 |
o bringing AD-related verif's up to date with genmake2 |
o bringing AD-related verif's up to date with genmake2 |
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checkpoint51o_pre |
checkpoint51o_pre |
| 295 |
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|
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o undid all of cp51 pending some cleanups and discussion |
o undid all of cp51 pending some cleanups and discussion |
| 297 |
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o added the [#include "AD_CONFIG.h"] statement to all files that need |
| 298 |
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it for adjoint/tl #defines |
| 299 |
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o re-worked the build logic in genmake2 to support AD_CONFIG.h |
| 300 |
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o removed tools/genmake since it no longer works |
| 301 |
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|
| 302 |
checkpoint51n_post |
checkpoint51n_post |
| 303 |
o modifications to make FREEZE flux visible to pkg/kpp |
o modifications to make FREEZE flux visible to pkg/kpp |
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