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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 pkg/seaice/exf/monitor: turn netcdf coordinate variable T into model |
| 8 |
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time in seconds as promised by the usints in seaice_monitor and exf_monitor |
| 9 |
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o pkg/mnc: fix the coordinate variables for multi-tile curvi-linear grids |
| 10 |
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that are not cubed-sphere grids |
| 11 |
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o pkg/seaice: fix a bug for the rare case of SEAICE_VECTORIZE_LSR |
| 12 |
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o pkg/ctrl: |
| 13 |
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fix bug in ctrl_depth_ini.F (EXCH_XYZ was applied to 2-D field xx_r_low) |
| 14 |
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o non-hydrostatic (calc_gw.F): |
| 15 |
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fix viscA4 on CS-grid + fix diagnostics: Wm_Diss & Wm_Advec |
| 16 |
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update output of exp. global_ocean.cs32x15.viscA4 |
| 17 |
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o remove backward compatibility for thetaMin,phiMin |
| 18 |
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(replaced by xgOrigin,ygOrigin on Jan 27, 2009) |
| 19 |
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o pkg/exf: fix a serious bug in exf_set_uv.F: do a rotation of the |
| 20 |
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interpolated wind field not only for curvilineargrid=.true., but also |
| 21 |
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for a rotated grid (rotateGrid=.true.) |
| 22 |
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o pkg/exf: add capability to bypass interpolation for runoff |
| 23 |
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by setting yet another CPP-flag |
| 24 |
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o eesupp/src, B-grid exchange: |
| 25 |
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add simple (6 tiles, non MPI) CS exch + standard interface S/R. |
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o autodiff |
| 27 |
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new CPP option ALLOW_TAMC_SINGLEPREC_COMLEV |
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allows to switch to single-prec common blocks; |
| 29 |
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corresponding switch occurs in tamc.h, integer isbyte |
| 30 |
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TAF store directivs "byte" and "kind" seem equivalent; |
| 31 |
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Most tamc.h have been updated correspondingly. |
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|
| 33 |
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checkpoint61i |
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o autodiff: |
| 35 |
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fix autodiff_sore/_restore indices for obcs |
| 36 |
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(spotted by I. Hoteit, M. Mazloff) |
| 37 |
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o pkg/autodiff, pkg/ctrl: |
| 38 |
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Add flag to reduce all tapelev I/O to single-prec. |
| 39 |
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In data.ctrl set |
| 40 |
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doSinglePrecTapelev = .TRUE. |
| 41 |
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o model/src/ini_curvilinear_grid.F, new grid-file format without EXCH2: |
| 42 |
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check in hack for SX8 compiler (for dxV, dyU); remove it afterwards. |
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o pkg/shelfice: fix bug with SHELFICEconserve flag, prepare for |
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real fresh water flux (not yet) |
| 45 |
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o pkg/mdsio & rw: |
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- add argument & option to S/R MDS_WRITEVEC_LOC (avoid Open/Close & write-meta) |
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- add simple interface S/R to MDS_WRITEVEC_LOC in pkg/rw: WRITE_GLVEC_RX. |
| 48 |
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o pkg/flt: |
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- replace FLT_INIT by 3-steps standard initialization S/R: readparms, |
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init_fixed & ini_varia. |
| 51 |
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- clean-up & simplify linear interpolation S/R: |
| 52 |
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move flt_bilinear.F -> flt_interp_linear.F ; add arg. myThid. |
| 53 |
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- fix some indices (mainly vertical index) ; add IMPLICIT NONE. |
| 54 |
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- more efficient I/O, using new options of MDS_WRITEVEC_LOC S/R. |
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- add vert. coordinate & horiz. indices to output files. |
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- change vertical position in initial condition, from index to depth [m]. |
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- store horizontal (decimal) indices i,j in common block (instead of coord. x,y) |
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(easier to get to a curvilinear grid) ; delX,delY no longer used. |
| 59 |
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o pkg/ggl90: a few modifications: |
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- fix bottom boundary condition, and interpolation of KappaE |
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near top and bottom |
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- use same set of viscosity/diffusivity for TKE/momnetum/tracer |
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- add smoothing option as in Blanke and Delecluse (1993) (--> ALLOW_GGL90_SMOOTH) |
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- add a few options for mixing-length upper limit (--> mxlMaxFlag) |
| 65 |
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o rename thetaMin,phiMin -> xgOrigin,ygOrigin |
| 66 |
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(maintain temporary backward compatibility, until next checkpoint) |
| 67 |
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| 68 |
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checkpoint61h |
| 69 |
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o pkg/diagnostics with "periodic averaging diagnostics": |
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fix S/R DIAGNOSTICS_COUNT ; hack diagnostics_out.F to get NetCDF output. |
| 71 |
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o pkg/my82: add missing "_d 0" ; update output of exp. vermix.my82 |
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o pkg/obcs: fix loop ranges for balancing code |
| 73 |
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o pkg/flt: |
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- improve criteria for finding which tile owns a float. |
| 75 |
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- fix FLT_EXCH for case without MPI ; apply cyclic BC + fix also the MPI case. |
| 76 |
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o Add well-mixed CO2 box in aim_v23 (which includes changes in pkg |
| 77 |
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aim_compon_interf, ocn_compon_interf, gchem, and dic to get coupling |
| 78 |
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with ocean biogeo) |
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o pkg/flt: |
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- do some cleaning and fix the restart ; |
| 81 |
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- add output.txt in flt_example/results to get this pkg tested. |
| 82 |
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o genmake2: add an EXTENDED_SRC option and flag. |
| 83 |
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for now, cannot be turned on on command line (only through genmake_local) |
| 84 |
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o pkg/mdsio: read/write vector: |
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- singleCpuIO: fix RL/RS in MDSWRITEVECTOR by calling new S/R MDS_BUFFERtoRL/RS |
| 86 |
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- singleCpuIO=F: fix arrType & filePrec & _BYTESWAPIO in both MDSREADVECTOR |
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& MDSWRITEVECTOR by calling new S/R MDS_RD/WR_VEC_RL/RS. |
| 88 |
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- affects gradient of test-exp "bottom_ctrl_5x5" (not due to _BYTESWAPIO) |
| 89 |
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(drop to 4 digits matching for grad). But this test does not look very |
| 90 |
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reliable (was already failling on eddy, fc5, at 6.digits). Update output. |
| 91 |
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|
| 92 |
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checkpoint61g |
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o pkg/flt: |
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- move FLT_CPPOPTIONS.h to FLT_OPTIONS.h (standard name) |
| 95 |
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+ make OPTIONS file more standard. |
| 96 |
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- rename S/R MDSREADVECTOR_FLT to FLT_MDSREADVECTOR (to mach src file name) |
| 97 |
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- fix _BYTESWAPIO CPP-Flag |
| 98 |
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- standard reading of file-parameter "data.flt" |
| 99 |
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- fix argument list of S/R FLT_RESTART |
| 100 |
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still need to fix _BYTESWAPIO in pkg/mdsio/mdsio_writevector.F |
| 101 |
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o pkg/obcs: fix a CPP-flag, bug reported by Jeff Blundell |
| 102 |
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o gather_2d.F/scatter_2d.F: suppress vectorisation on NEC SX in respond to |
| 103 |
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a still unfixed compiler/optimization bug |
| 104 |
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|
| 105 |
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checkpoint61f |
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o pkg/seaice, LSR solver: fix bug in GLOBAL_MAX calls ; |
| 107 |
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update results of global_ocean.cs32x15.icedyn test. |
| 108 |
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o move getcon.F from model/src to pkg/fizhi. |
| 109 |
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o pkg/exf: add parameter for extrapolation of temp up to the surface |
| 110 |
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and option to prevent negative evap (in bulk_largeyeager04 only). |
| 111 |
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o Prather Advection scheme: fix tracer conservation for divergent flow |
| 112 |
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(e.g., when using NonLin Free-Surface). |
| 113 |
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o kpp: retire KPPmld diagnostics --> use MXLDEPTH instead |
| 114 |
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o gmredi (Visbeck-variable-K): |
| 115 |
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- add more parameters to Visbeck-variable-K. |
| 116 |
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- use a 5 points average for dSigmaR in Visbeck-K calculation |
| 117 |
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(more "homogenous": same stencil and same weights as in dSigmaH) |
| 118 |
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- update output of ideal_2D_oce experiment. |
| 119 |
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o fix CPP-flag REAL4_IS_SLOW, when _RS expands into real*4 |
| 120 |
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(#undef REAL4_IS_SLOW) |
| 121 |
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- pkg/mnc/mnc_cw_cvars.F: write _RS-grid variable as netcdf-real*4 |
| 122 |
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coordinate variable |
| 123 |
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- pkg/monitor/monitor.F: call mon_printstats_rs for _RS variables |
| 124 |
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(surface forcing fields), removes some of the functionality |
| 125 |
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- model/src/write_grid.F: write _RS variables as RS-netcdf variables |
| 126 |
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- model/src/diags_oceanic_surf_flux.F: fix a few diagnostics, but |
| 127 |
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probably not all: copy _RS surface flux fields to RL field before |
| 128 |
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calling DIAGNOSTICS_FILL |
| 129 |
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- model/inc/CPP_EEMACROS.h: make the _EXCH_*_RS macros expand into |
| 130 |
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real*4 (CALL EXCH_*_RS) versions. |
| 131 |
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- tested in 2 experiments: inverted_barometer & solid-body.cs-32x32x1 |
| 132 |
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(generate new output). |
| 133 |
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|
| 134 |
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checkpoint61e |
| 135 |
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o gmredi (Visbeck-variable-K): |
| 136 |
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- fix the "OLD_VISBECK_CALC" option + move the #undef to GMREDI_OPTIONS.h |
| 137 |
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- change computation of Visbeck-K where Slope > Smax : |
| 138 |
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now: N*min(Slope,Smax) (similar to OLD_VISBECK_CALC with gkw91 taperFct) |
| 139 |
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previously was: M*sqrt(min(Slope,Smax)) ; update ideal_2D_oce output. |
| 140 |
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o bottom-drag in P-coord.: change units of bottomDragLinear & bottomDragQuadratic |
| 141 |
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to be the same as with Z-coord. (i.e., m/s & no-units respectively). |
| 142 |
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o calc_viscosity: fix index range (was wrong for CD-Scheme & explicit Visc) |
| 143 |
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o pkg gmredi, linear & fm07 tapering: put an upper limit on Slope^2 so that Kwz |
| 144 |
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does not become too large (to avoid precision problems in implicit-diffusion |
| 145 |
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solver); update ideal_2D_oce output. |
| 146 |
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o pkg ggl90: |
| 147 |
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- in ggl90_cal.F: compute only one set of visc/diff, used to |
| 148 |
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step forward TKE/T/S/momentum |
| 149 |
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- default value of GGL90viscMax/GGL90diffMax larger and equal (to |
| 150 |
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have Prandlt =1) |
| 151 |
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o gmredi (fm07): |
| 152 |
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- add lower limit on Transition layer thickness + lower limit on 1/lambda |
| 153 |
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- allow to set few more params from data.gmredi |
| 154 |
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o pkg ggl90: |
| 155 |
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- add missing sqrt(2) factor in computation of mixing length |
| 156 |
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scale in ggl90_calc.F |
| 157 |
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(see Eq. (2.35) in Blanke and Delecluse, JPO, 1993) |
| 158 |
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|
| 159 |
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checkpoint61d |
| 160 |
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o adjoint modifs |
| 161 |
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- adapt to new field rhoInSitu |
| 162 |
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- allow to revert from StoreDynVars2D, StoreDynVars3D |
| 163 |
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to individual fields |
| 164 |
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(switches AUTODIFF_USE_OLDSTORE_2D, AUTODIFF_USE_OLDSTORE_3D) |
| 165 |
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o store 3-D (in-situ) density in commom block (DYNVARS.h) |
| 166 |
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- save 1 rho computation. |
| 167 |
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- no longer modify T & S inland when using down_slope pkg. |
| 168 |
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o gad_som : allow to switch to SOM advection for T & S without corresponding |
| 169 |
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pickup files (using new S/R: MDS_CHECK4FILE). |
| 170 |
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o keep removing _BEGIN/_END_MASTER between MDSIO S/R call |
| 171 |
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(for useSingleCpuIO to work in multi-threaded) |
| 172 |
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o pkg/shelfice: |
| 173 |
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- disentangle parameters: retire shelfIceFile in data/PARM05 and substitute |
| 174 |
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with SHELFICEtopoFile in data.shelfice |
| 175 |
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- move code for reading ice shelf topography and modifying hFacC into separate |
| 176 |
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subroutines of the shelfice package |
| 177 |
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- separate initialisation of "fixed" and "variable" variables |
| 178 |
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- kTopC is not (yet) replaced by kSurfC, although this is possible |
| 179 |
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o fix broken diagnostic SIatmFW and changed the units from m/s to kg/m^2/s |
| 180 |
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o add initialisation of deepFac if using Pcoords (new S/R set_grid_factors) |
| 181 |
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and rename: |
| 182 |
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ini_phiref.F --> set_ref_state.F (+ set anelastic factors) |
| 183 |
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ini_reference_state.F --> load_ref_files.F (- set anelastic factors) |
| 184 |
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o change FIND_RHO_SCALAR : return rho (instead of rho - rhoConst) |
| 185 |
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|
| 186 |
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checkpoint61c |
| 187 |
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o add option ALLOW_ADDFLUID and run-time selector "selectAddFluid" |
| 188 |
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to add mass source/sink of fluid in the interior (3-D generalisation |
| 189 |
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of oceanic real-fresh water flux). |
| 190 |
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o pkg/monitor: fix recip_dr argument in mon_advcflw2 call (-> advcfl_W_hf_max) |
| 191 |
o vermix test experiment: switch from LINEAR EOS to MDJWF (not tested before) |
o vermix test experiment: switch from LINEAR EOS to MDJWF (not tested before) |
| 192 |
o new pkg: down_slope |
o new pkg: down_slope |
| 193 |
density-driven downsloping flow parameterisation (Tellus, 1999, 412-430). |
density-driven downsloping flow parameterisation (Tellus, 1999, 412-430). |
| 2385 |
- my82 (Mellor and Yamada, 1982) level 2 turbulence closure scheme |
- my82 (Mellor and Yamada, 1982) level 2 turbulence closure scheme |
| 2386 |
- these scheme operate in a similar manner as KPP (without ghat, of |
- these scheme operate in a similar manner as KPP (without ghat, of |
| 2387 |
course), however there is only one diffusivity that is used for both |
course), however there is only one diffusivity that is used for both |
| 2388 |
temperature and salinity (and passive tracers)ç |
temperature and salinity (and passive tracers) |
| 2389 |
o add offline package |
o add offline package |
| 2390 |
o add "verification/dic_example" which contains a dic-gchem-ptracer setup |
o add "verification/dic_example" which contains a dic-gchem-ptracer setup |
| 2391 |
provided by Stephanie Dutkiewicz |
provided by Stephanie Dutkiewicz |
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