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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: |
o pkg/exf: |
| 8 |
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- add code to process the case field period = -12. with UV interpolation. |
| 9 |
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- move debug print (formerly active when exf_verbose=T) from EXF_getFFieldRec |
| 10 |
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into S/R that calls it (i.e., exf_set_gen.F, exf_set_uv.F & obcs_exf_load.F) |
| 11 |
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o verification/global_with_exf: |
| 12 |
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- swith all fields period to -12. (was previously untested) in input/data.exf |
| 13 |
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(but keep secondary test ".yearly" unchanged); update the reference output. |
| 14 |
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o pkg/cal: |
| 15 |
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- new calendar type "noLeapYear" for 365 days calendar without any leap year. |
| 16 |
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o pkg/exf: |
| 17 |
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- new integer parameter "exf_debugLev" (default set to main model debugLevel) |
| 18 |
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to replace logical switch "exf_verbose" |
| 19 |
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- report in STDOUT when loading a new reccord (if exf_debugLev >= 3) |
| 20 |
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o pkg/sbo: |
| 21 |
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- update from Katherine Quinn: evaluate mass directly from density and SSH |
| 22 |
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(budget using Finite Volume method) instead of from bottom pressure. |
| 23 |
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- allow testreport to collect few selected SBO output ; tested in exp. |
| 24 |
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global_ocean.90x40x15 (after updating the results, to include SBO output). |
| 25 |
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- fix some multi-threading issues (in output part). |
| 26 |
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o model/src & most packages: |
| 27 |
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- always call {PKG}_READPARMS even if corresponding use{PKG}=F; |
| 28 |
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- in {PKG}_READPARMS, in case use{PKG}=F: add a call to new S/R |
| 29 |
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PACKAGES_UNUSED_MSG to print a weak warning when parameter file |
| 30 |
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"data.{pkg}" exist ; and leave the S/R (return) just after. |
| 31 |
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- more standard LAND pkg interface (land_init_fixed.F, land_check.F). |
| 32 |
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+ call LAND_READPARMS from packages_readparms.F |
| 33 |
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o pkg/seaice: |
| 34 |
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- remove code that resets useThSice in S/R seaice_readparms and |
| 35 |
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replace by a warning in S/R seaice_check |
| 36 |
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- remove parameter MULTDIM, replace with nITD and runtime |
| 37 |
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parameter SEAICE_multDim (still hard-wired to nITD if |
| 38 |
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SEAICE_ITD is defined) |
| 39 |
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|
| 40 |
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checkpoint64x (2014/05/24) |
| 41 |
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o verification/lab_sea: |
| 42 |
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- update adjoint and TLM output following changes to pkg/salt_plume |
| 43 |
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- un-do the update after putting back local recip_Cp in few places. |
| 44 |
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o pkg/salt_plume: modifications by An Nguyen: |
| 45 |
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- add capability to do brine rejection (salt-plume) as function of |
| 46 |
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volume+tracers (instead of only salinity tracer). |
| 47 |
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- conserve volume by exchanging volume from each kLev to above to |
| 48 |
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accommodate in-coming brine volume |
| 49 |
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- store surface and klev exchanged fraction + volume in 4 new 3-d arrays |
| 50 |
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- switch KPP surf buoyancy due to brine forcing to 3-d |
| 51 |
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(3 more 3-d arrays, 2 for SPforcing[T,S], 1 for boplume) |
| 52 |
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- add salt_plume_volfrac, salt_plume_apply, salt_plume_tendency_apply_t |
| 53 |
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- unrelatedly, also add ad-hoc capability to vary salt_plume scheme |
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in East/West Arctic. |
| 55 |
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o pkg/sbo: |
| 56 |
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- incorporate modifications from Katherine Quinn to enable the use of sbo |
| 57 |
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pkg in ECCO-v4 set-up ; remove SBO-TimeAve output ; add monitor-like |
| 58 |
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output for future testreport verification (unfinished). |
| 59 |
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o pkg/atm_phys: |
| 60 |
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- change diagnostics (AtPh_Trf & AtPh_Qrf) of DARGAN_BETTSMILLER S/R: |
| 61 |
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skip the reseting of t_ref & q_ref to initial t & q ; this preserve the |
| 62 |
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output of S/R CAPECALCNEW (Parcel temp & q) for diagnostics. |
| 63 |
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o pkg/seaice |
| 64 |
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seaice_calc_ice_strength.F: modify expression to avoid divisions |
| 65 |
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(affects truncation) |
| 66 |
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seaice_do_ridging.F: clean up the insectarium |
| 67 |
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- fix a bug that was compensated by areaScaling (-> remove areaScaling code) |
| 68 |
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- added SEAICEsnowFracRidge to redistributed snow (2nd bug) |
| 69 |
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- set closing/openingRate to zero where no extra iteration is need (3rd bug) |
| 70 |
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- add some debugging information and error messages (warnings) |
| 71 |
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o model/src: modifications relatd to atmosphere p*: |
| 72 |
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- Switch to more accurate p* coordinate slope term (calc_grad_phi_hyd.F) |
| 73 |
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- With p* or Sigma-P, use constant reference Pot.Temp (thetaConst) instead |
| 74 |
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of vertical profile tRef in geopotential background and anomaly. |
| 75 |
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- Acount for true p* correction in theta <-> T conversion in pkg/aim_v23 |
| 76 |
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and pkg/atm_phys. |
| 77 |
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- Update FWD output of experiments: aim.5l_cs (x2), fizhi-cs-32x32x40, |
| 78 |
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fizhi-cs-aqualev20, fizhi-gridalt-hs, tutorial_held_suarez_cs, cpl_aim+ocn. |
| 79 |
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o pkg/seaice: fix a bug in seaice_prepare_ridging.F, forgot a sqrt |
| 80 |
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o pkg/ptracers: compute ptracer source/sink due to linear free surface. |
| 81 |
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not used right now, but can be used in BGC packages to fix conservation. |
| 82 |
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o pkg/dic, pkg/gchem: move tracer_meanarea to gchem, so it can be used by |
| 83 |
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other packages too. |
| 84 |
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o pkg/seaice/seaice_calc_ice_strength.F: replace SEAICE_rhoSnow by |
| 85 |
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SEAICE_rhoIce in the Rothrock (1975)-type strength calculations (bug fix) |
| 86 |
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o model/src: |
| 87 |
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- since we have several heat capacity (even in model/src), define "recip_Cp" |
| 88 |
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as local variable (no longer in common block) to avoid any confusion. |
| 89 |
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- add thetaConst in PARAMS.h (to be used with pStar or sigma-P coords). |
| 90 |
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o pkg/exf: |
| 91 |
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- from Jeff Scott: add option (#define EXF_CALC_ATMRHO) to calculate local |
| 92 |
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air density as function of air Temp, Humidity and atm pressure. |
| 93 |
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|
| 94 |
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checkpoint64w (2014/05/02) |
| 95 |
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o verification: |
| 96 |
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- update output_adm.txt files for experiment global_ocean.cs32x15 (seaice & |
| 97 |
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seaice_dynmix) and lab_sea (primary test & noseaicedyn): moving/changing |
| 98 |
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code from seaice_growth.F & seaice_advdiff.F to new ridging routines |
| 99 |
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seaice_reg_ridge.F seaice_do_ridging.F affects AD gradient |
| 100 |
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(down to 8-7 matching digits for global_ocean and 5-6 for lab_sea). |
| 101 |
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o model/src: for atmosphere in p* coords: |
| 102 |
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- store factor rStarFacC**atm_kappa (= pStarFacK) in common block |
| 103 |
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- implement more accurate p* coordinate slope term (in calc_grad_phi_hyd.F), |
| 104 |
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but not yet activated. |
| 105 |
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o pkg/seaice: fix restart problem for ITD with new ice strength parameterisation: |
| 106 |
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- move computation of opnWtrFrac = 1-AREA to before computing ice strength |
| 107 |
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- this changes the results (but not for any verification experiment, because |
| 108 |
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none tests this), but avoids having an extra field in the restart files |
| 109 |
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o pkg/seaice: remove global variable TICE (not needed) |
| 110 |
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- replace by TICES or local variable where necessary (cost_seaice_test, |
| 111 |
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seaice_diagnostics_state) |
| 112 |
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- move copying TICE to TICES from seaice_check_pickup to seaice_read_pickup |
| 113 |
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- use specific read/write routines for reading and writing individual leves |
| 114 |
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of a multilevel field |
| 115 |
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o pkg/ctrl & model/inc: |
| 116 |
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- move additional anomaly fields of control vars (related to options: |
| 117 |
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ALLOW_KAPGM_CONTROL, ALLOW_KAPREDI_CONTROL and ALLOW_BOTTOMDRAG_CONTROL) |
| 118 |
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from DYNVARS.h into new header file: CTRL_FIELDS.h |
| 119 |
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o pkg/seaice: some small modifications to the ridging code |
| 120 |
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- make fw2ObyRidge a global variable and add the freshwater flux to |
| 121 |
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seaice_growth |
| 122 |
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- pass actual thickness from seaice_prepare_ridging, so that it is |
| 123 |
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computed only in one place and compute it in the same way as in |
| 124 |
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seaice_growth |
| 125 |
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- initialise more fields in seaice_do_ridging that where cause floating |
| 126 |
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point exceptions over land |
| 127 |
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o pkg/seaice: preparations for ridging code and first real ridging code |
| 128 |
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- move most of "PART 1" of S/R seaice_growth into a new and separate |
| 129 |
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S/R seaice_reg_ridge that will both regularize the state variable after |
| 130 |
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advection call the actual ridging routine; |
| 131 |
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- requires to make 5 fields global fields: d_HEFFbyNEG,d_HSNWbyNEG, |
| 132 |
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d_AREAbyRLX,d_HEFFbyRLX,saltFluxAdjust; |
| 133 |
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- remove ridging code from seaice_advdiff |
| 134 |
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- clean up remaining part 1 of seaice_growth in an attempt to make it |
| 135 |
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more readable (this is probably subjective) |
| 136 |
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- call seaice_itd_redist once in the initialisation phase to have the initial |
| 137 |
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conditions in the correct category |
| 138 |
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- finally: add new ridging routine for ITD code |
| 139 |
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|
| 140 |
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checkpoint64v (2014/04/11) |
| 141 |
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o pkg/ecco: |
| 142 |
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- add runtime parameters mdt[start,end]date[1,2] |
| 143 |
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- rename variable "tpmean" as "mdt" and "topexmeanfile" as "mdtdatfile" |
| 144 |
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o pkg/seaice: |
| 145 |
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- make deltaC a global variable, so that it can be used in ridging code |
| 146 |
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- first step towards ridging: introduce new routines that compute |
| 147 |
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ice strength based on ridging parameters |
| 148 |
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- add diagnostic for HSNOWITD |
| 149 |
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- add opnWtrFrac as a global variable (required for ridging scheme) |
| 150 |
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o pkg/salt_plume + pkg/seaice/seaice_growth.F |
| 151 |
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- add SALT_PLUME_IN_LEADS flag to activate pkg/salt_plume only when ice |
| 152 |
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AREA exceeds a threshold (code contributed by I.Fenty in 2011) |
| 153 |
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o verification/hs94.1x64x5: |
| 154 |
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- leave ALLOW_AUTODIFF_TAMC undefined in code_oad/AUTODIFF_OPTIONS.h |
| 155 |
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- do not use ECCO_CPPOPTIONS.h anymore for TAF & OpenAD Adjoint tests. |
| 156 |
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o autodiff: |
| 157 |
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- Start to include explicitly AUTODIFF_OPTIONS.h, COST_OPTIONS.h, |
| 158 |
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and CTRL_OPTIONS.h in src files (to enable to skip the ECCO_CPPOPTIONS.h) |
| 159 |
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For now, only in pkgs used in verification/hs94.1x64x5. |
| 160 |
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- Replace ALLOW_AUTODIFF_TAMC by ALLOW_AUTODIFF (except for tape/storage |
| 161 |
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which are specific to TAF/TAMC). |
| 162 |
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- Replace ALLOW_AUTODIFF_OPENAD by ALLOW_OPENAD: |
| 163 |
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since ALLOW_OPENAD is defined in PACKAGES_CONFIG.h (any time pkg/openad |
| 164 |
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is compiled), this simplifies/reduces which *_OPTIONS.h file to include. |
| 165 |
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- OpenAD: change Makefile to generate the appropriate AD_CONFIG.h when |
| 166 |
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building mitgcmuv_ad (make adAll). |
| 167 |
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o pkg/ecco: |
| 168 |
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- cost_gencost_seaicev4.F: |
| 169 |
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reformulate proxy cost as function of sst and local param SEAICE_freeze |
| 170 |
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change cost names from siv4-[sst,vol] to siv4-[deconc,exconc] |
| 171 |
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- add stop statement if old names siv4-[sst,vol] are used |
| 172 |
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- add snapshots + cost reports for atmospheric longwave |
| 173 |
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- remove factor 0.1 in front of wtau[u,v] |
| 174 |
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- replace never used flag ALLOW_TMI_COST_CONTRIBUTION with |
| 175 |
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ALLOW_TMI_SST_COST_CONTRIBUTION |
| 176 |
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o pkg/atm_phys: |
| 177 |
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- add some diagnostics for Short-wave and for convection S/R. |
| 178 |
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o pkg/seaice/seaice_growth: |
| 179 |
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- fix a bug in the lateral melt parameterization for SEAICE_ITD |
| 180 |
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in seaice_growth; tempFrz needs to be computed inside the i/j-loop |
| 181 |
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- rearrange loop order for better vector code in the same code block |
| 182 |
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- rewrite the floeDiameter formula to have fewer divisions |
| 183 |
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- (miraculously) none of this changes the results of seaice_itd |
| 184 |
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o pkg/smooth: |
| 185 |
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- move param smooth2Ddiffnbt to pkg/ecco |
| 186 |
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o pkg/salt_plume: |
| 187 |
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- salt_plume_frac.F: |
| 188 |
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clean up local param names |
| 189 |
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reformulate (1-frac) to frac; original 1-frac was based on swfrac code |
| 190 |
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o pkg/rw: |
| 191 |
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- add RS version of S/R READ_MFLDS_LEV. |
| 192 |
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o pkg/streamice: |
| 193 |
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- fix the restart test by writing/reading pickup_streamice files. |
| 194 |
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o pkg/seaice: |
| 195 |
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- refine checks for jfnk-related parameters |
| 196 |
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- comment out if statement with SEAICEuseIMEX parameter as long as there |
| 197 |
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is no IMEX code to avoid confusion and surprises |
| 198 |
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|
| 199 |
|
checkpoint64u (2014/03/07) |
| 200 |
|
o verification/MLAdjust: |
| 201 |
|
- rename secondary test suffix: |
| 202 |
|
1.leith -> A4FlxF + switch to flux-form & add side-drag |
| 203 |
|
0.leithD -> AhFlxF + switch to flux-form |
| 204 |
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0.smag -> AhVrDv (use Vorticity-Div. visc form) + add side-drag |
| 205 |
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0.leith -> AhStTn (use Strain-Tension visc form) + add side-drag |
| 206 |
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o pkg/mom_vecinv: |
| 207 |
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- remove unused arguments from S/R MOM_VI_HDISSIP & MOM_HDISSIP (as it used |
| 208 |
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to be before mom_calc_visc.F) |
| 209 |
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- skip the call to MOM_CALC_TENSION & MOM_CALC_STRAIN if not needed. |
| 210 |
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- add 2nd copy of vort3 & strain that knows about lateral BC (free/no slip): |
| 211 |
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this is simpler for the adjoint and for diagnostics. |
| 212 |
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o model/src + pkg/momentum: |
| 213 |
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- add input files for 2-D additional Western and Southern cell-edge wall |
| 214 |
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(e.g., to add "thin-wall" where it is =1). |
| 215 |
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- fix sideDrag option for thin-walls with Non-Lin Free-Surf |
| 216 |
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using 2nd hFacZ that is computed from initial (fix domain) hFac |
| 217 |
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- known limitations of thin wall implementation: not yet coded for sigma |
| 218 |
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coords; not working with CD-scheme neither. |
| 219 |
|
o pkg/seaice: |
| 220 |
- rename recently introduced parameters from (wrong name) AB to |
- rename recently introduced parameters from (wrong name) AB to |
| 221 |
BDF (backward difference time discretisation) |
BDF (backward difference time discretisation) |
| 222 |
- retire runtime parameters SEAICEuseAB2, SEAICE_abEps |
- retire runtime parameters SEAICEuseAB2, SEAICE_abEps |
| 223 |
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o tools/adjoint_options: |
| 224 |
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- remove setting of "OPENAD=true" (now set by command line "genmake2 -oad") |
| 225 |
|
|
| 226 |
checkpoint64t (2014/02/01) |
checkpoint64t (2014/02/01) |
| 227 |
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o pkg/ecco |
| 228 |
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- add compile flag ALLOW_GENCOST_TIMEVARY_WEIGHT in ECCO_OPTIONS.h and |
| 229 |
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runtime logical flag gencost_timevaryweight to read daily sea-ice sigma |
| 230 |
|
- replace hard-coded record number and period which only work for monthly |
| 231 |
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with read-in runtime param that works for other periods (month,day,year) |
| 232 |
o pkg/thsice |
o pkg/thsice |
| 233 |
- corrected store directive fixes thsice adjoint gradient checks |
- corrected store directive fixes thsice adjoint gradient checks |
| 234 |
o genmake2 & testreport: |
o genmake2 & testreport: |
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