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Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
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============================== |
============================== |
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checkpoint65 (2014/07/18) |
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o pkg/fizhi: |
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- add parenthesis around fizhi tendencies in fizhi_tendency_apply.F: this |
| 10 |
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affects results at machine truncation level. Update output of experiments |
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fizhi-cs-32x32x40 (12 digits for cg2d) & fizhi-cs-aqualev20 (13 digits). |
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o pkg/seaice: more clean up |
| 13 |
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- rename TAF common block tapes to be more consistent and remove |
| 14 |
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unnecessary duplicates |
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- add store directives to remove more recomputations, but use smaller |
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tapes (and adjust keys) when SEAICE_LSR_ADJOINT_ITER is undefined. |
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The idea behind this flag is to reduce the memory footprint when the |
| 18 |
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adjoint of the LSR is not required. As of now, defining the flag |
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SEAICE_LSR_ADJOINT_ITER increases 4 common block tapes for 2D field by |
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a factor of SOLV_MAX_FIXED (=500 by default in SEAICE_SIZE.h). |
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For experiment offline_exf_seaice, this means on a linux box with gfortran |
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nearly a factor of 10 (but keep in mind there is mostly seaice code in |
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this experiment): |
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> size mitgcmuv_ad |
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text data bss dec hex |
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5100659 1216 220458952 225560827 d71c8fb |
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5339425 1200 1868783272 1874123897 6fb4dc79 (SEAICE_LSR_ADJOINT_ITER) |
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but only a moderate increase of 36% for global_ocean.cs32x15: |
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text data bss dec hex |
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6695027 1648 1014578664 1021275339 3cdf6ccb |
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6695203 1648 1382505320 1389202171 52cd8afb (SEAICE_LSR_ADJOINT_ITER) |
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- note: there are still recomputations in global_ocean.cs32x15 and |
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offline_exf_seaice and the gradient agreement changes (gets a |
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little worse) for global_ocean.cs32x15 (-> update output_adm.seaice.txt) |
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- in general, the AD gradients still are wrong |
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o OpenAD |
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- clean up code_oad/ directories somewhat by moving files |
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dontCompile, dontTransform, keepOriginal to OAD_support/ |
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o model/src: |
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- using MOM fluxform and Non-Lin Free-Surf with momDissip_In_AB=F |
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(not currently tested): add dissipation terms before NLFS rescaling of |
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tendencies (previously done after). |
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o pkg/diagnostics: |
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- write stats-diags in ascii file with more digits (same as in monitor). |
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o pkg/down_slope: |
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- drop the bi,bj dimension of argument recip_hFac in S/R DWNSLP_APPLY; with |
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NLFS (not tested), use new recip_hFac value in order to conserve tracer. |
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o model/src: |
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- new file "apply_forcing.F" containing all the code previously in |
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external_forcing.F, but with new argument list: pass, as new argument, |
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the current level tendency array to update (instead of a direct update |
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of the common bloc array). Change the corresponding calls. |
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- add CPP option USE_OLD_EXTERNAL_FORCING (default is undef) to use |
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EXTERNAL_FORCING_U,V,T,S subroutines (for backward compatibility). |
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o pkg/seaice/seaice_lsr, a little bit of clean up |
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- rearrange some code blocks, so that now all calculations for |
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setting up the right-hand-sides done within one single block |
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(I find that easier to read and understand) |
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- rearrange freedrift-code to reduce the number of ifdefs |
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- adjust some indentations and comments |
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|
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checkpoint64z (2014/07/10) |
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o model/src and several pkgs: |
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- change argument list of all S/R called from external_forcing.F and |
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called from ptracers_forcing.F (renamed to ptracers_apply_forcing.F) |
| 66 |
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to pass, as argument, the current level tendency array to update |
| 67 |
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(instead of a direct update of the common bloc array). |
| 68 |
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- change also (in the same way) argument list of PTRACERS_APPLY_FORCING; |
| 69 |
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- rename taueddy_external_forcing.f to taueddy_tendency_apply.F |
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o pkg/seaice/seaice_lsr.F |
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- always initialize local arrays in seaice_lsr_tridiagu/v |
| 72 |
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- add more local tapes to seaice_lsr_tridiagu/v |
| 73 |
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- move storing u/vice(:,:,bi,bj) out of seaice_lsr_tridiagu/v, but |
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keep it in bi/bj loop; this seems to be essential |
| 75 |
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- gradients are still wrong but only by 4-7 orders of magnitude |
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instead of 15 orders of magnitude, lab_sea improves a little |
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o pkg/seaice |
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- (pkg/autodiff) remove storing/restoring of seaiceMaskU/V that |
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generates unnecessary code in seaice_lsr_ad |
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- add more store directives in seaice_lsr to avoid unnecessary code |
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in seaice_lsr_ad |
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- exclude some residual computations in seaice_lsr when |
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ALLOW_AUTODIFF_TAMC is defined in order to avoid unnecessary code |
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in seaice_lsr_ad |
| 85 |
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- add more storing, a new tape (model/src/the_main_loop.F) and |
| 86 |
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another key for SEAICE_LSR_VECTORIZE_ZEBRA (the local keys ilockey |
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and klockey should be checked by a specialist) |
| 88 |
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- modify ( define SEAICE_VECTORIZE_LSR and SEAICE_LSR_ADJOINT_ITER ) |
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and update lab_sea after previous changes in pkg/seaice below |
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o pkg/autodiff: |
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- introduce useSmoothCorrel2DinAdMode, SEAICEapproxLevInAd, and |
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viscFacInAd : run time parameters allowing for adjoint switches |
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note : logic for useSmoothCorrel2DinAdMode is in ctrl_readparms.F |
| 94 |
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o pkg/ecco: |
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- introduce cost_gencost_boxmean.F that computes a box mean |
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temperature (for use in adjoint sensitivity studies). |
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o model/src/set_defaults.F : initialize viscFacAdj to 1. |
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o pkg/mom_common/mom_calc_visc.F: |
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- ifdef ALLOW_AUTODIFF then include viscFacAdj factor. |
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o pkg/seaice/seaice_summary.F: |
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- statement for SEAICEadjMODE now in autodiff_readparms.F |
| 102 |
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o pkg/seaice: |
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- remove some store directives and add new ones in an effort to get |
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finally rid off the recomputation warnings. This is successful |
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when SEAICE_VECTORIZE_LSR ***and*** SEAICE_LSR_ADJOINT_ITER are |
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defined (i.e. no extensive recomputation warnings left), but there |
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are still too many recomputations on the solver iteration level |
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- define SEAICE_VECTORISZE_LSR in offline_exf_seaice/code_ad/SEAICE_OPTIONS.h |
| 109 |
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- move definition of MPSEUDOTIMESTEPS into TAMC-block in |
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SEAICE_SIZE.h |
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- add a store directive in S/R seaice_calc_viscosities |
| 112 |
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o pkg/seaice (ITD code): |
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- fix definition of Hlimit for multi-threaded case |
| 114 |
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- use double precision arithmetic to compute Hlimit: this affects results; |
| 115 |
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update output of experiment seaice_itd. |
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o replace content of verification/seaice_itd |
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- instead of a 1D column use the configuration of offline_exf_seaice |
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to test the ice thickness distribution code with ridging |
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- this is a first shot at this experiment |
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- change of some defaults of ridging parameters SEAICEhStar (from |
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100 to 25) and SEAICEmuRidging (from 5 to 3) in seaice_readparms.F |
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and lot of new comments. |
| 123 |
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|
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checkpoint64y (2014/06/20) |
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o pkg/seaice/seaice_reg_ridge.F: |
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- modify the regularization of very small volumes of ice; only check |
| 127 |
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total volume HEFF, and do not apply correction to individual ice |
| 128 |
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classes because that leads to funny patterns in the heat and fw-fluxes |
| 129 |
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into the ocean. Adjust seaice_itd/results/output.txt |
| 130 |
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- replace nITD by SEAICE_multDim in loop-ranges |
| 131 |
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o pkg/exf: |
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- add code to process the case field period = -12. with UV interpolation. |
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- move debug print (formerly active when exf_verbose=T) from EXF_getFFieldRec |
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into S/R that calls it (i.e., exf_set_gen.F, exf_set_uv.F & obcs_exf_load.F) |
| 135 |
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o verification/global_with_exf: |
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- switch all fields period to -12. (was previously untested) in input/data.exf |
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(but keep secondary test ".yearly" unchanged); update the reference output. |
| 138 |
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o pkg/cal: |
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- new calendar type "noLeapYear" for 365 days calendar without any leap year. |
| 140 |
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o pkg/exf: |
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- new integer parameter "exf_debugLev" (default set to main model debugLevel) |
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to replace logical switch "exf_verbose" |
| 143 |
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- report in STDOUT when loading a new record (if exf_debugLev >= 3) |
| 144 |
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o pkg/sbo: |
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- update from Katherine Quinn: evaluate mass directly from density and SSH |
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(budget using Finite Volume method) instead of from bottom pressure. |
| 147 |
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- allow testreport to collect few selected SBO output ; tested in exp. |
| 148 |
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global_ocean.90x40x15 (after updating the results, to include SBO output). |
| 149 |
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- fix some multi-threading issues (in output part). |
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o model/src & most packages: |
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- always call {PKG}_READPARMS even if corresponding use{PKG}=F; |
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- in {PKG}_READPARMS, in case use{PKG}=F: add a call to new S/R |
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PACKAGES_UNUSED_MSG to print a weak warning when parameter file |
| 154 |
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"data.{pkg}" exist ; and leave the S/R (return) just after. |
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- more standard LAND pkg interface (land_init_fixed.F, land_check.F). |
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+ call LAND_READPARMS from packages_readparms.F |
| 157 |
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o pkg/seaice: |
| 158 |
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- remove code that resets useThSice in S/R seaice_readparms and |
| 159 |
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replace it by a warning in S/R seaice_check |
| 160 |
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- remove parameter MULTDIM, replace with nITD and runtime |
| 161 |
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parameter SEAICE_multDim (still hard-wired to nITD if |
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SEAICE_ITD is defined) |
| 163 |
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|
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checkpoint64x (2014/05/24) |
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o verification/lab_sea: |
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- update adjoint and TLM output following changes to pkg/salt_plume |
| 167 |
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- un-do the update after putting back local recip_Cp in few places. |
| 168 |
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o pkg/salt_plume: modifications by An Nguyen: |
| 169 |
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- add capability to do brine rejection (salt-plume) as function of |
| 170 |
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volume+tracers (instead of only salinity tracer). |
| 171 |
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- conserve volume by exchanging volume from each kLev to above to |
| 172 |
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accommodate in-coming brine volume |
| 173 |
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- store surface and klev exchanged fraction + volume in 4 new 3-d arrays |
| 174 |
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- switch KPP surf buoyancy due to brine forcing to 3-d |
| 175 |
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(3 more 3-d arrays, 2 for SPforcing[T,S], 1 for boplume) |
| 176 |
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- add salt_plume_volfrac, salt_plume_apply, salt_plume_tendency_apply_t |
| 177 |
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- unrelatedly, also add ad-hoc capability to vary salt_plume scheme |
| 178 |
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in East/West Arctic. |
| 179 |
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o pkg/sbo: |
| 180 |
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- incorporate modifications from Katherine Quinn to enable the use of sbo |
| 181 |
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pkg in ECCO-v4 set-up ; remove SBO-TimeAve output ; add monitor-like |
| 182 |
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output for future testreport verification (unfinished). |
| 183 |
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o pkg/atm_phys: |
| 184 |
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- change diagnostics (AtPh_Trf & AtPh_Qrf) of DARGAN_BETTSMILLER S/R: |
| 185 |
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skip the reseting of t_ref & q_ref to initial t & q ; this preserve the |
| 186 |
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output of S/R CAPECALCNEW (Parcel temp & q) for diagnostics. |
| 187 |
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o pkg/seaice |
| 188 |
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seaice_calc_ice_strength.F: modify expression to avoid divisions |
| 189 |
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(affects truncation) |
| 190 |
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seaice_do_ridging.F: clean up the insectarium |
| 191 |
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- fix a bug that was compensated by areaScaling (-> remove areaScaling code) |
| 192 |
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- added SEAICEsnowFracRidge to redistributed snow (2nd bug) |
| 193 |
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- set closing/openingRate to zero where no extra iteration is need (3rd bug) |
| 194 |
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- add some debugging information and error messages (warnings) |
| 195 |
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o model/src: modifications relatd to atmosphere p*: |
| 196 |
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- Switch to more accurate p* coordinate slope term (calc_grad_phi_hyd.F) |
| 197 |
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- With p* or Sigma-P, use constant reference Pot.Temp (thetaConst) instead |
| 198 |
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of vertical profile tRef in geopotential background and anomaly. |
| 199 |
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- Acount for true p* correction in theta <-> T conversion in pkg/aim_v23 |
| 200 |
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and pkg/atm_phys. |
| 201 |
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- Update FWD output of experiments: aim.5l_cs (x2), fizhi-cs-32x32x40, |
| 202 |
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fizhi-cs-aqualev20, fizhi-gridalt-hs, tutorial_held_suarez_cs, cpl_aim+ocn. |
| 203 |
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o pkg/seaice: fix a bug in seaice_prepare_ridging.F, forgot a sqrt |
| 204 |
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o pkg/ptracers: compute ptracer source/sink due to linear free surface. |
| 205 |
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not used right now, but can be used in BGC packages to fix conservation. |
| 206 |
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o pkg/dic, pkg/gchem: move tracer_meanarea to gchem, so it can be used by |
| 207 |
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other packages too. |
| 208 |
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o pkg/seaice/seaice_calc_ice_strength.F: replace SEAICE_rhoSnow by |
| 209 |
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SEAICE_rhoIce in the Rothrock (1975)-type strength calculations (bug fix) |
| 210 |
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o model/src: |
| 211 |
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- since we have several heat capacity (even in model/src), define "recip_Cp" |
| 212 |
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as local variable (no longer in common block) to avoid any confusion. |
| 213 |
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- add thetaConst in PARAMS.h (to be used with pStar or sigma-P coords). |
| 214 |
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o pkg/exf: |
| 215 |
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- from Jeff Scott: add option (#define EXF_CALC_ATMRHO) to calculate local |
| 216 |
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air density as function of air Temp, Humidity and atm pressure. |
| 217 |
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|
| 218 |
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checkpoint64w (2014/05/02) |
| 219 |
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o verification: |
| 220 |
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- update output_adm.txt files for experiment global_ocean.cs32x15 (seaice & |
| 221 |
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seaice_dynmix) and lab_sea (primary test & noseaicedyn): moving/changing |
| 222 |
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code from seaice_growth.F & seaice_advdiff.F to new ridging routines |
| 223 |
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seaice_reg_ridge.F seaice_do_ridging.F affects AD gradient |
| 224 |
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(down to 8-7 matching digits for global_ocean and 5-6 for lab_sea). |
| 225 |
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o model/src: for atmosphere in p* coords: |
| 226 |
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- store factor rStarFacC**atm_kappa (= pStarFacK) in common block |
| 227 |
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- implement more accurate p* coordinate slope term (in calc_grad_phi_hyd.F), |
| 228 |
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but not yet activated. |
| 229 |
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o pkg/seaice: fix restart problem for ITD with new ice strength parameterisation: |
| 230 |
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- move computation of opnWtrFrac = 1-AREA to before computing ice strength |
| 231 |
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- this changes the results (but not for any verification experiment, because |
| 232 |
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none tests this), but avoids having an extra field in the restart files |
| 233 |
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o pkg/seaice: remove global variable TICE (not needed) |
| 234 |
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- replace by TICES or local variable where necessary (cost_seaice_test, |
| 235 |
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seaice_diagnostics_state) |
| 236 |
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- move copying TICE to TICES from seaice_check_pickup to seaice_read_pickup |
| 237 |
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- use specific read/write routines for reading and writing individual leves |
| 238 |
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of a multilevel field |
| 239 |
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o pkg/ctrl & model/inc: |
| 240 |
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- move additional anomaly fields of control vars (related to options: |
| 241 |
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ALLOW_KAPGM_CONTROL, ALLOW_KAPREDI_CONTROL and ALLOW_BOTTOMDRAG_CONTROL) |
| 242 |
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from DYNVARS.h into new header file: CTRL_FIELDS.h |
| 243 |
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o pkg/seaice: some small modifications to the ridging code |
| 244 |
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- make fw2ObyRidge a global variable and add the freshwater flux to |
| 245 |
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seaice_growth |
| 246 |
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- pass actual thickness from seaice_prepare_ridging, so that it is |
| 247 |
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computed only in one place and compute it in the same way as in |
| 248 |
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seaice_growth |
| 249 |
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- initialise more fields in seaice_do_ridging that where cause floating |
| 250 |
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point exceptions over land |
| 251 |
o pkg/seaice: preparations for ridging code and first real ridging code |
o pkg/seaice: preparations for ridging code and first real ridging code |
| 252 |
- move most of "PART 1" of S/R seaice_growth into a new and separate |
- move most of "PART 1" of S/R seaice_growth into a new and separate |
| 253 |
S/R seaice_reg_ridge that will both regularize the state variable after |
S/R seaice_reg_ridge that will both regularize the state variable after |
| 254 |
advection call the actual ridging routine; |
advection call the actual ridging routine; |
| 255 |
- requires to make 5 fields global fields: d_HEFFbyNEG,d_HSNWbyNEG, |
- requires to make 5 fields global fields: d_HEFFbyNEG,d_HSNWbyNEG, |
| 256 |
d_AREAbyRLX,d_HEFFbyRLX,saltFluxAdjust; |
d_AREAbyRLX,d_HEFFbyRLX,saltFluxAdjust; |
| 257 |
- remove ridging code from seaice_advdiff |
- remove ridging code from seaice_advdiff |
| 258 |
- clean up remaining part 1 of seaice_growth in an attempt to make it |
- clean up remaining part 1 of seaice_growth in an attempt to make it |
| 259 |
more readable (this is probably subjective) |
more readable (this is probably subjective) |
| 260 |
- call seaice_itd_redist once in the initialisation phase to have the initial |
- call seaice_itd_redist once in the initialisation phase to have the initial |
| 261 |
conditions in the correct category |
conditions in the correct category |
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