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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 global_ocean.cs32x15: |
| 8 |
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change SIZE.h of AD set-up to get same tiling as with MPI. |
| 9 |
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Update output_adm, output_adm.thsice (pass@14) & output_adm.seaice (fail@11) |
| 10 |
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o model/src: |
| 11 |
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add flag to control printing of domain fields (bathymetry, hFac ...) in |
| 12 |
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ini_mask_etc (call to plot_fieds_xy*). |
| 13 |
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o pkg/thsice: |
| 14 |
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if useEXF, some forcing fields are not valid in overlap: fixed by computing |
| 15 |
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over the interior only + apply EXCH at the end (like with SEAICE advection). |
| 16 |
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o pkg/mdsio: |
| 17 |
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- add 2 arguments to S/R MDS_PASS_R4/8toRL/S for overlap size of buffer |
| 18 |
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to copy to/from, so that it can be used to replace MDS_PASS_WH_R8toRL/RS. |
| 19 |
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- change barrier call for safe multi-threads access to 3-D shared buffer. |
| 20 |
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- MDS_READ/WRITEVEC_LOC use buffers from MDSIO_BUFF_3D.h (instead of local ones) |
| 21 |
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- replace call to MDS_PASS_WH_R4/8toRL with call to MDS_PASS_R4/8toRL and |
| 22 |
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remove the 4 S/R MDS_PASS_WH_R4/8toRL/S. |
| 23 |
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o pkg/flt: |
| 24 |
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- add fourth-order Runge-Kutta integration |
| 25 |
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- add basic exch2 support (only 1 facet supported so far!) |
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o pkg/mdsio+rw: |
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new S/R to read local (or tile independent) vector (read counterpart of |
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mds_writevec_loc, and front-end write_glvec_rl/rs). |
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o global_ocean.cs32x15: additional input_ad.seaice experiment |
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that uses pkg/seaice rather than pkg/thsice. |
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(using multidim advection for seaice) |
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o towards more F95 syntax for array specification in namelist: |
| 33 |
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- change "data.diagnostics" (data.ptracers was changed before checkpoint62p) |
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of all verification experiments. |
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e.g.: line: fields(1,3)='ETAN ','ETANSQ ', |
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was changed to: fields(1:2,3)='ETAN ','ETANSQ ', |
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- finish adding "-DNML_EXTENDED_F77" to DEFINES list in pgf77 and g77 optfiles |
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o global_ocean.cs32x15: additional input.seaice experiment |
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that uses pkg/seaice rather than pkg/thsice. |
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checkpoint62p (2010/12/17) |
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o pkg/thsice: rename (ad tape index) iicekey as ticekey, and move it |
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to THSICE_SIZE.h to avoid conflict with pkg/seaice. |
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o pkg/seaice: add seaice_diffusion.f seaice_map_thsice.f to adjoint. |
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allow for use of multim. advection in seaice adjoint. |
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o pkg/seaice: add diagnostics for snow precipitation and sublimation flux |
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- first attempt to close budgets by taking into account the freshwater |
| 48 |
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flux implied by the sublimation of snow and ice. So far only the |
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volume budget is closed, turn on with soon-to-be-retired-again CPP-Flag |
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SEAICE_ADD_SUBLIMATION_TO_FWBUDGET |
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o eesupp/src: |
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new S/R with new option (NML_EXTENDED_F77) to change array specification |
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from F95 standard to commonly accepted extended F77 form. |
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This would allow to use F95 syntax in namelist (needed with gfortran 4.4.5) |
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and to revert back to the original syntax (with -DNML_EXTENDED_F77) |
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for less tolerant f77 compiler (e.g., pgf77, g77). |
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o globalFiles: |
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commented out in parameter file "data" since it's not safe with MPI |
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(e.g., wrong on aces); keep it if useSingleCpuIO=T (but not doing much |
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in this case); no longer commented out in restart test (tst_2+2). |
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o add adTapeDir to specify a special directory where adjoint tapes are |
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written/read (adread_adwrite.F). adTapeDir is specified in data/PARM05 |
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and cannot be used together with mdsioLocalDir. |
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o nesting pkgs: |
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- packages_init_variables : put call to OBCS_INIT_VARIABLES in last position |
| 66 |
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- update Gianmaria's Nesting pkgs (from Contrib/nesting_sannino) |
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- add parameter files + utils dir + output from short run on beagle. |
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o pkg/seaice: |
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fix seaice_growth.F store directives; update results of exp. lab_sea.ad |
| 70 |
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o pkg/seaice: explicitly store tsurfloc in seaice_solve4temp.F to avoid |
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unnecessary copying in adjoint code, requires new parameter NMAX_ITER |
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checkpoint62o (2010/11/25) |
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o pkg/exf: |
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- change CPP option EXF_VERBOSE to run-time logical param exf_verbose. |
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o pkg/seaice: |
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- seaice_ocean_stress: split a loop for better vectorization of the |
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adjoint code |
| 79 |
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- seaice_growth.F: fix bug in conservation of freshwater connected to |
| 80 |
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capping of heff, put contribution into d_HEFFbyNEG |
| 81 |
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- replace irritating parameters SEAICE_latentWater/Ice and SEAICE_sensHeat |
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by something more sensible (parameters that are what their name implies) |
| 83 |
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- change some defaults, so that by default exf-parameters are used for |
| 84 |
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things like rhoAir, cpAir,latent/sensible heat parameters, in order |
| 85 |
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to reproduce the old results, many data.seaice now contain funny values |
| 86 |
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for cpAir and latent heat of sublimation |
| 87 |
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o packages_readparms.F: move exf_readparms up in line so that |
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exf-parameters are visible for other packages (e.g. seaice) |
| 89 |
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o debugMode & debugLevel=2: |
| 90 |
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- differentiate between debugMode & debugLevel=2: |
| 91 |
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debugMode: controls printing of debug messages (sequence of S/R calls). |
| 92 |
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debugLevel: controls printing of algorithm intermediate results and stats. |
| 93 |
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- remove "if debugLevel=2 => debugMode" but keep "debugMode => debugLevel=2"; |
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=> allows to print debug-stats without all sequence of call messages. |
| 95 |
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- switch control of debug print from debugLevel to debugMode in many S/R. |
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o pkg/obcs (obcs-sponge): |
| 97 |
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fix bug that was introduced on Oct 25 (in dynamics.F v1.151): put back the |
| 98 |
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call to OBCS_PRESCRIBE_EXCHANGES (need to exch gU,gV when using obcs-sponge) |
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o pkg/generic_advdiff: |
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- record overlap minimum size for each advection scheme; |
| 101 |
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- refine criteria on overlap minimum size; |
| 102 |
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- check and stop (in gad_check) if overlap size is too small. |
| 103 |
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o pkg/obcs: |
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- with ptracers: remove multiple calls to obcs_apply_ptracer (only done |
| 105 |
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once, in ptracers_implicit.F) |
| 106 |
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- with seaice: remove test on empty file name in obcs_apply_seaice (always |
| 107 |
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apply OB values when tile has OB) |
| 108 |
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o model/src, coriolis setting: |
| 109 |
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- integer parameter "selectCoriMap" (=0,1,2) replaces 3 logical |
| 110 |
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useConstantF, useBetaPlaneF, useSphereF ; can now read coriolis from |
| 111 |
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files (selectCoriMap=3) with any grid. |
| 112 |
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- add parameter "fPrime" for constant second Coriolis coeff (default=0). |
| 113 |
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o pkg/seaice/seaice_growth.F: |
| 114 |
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a few cosmetic changes that reduce the number of lines of code |
| 115 |
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o pkg/obcs: add boundary conditions following Stevens (1990) |
| 116 |
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- the code follows old MOM/NAOSIM code |
| 117 |
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- so far it is only implemented for the eastern and western boundaries |
| 118 |
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and NOT for pTracers |
| 119 |
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o pkg/rbcs: |
| 120 |
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- replace rbcsInIter by rbcsForcingOffset, the time in seconds at the |
| 121 |
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beginning of the first rbcs forcing period. |
| 122 |
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- add option rbcsSingleTimeFiles that makes rbcs read forcing data like the |
| 123 |
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offline package, i.e., one file per time, labeled by iteration number; |
| 124 |
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deltaTrbcs sets the timestep with which the data was generated; |
| 125 |
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rbcsIter0 is the forcing iteration corresponding to rbcsForcingOffset. |
| 126 |
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- rbcsForcingCycle=0 makes forcing non-cyclic. |
| 127 |
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- make arithmetic safe for negative times and odd forcing periods. |
| 128 |
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|
| 129 |
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checkpoint62n (2010/11/09) |
| 130 |
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o pkg/seaice: |
| 131 |
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fix masking in free-drift S/R ; update results of exp. lab_sea.fd |
| 132 |
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o pkg/obcs: |
| 133 |
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New S/R to copy tracer value from the OB location to narrow band region |
| 134 |
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(width = same as overlap) beyond the OB: preserve OB value (needed for |
| 135 |
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high-order scheme) which were overwritten by EXCH call if in overlap |
| 136 |
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region. Applied to theta, salt, ptracer and advected seaice variables. |
| 137 |
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With seaice: use maskInC in similar way as in gad_advection.F, |
| 138 |
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in seaice_advection.F and advect.F. |
| 139 |
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Update output of experiment seaice_obcs and change exp4 to test OBCS with |
| 140 |
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4th order Adv.Scheme. for pasive salt and ptracer. |
| 141 |
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o tools/genmake2: |
| 142 |
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- when looking for an optfile (not specified), only search for Fortran compiler |
| 143 |
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(remove sym-link test + setting of CPP + makedepend check + C-compiler check) |
| 144 |
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- in get_fortran_c_namemangling: use "$CC $CFLAG" to compile C test programm |
| 145 |
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(instead of "$MAKE genmake_test.o" since an existing Makefile can be wrong) |
| 146 |
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- set default for CPP to "cpp -traditional -P" (was the case without specifying |
| 147 |
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an optfile, but otherwise default was just "cpp". |
| 148 |
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- comment out PLATFORM=$p_PLATFORM (no idea where p_PLATFORM comes from) |
| 149 |
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- when "CC" is not set in the optfile, look for possible C compiler |
| 150 |
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(instead of just setting CC=cc) |
| 151 |
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- put back version v.169 modif (from 2008/02/15), was dropped in v.173 changes: |
| 152 |
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=> add a ".F" to ".o" rule for source files with no "#include" (such as |
| 153 |
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port_rand.F); otherwise, default ignores FOPTIM and just uses FFLAGS. |
| 154 |
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- move gfortran before g77 in list of possible Fortran compiler (consistent |
| 155 |
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with reference compiler switch from g77 to gfortran) |
| 156 |
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o pkg/seaice: |
| 157 |
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o remove SEAICE_OLD_AND_BAD_DISCRETIZATION-code, add a test to |
| 158 |
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seaice_check that stops the model, when the CPP flag is used. |
| 159 |
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o seaice_growth.F: make capping of ice volume conserving by returning the |
| 160 |
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capped ice as freshwater to EmPmR. This does not change the verification |
| 161 |
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experiments but will change runs where the capping is acutally active |
| 162 |
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o change reference platform+compiler from faulks+g77 to baudelaire+gfortran |
| 163 |
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(except the 2 fizhi test exp.); update output of exp.: bottom_ctrl_5x5, |
| 164 |
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global_ocean.cs32x15 (icedyn, thsice, AD thsice), global_ocean_ebm (AD), |
| 165 |
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lab_sea (fd, hb87, salt_plume), MLAdjust (3/5) and vermix (dd) |
| 166 |
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o tools/genmake2: |
| 167 |
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- merge genmake_warnings & genmake_errors into 1 log file: "genmake.log") |
| 168 |
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- change DUMPSTATE default to false (can use "-ds" option to switch it to T) |
| 169 |
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- clean previous genmake log files before anything else. |
| 170 |
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- change Makefile to remove testreport log files (*.tr_log) and genmake log |
| 171 |
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files only with "CLEAN" target (instead of "Clean"); |
| 172 |
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o pkg/generic_advdiff: |
| 173 |
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Change OBCS in multiDim advection (gad_advection.F): |
| 174 |
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Use maskInC to prevent intermediate update of tracer-field in OB regions, |
| 175 |
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thus keeping current-time-step OB values; and remove the call to OBCS_APPLY |
| 176 |
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which were applying future time-step OB values. |
| 177 |
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This way, all explicit calculations use current-time-step OB values |
| 178 |
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(simpler and more consistent). |
| 179 |
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Affects results when set-up uses time-varying OBC and multi-dim advection; |
| 180 |
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update output of experiment seaice_obcs. |
| 181 |
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o pkg/seaice: |
| 182 |
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move OPTIONS (formerly locally defined) to SEAICE_OPTIONS.h: |
| 183 |
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this includes SEAICE_GROWTH_LEGACY (+ SEAICE_DO_OPEN_WATER_GROWTH & |
| 184 |
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SEAICE_OCN_MELT_ACT_ON_AREA ) and SEAICE_SOLVE4TEMP_LEGACY. |
| 185 |
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Default (pkg/seaice/SEAICE_OPTIONS.h) is to define SEAICE_SOLVE4TEMP_LEGACY |
| 186 |
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but leave SEAICE_GROWTH_LEGACY undef ; For now, keep verification exp |
| 187 |
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unchanged (SEAICE_GROWTH_LEGACY defined in */code*/SEAICE_OPTIONS.h) |
| 188 |
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o pkg aim (2010/10/26): |
| 189 |
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- Introduce ALLOW_INSOLATION, moving toward a more general incoming solar radiation |
| 190 |
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formulation with obliquity, eccentricity, ... as run-time parameters, |
| 191 |
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- Introduce diagnostics for top-of-the-atmaophere incoming solar radiation and |
| 192 |
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upward shortwave radition at the surface (all-sky and clear-sky). |
| 193 |
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o pkg/obcs: |
| 194 |
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- writing sections with globalFiles=T does not work: switch to tiled-files |
| 195 |
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when writing sections for OBCS (change pkg/rw/write_rec.F accordingly). |
| 196 |
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- fix index bug (OB_Ie -> OB_Iw_) in obcs_apply_uvice.F |
| 197 |
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- apply OBCS_SEAICE_COMPUTE_UVICE to both uice and vice at all obcs |
| 198 |
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|
| 199 |
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checkpoint62m (2010/10/21) |
| 200 |
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o pkg/seaice: vectorize seaice_solve4temp.F |
| 201 |
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- move iterations loops outside of i/j-loops |
| 202 |
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- requires 2D arrays for TB and effConduct |
| 203 |
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- add 2D iceOrNot to replace HICE_ACTUAL.GT.0, as HICE_ACTUAL is |
| 204 |
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modified in this routine |
| 205 |
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- a little bit of clean up, adjusting indentation, etc. |
| 206 |
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- replaced a few TEN**a by exp(a*log(10.)) in new code for better |
| 207 |
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performance and '**TWO' by '**2' (because TWO is a float), |
| 208 |
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replaced ONE, ZERO |
| 209 |
o eesupp/src: |
o eesupp/src: |
| 210 |
fix flow dir for exch1_z_RX_cube, exch1_uv_RX_cube & exch1_bg_RX_cube |
fix flow dir for exch1_z_RX_cube, exch1_uv_RX_cube & exch1_bg_RX_cube |
| 211 |
o pkg/seaice/seaice_growth.F |
o pkg/seaice/seaice_growth.F |
| 240 |
does not change the verifcation experiment, but will change all |
does not change the verifcation experiment, but will change all |
| 241 |
experiments that have this flag undefined (not tested in verification); |
experiments that have this flag undefined (not tested in verification); |
| 242 |
a little reorganization to save a few 2D fields and recomputations |
a little reorganization to save a few 2D fields and recomputations |
| 243 |
|
- 1st step of revisiting thsice adjoint (major recomp. sorted out) |
| 244 |
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- 2nd step: fix some store dirs |
| 245 |
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o seems to work somewhat, i.e. using ifort but not g77 |
| 246 |
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o likely cause are incomplete init. or recomputation |
| 247 |
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o start verification/global_ocean.cs32x15/input_ad.thsice |
| 248 |
o pkg/obcs: add support for exch2 |
o pkg/obcs: add support for exch2 |
| 249 |
- the position of the boundary and prescribed values are specified using |
- the position of the boundary and prescribed values are specified using |
| 250 |
a global domain with exch2 facets stacked |
a global domain with exch2 facets stacked |
| 606 |
but keep the former optfile for few weeks for smooth transition |
but keep the former optfile for few weeks for smooth transition |
| 607 |
o pkg/ecco |
o pkg/ecco |
| 608 |
- allow user defined cost function contributions |
- allow user defined cost function contributions |
| 609 |
CPP: ALLOW_USERCOST_CONTRIBUTION |
CPP: ALLOW_USERCOST_CONTRIBUTION |
| 610 |
USAGE: compute contributions in cost_usercost_all.F |
USAGE: compute contributions in cost_usercost_all.F |
| 611 |
- note: this is identical to what ALLOW_GENCOST_CONTRIBUTION once was. |
- note: this is identical to what ALLOW_GENCOST_CONTRIBUTION once was. |
| 612 |
the two options are complementary. |
the two options are complementary. |
| 613 |
o pkg/smooth |
o pkg/smooth |
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