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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/obcs: add boundary conditions following Stevens (1990) |
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- the code follows old MOM/NAOSIM code |
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- so far it is only implemented for the eastern and western boundaries |
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and NOT for pTracers |
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o pkg/rbcs: |
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- replace rbcsInIter by rbcsForcingOffset, the time in seconds at the |
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beginning of the first rbcs forcing period. |
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- add option rbcsSingleTimeFiles that makes rbcs read forcing data like the |
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offline package, i.e., one file per time, labeled by iteration number; |
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deltaTrbcs sets the timestep with which the data was generated; |
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rbcsIter0 is the forcing iteration corresponding to rbcsForcingOffset. |
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- rbcsForcingCycle=0 makes forcing non-cyclic. |
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- make arithmetic safe for negative times and odd forcing periods. |
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checkpoint62n (2010/11/09) |
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o pkg/seaice: |
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fix masking in free-drift S/R ; update results of exp. lab_sea.fd |
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o pkg/obcs: |
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New S/R to copy tracer value from the OB location to narrow band region |
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(width = same as overlap) beyond the OB: preserve OB value (needed for |
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high-order scheme) which were overwritten by EXCH call if in overlap |
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region. Applied to theta, salt, ptracer and advected seaice variables. |
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With seaice: use maskInC in similar way as in gad_advection.F, |
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in seaice_advection.F and advect.F. |
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Update output of experiment seaice_obcs and change exp4 to test OBCS with |
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4th order Adv.Scheme. for pasive salt and ptracer. |
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o tools/genmake2: |
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- when looking for an optfile (not specified), only search for Fortran compiler |
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(remove sym-link test + setting of CPP + makedepend check + C-compiler check) |
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- in get_fortran_c_namemangling: use "$CC $CFLAG" to compile C test programm |
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(instead of "$MAKE genmake_test.o" since an existing Makefile can be wrong) |
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- set default for CPP to "cpp -traditional -P" (was the case without specifying |
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an optfile, but otherwise default was just "cpp". |
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- comment out PLATFORM=$p_PLATFORM (no idea where p_PLATFORM comes from) |
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- when "CC" is not set in the optfile, look for possible C compiler |
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(instead of just setting CC=cc) |
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- put back version v.169 modif (from 2008/02/15), was dropped in v.173 changes: |
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=> add a ".F" to ".o" rule for source files with no "#include" (such as |
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port_rand.F); otherwise, default ignores FOPTIM and just uses FFLAGS. |
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- move gfortran before g77 in list of possible Fortran compiler (consistent |
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with reference compiler switch from g77 to gfortran) |
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o pkg/seaice: |
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o remove SEAICE_OLD_AND_BAD_DISCRETIZATION-code, add a test to |
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seaice_check that stops the model, when the CPP flag is used. |
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o seaice_growth.F: make capping of ice volume conserving by returning the |
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capped ice as freshwater to EmPmR. This does not change the verification |
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experiments but will change runs where the capping is acutally active |
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o change reference platform+compiler from faulks+g77 to baudelaire+gfortran |
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(except the 2 fizhi test exp.); update output of exp.: bottom_ctrl_5x5, |
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global_ocean.cs32x15 (icedyn, thsice, AD thsice), global_ocean_ebm (AD), |
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lab_sea (fd, hb87, salt_plume), MLAdjust (3/5) and vermix (dd) |
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o tools/genmake2: |
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- merge genmake_warnings & genmake_errors into 1 log file: "genmake.log") |
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- change DUMPSTATE default to false (can use "-ds" option to switch it to T) |
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- clean previous genmake log files before anything else. |
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- change Makefile to remove testreport log files (*.tr_log) and genmake log |
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files only with "CLEAN" target (instead of "Clean"); |
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o pkg/generic_advdiff: |
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Change OBCS in multiDim advection (gad_advection.F): |
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Use maskInC to prevent intermediate update of tracer-field in OB regions, |
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thus keeping current-time-step OB values; and remove the call to OBCS_APPLY |
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which were applying future time-step OB values. |
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This way, all explicit calculations use current-time-step OB values |
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(simpler and more consistent). |
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Affects results when set-up uses time-varying OBC and multi-dim advection; |
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update output of experiment seaice_obcs. |
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o pkg/seaice: |
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move OPTIONS (formerly locally defined) to SEAICE_OPTIONS.h: |
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this includes SEAICE_GROWTH_LEGACY (+ SEAICE_DO_OPEN_WATER_GROWTH & |
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SEAICE_OCN_MELT_ACT_ON_AREA ) and SEAICE_SOLVE4TEMP_LEGACY. |
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Default (pkg/seaice/SEAICE_OPTIONS.h) is to define SEAICE_SOLVE4TEMP_LEGACY |
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but leave SEAICE_GROWTH_LEGACY undef ; For now, keep verification exp |
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unchanged (SEAICE_GROWTH_LEGACY defined in */code*/SEAICE_OPTIONS.h) |
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o pkg aim (2010/10/26): |
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- Introduce ALLOW_INSOLATION, moving toward a more general incoming solar radiation |
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formulation with obliquity, eccentricity, ... as run-time parameters, |
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- Introduce diagnostics for top-of-the-atmaophere incoming solar radiation and |
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upward shortwave radition at the surface (all-sky and clear-sky). |
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o pkg/obcs: |
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- writing sections with globalFiles=T does not work: switch to tiled-files |
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when writing sections for OBCS (change pkg/rw/write_rec.F accordingly). |
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- fix index bug (OB_Ie -> OB_Iw_) in obcs_apply_uvice.F |
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- apply OBCS_SEAICE_COMPUTE_UVICE to both uice and vice at all obcs |
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|
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checkpoint62m (2010/10/21) |
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o pkg/seaice: vectorize seaice_solve4temp.F |
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- move iterations loops outside of i/j-loops |
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- requires 2D arrays for TB and effConduct |
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- add 2D iceOrNot to replace HICE_ACTUAL.GT.0, as HICE_ACTUAL is |
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modified in this routine |
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- a little bit of clean up, adjusting indentation, etc. |
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- replaced a few TEN**a by exp(a*log(10.)) in new code for better |
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performance and '**TWO' by '**2' (because TWO is a float), |
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replaced ONE, ZERO |
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o eesupp/src: |
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fix flow dir for exch1_z_RX_cube, exch1_uv_RX_cube & exch1_bg_RX_cube |
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o pkg/seaice/seaice_growth.F |
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Revision 1.89 of seaice_growth.F completes the overall october 2010 revision and |
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merging process. The merged routine has two branches, and one activates the 'evolution' |
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branch by setting SEAICE_GROWTH_LEGACY to undef (at the top of the routine for now). |
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In summary, here is what the '10/10 revision' did consist of |
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part 1: seaice_growth.F revisions 1.71 to 1.75 |
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- Preliminary seaice_growth.F clean-up, keeping test results strictly unchanged. |
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The emphasis here was on improving readability (e.g. by trying to use meaningful |
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variable names) and modularity (e.g. by adding arrays to store heff etc. updates). |
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part 1.5: |
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- revising the lab_sea experiment to make it a more useful (i.e. stable |
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and representative of an actual model run). This was done by generating a |
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(winter) pickup to start from, switching back the main experiment dynamic |
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solver from evp to lsr, having one of the experiments use the free drift solution. |
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part 2: seaice_growth.F revisions 1.76 to 1.85 |
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- Sorting out hard-coded constants that prevented heat and fresh water conservation. |
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- Sorting out the various fields units and sign (set early on and reset at the end) |
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to avoid numerous scalings/re-scalings. By v1.85 the basic unit for ice, heat and |
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fresh water stock is 'effective ice meters', and >0 implies more ice/snow. |
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- Using tendency terms arrays (d_HEFF* etc.) to alleviate remaining code locks, |
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and simplifying logical expressions to further improve readibility. |
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part 3: seaice_growth.F revisions 1.86 to 1.89 |
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- Re-organize the blocks of code more logically. |
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- Merging the '_if.F' pieces that add something new. |
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o pkg/thsice: |
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- vectorize thsice_solve4temp and thsice_get_exf. |
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Problem: thsice_solve4temp has an unvectorizable statement that |
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might also be problematic for TAF |
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- thsice_get_exf: add the ALLOW_BULK_LARGEYEAGER04 CPP-flag. This |
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does not change the verifcation experiment, but will change all |
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experiments that have this flag undefined (not tested in verification); |
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a little reorganization to save a few 2D fields and recomputations |
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- 1st step of revisiting thsice adjoint (major recomp. sorted out) |
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- 2nd step: fix some store dirs |
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o seems to work somewhat, i.e. using ifort but not g77 |
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o likely cause are incomplete init. or recomputation |
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o start verification/global_ocean.cs32x15/input_ad.thsice |
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o pkg/obcs: add support for exch2 |
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- the position of the boundary and prescribed values are specified using |
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a global domain with exch2 facets stacked |
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- in x for N,S boundaries (like W2_mapIO=-1) |
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- in y for E,W boundaries (so E,W boundaries do not overlap) |
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o pkg/mdsio: add support for writing global sections with exch2 |
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file layout is as for obcs described above: |
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- for x-z sections, facets are stacked in x (like W2_mapIO=-1) |
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- for y-z sections, facets are stacked in y |
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o pkg/thsice: |
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- change a few routines for better vectorization: thsice_albedo.F, |
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thsice_step_temp.F, and in thsice_calc_thickn.F. Results are |
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not affected, but in particular the latter routine has changed |
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dramatically (not necessarily easier to read now). |
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- re-arrange calculation in THSICE_SOLVE4TEMP: move outside of i,j loops |
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iteration loop and call to S/R THSICE_GET_BULKF & THSICE_GET_EXF. |
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o verification/lab_sea: |
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- overhaul of the forward model experiments. The main motivation |
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for this revision is that lab_sea has proven quite fragile (when |
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changing the sea-ice code, and switching platforms) to a point |
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when failures were very hard to attribute to specific code problems. |
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- the suspected reason for this fragility is noise amplification by evp so, |
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to start with, we decided to replace evp with lsr in the main experiment. |
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- the input.lsr experiment thus became obsolete and was removed. |
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- it was replaced with the input.fd experiment that uses an |
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analytical "free drift" solution as the ice velocity field. |
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- Taken together, input (lsr), input.fd (free drift) and input.hb87 (evp) |
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will hopefully allow us to discriminate problems due to dynamic solvers |
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from problems due to the thermodynamic code. input.salt_plume (lsr) allows |
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us to test additional options, along with the salt plume package. |
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- Finally a pickup was generated (at the end of a one year run) to |
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make the tests more representative of an actual model run. Previously |
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the tests starting point was a 1m thickness of ice everywhere. |
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o pkg/seaice: |
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- introducing S\R seaice_freedrift.F that compute the |
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analytical solution to an approximate ice momentum |
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equation (i.e. the simple stress/coriolis balance). |
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- define SEAICE_ALLOW_FREEDRIFT to trigger the computation |
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of the free drift velocity field, and enable its use. |
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To actually use the free drift solution as the model ice |
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velocity field set SEAICEuseFREEDRIFT to .TRUE. in data.seaice. |
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o move "useOASIS" from PARAMS.h to EEPARAMS.h and read it from "eedata" |
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|
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checkpoint62l (2010/10/04) |
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o pkg/seaice: |
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-fix the USE_ORIGINAL_SBI version (for variable freezing point); |
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-use "celsius2K" in SEAICE_VARIABLE_FREEZING_POINT and in new |
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version (with USE_ORIGINAL_SBI undef); |
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o add hooks for new packages OASIS, the package will follow |
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(hooks exclude the seaice pkg for now) |
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o pkg/autodiff: ALLOW_AUTODIFF_WHTAPEIO |
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Option to use mdsio_read_whalos.F/mdsio_write_whalos.F, |
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rather than mdsio_readvector.F/mdsio_writevector.F, within |
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adread_adwrite.F to read/write adjoint-related tapes to disk. |
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o eesupp and pkg/mdsio: ALLOW_WHIO |
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Option to write/read 2D fields to files including tiles halos. |
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The main purpose is for adjoint related "tape I/O". |
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The secondary purpose is for debugging phases. |
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A word on those rather specifically intended purposes. |
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The code was meant to be stripped down to the bare minimum. |
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Typically, there is a unique and basic mapping to the global |
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buffer (tile by tile, then proc by proc, then level by level), and |
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byteswaps and meta-files are omitted. Indeed the (*_WH*) code is not |
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meant to generate user friendly outputs of various shapes and forms. |
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Rather it is intended, for the knowledgeabale developers, |
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to be largely independent of the many mdsio options, to allow |
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outputs of tiles+halos in debugging phases and in adjoint runs, |
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and to allow some flexibility in tuning (adoint) I/O depending on each |
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file system behavior. With regard to tuning, most of the potential knobs |
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(to leave files open, to allocate the I/O indep. of usesinglecpuio, |
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to specify directories, to specify the typical size of I/O calls, etc.) |
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are not yet included, and will be added if they prove useful. |
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o pkg/seaice: |
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fix uninitialised arrays in USE_ORIGINAL_SBI version of seaice_solve4temp.F |
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o pkg/seaice: |
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new S/R seaice_solve4temp.F: this is the merged version of Ian Fenty |
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code (seaice_budget_ice_if.F) which enable to recover old standard |
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code (seaice_budget_ice.F) when option USE_ORIGINAL_SBI is defined. |
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temporary: add "#define USE_ORIGINAL_SBI" at the top of seaice_solve4temp.F. |
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o model/src (rStar): |
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use simple average (not area weighted) of rStarFac at U,V point when using |
| 221 |
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vectorInvariant and selectKEscheme=1,3 (consistent with mom. vertical advection) |
| 222 |
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update output of exp. fizhi-cs-32x32x40 and fizhi-cs-aqualev20. |
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|
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checkpoint62k (2010/09/17) |
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o adjoint |
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* changed verification/global_ocean.cs32x15 ; adjoint now tests |
| 227 |
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Adams-Bashforth 3 + NLFS + RSTAR |
| 228 |
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* some more modifs required for ECCO-GODAE v4 |
| 229 |
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o pkg/seaice |
| 230 |
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add SEAICE_AGE_VOL option to use volume instead of area for |
| 231 |
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integrating SEAICE_AGE |
| 232 |
o model/src: |
o model/src: |
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first check-in of sigma & hybrid-sigma coordinate code ; also includes |
first check-in of sigma & hybrid-sigma coordinate code ; also includes |
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non-linear free-surface parts ; but pressure-gradient not yet coded. |
non-linear free-surface parts ; but pressure-gradient not yet coded. |
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but keep the former optfile for few weeks for smooth transition |
but keep the former optfile for few weeks for smooth transition |
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o pkg/ecco |
o pkg/ecco |
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- allow user defined cost function contributions |
- allow user defined cost function contributions |
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CPP: ALLOW_USERCOST_CONTRIBUTION |
CPP: ALLOW_USERCOST_CONTRIBUTION |
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USAGE: compute contributions in cost_usercost_all.F |
USAGE: compute contributions in cost_usercost_all.F |
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- note: this is identical to what ALLOW_GENCOST_CONTRIBUTION once was. |
- note: this is identical to what ALLOW_GENCOST_CONTRIBUTION once was. |
| 504 |
the two options are complementary. |
the two options are complementary. |
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o pkg/smooth |
o pkg/smooth |
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