/[MITgcm]/MITgcm/doc/tag-index
ViewVC logotype

Diff of /MITgcm/doc/tag-index

Parent Directory Parent Directory | Revision Log Revision Log | View Revision Graph Revision Graph | View Patch Patch

revision 1.322 by jmc, Tue Jul 6 02:44:27 2004 UTC revision 1.471 by jmc, Wed Apr 6 19:52:57 2005 UTC
# Line 3  $Header$ Line 3  $Header$
3      Notes on tags used in MITgcmUV      Notes on tags used in MITgcmUV
4      ==============================      ==============================
5    
6    checkpoint57f_post
7    o add parameter "baseTime" = model base time = time at iteration zero
8      new function DIFF_BASE_MULTIPLE (replace DIFFERENT_MULTIPLE) to
9      account for baseTime shift
10    o move Coriolis arrays from PARAMS.h to GRID.h
11    checkpoint57f_pre
12    
13    o mnc-ifying the seaice package
14    o introduced an alternative length scale calculation for use in the limiting
15      maximum viscosity (off by default, see mom_vi_hdissip.F for details)
16    o S/R ptracers_calc_diff: argument list bug for CALL KPP_CALC_DIFF_S
17    o added modified Leith scheme with viscosity proportional to grad(Hdiv)
18      as well as grad(vort3).  Made it compatible with both approximate form
19      for the cubed sphere and full form of these gradients.  Added flag
20      useFullLeith to select between approximate and full form.  
21    o add "d0" in getcon.F to reduce differences between compilers/platforms
22      update output.txt of exp. fizhi-gridalt-hs
23    o change port_rand funtion to allow to set the seed.
24    o fix obscure MNC bug involving conversion between reals and integers
25      - it caused no problems with certain (eg. gcc, ifc) compilers but the
26        new version is now more standards-compliant
27    o adjoint-related modifications
28      * gad_dst3_adv_?: to be able to use advscheme=30 in adjoint
29      * gad_calc_rhs: fool adjoint, revert to advscheme=30 in reverse when using 33
30      * mom_vi_hdissip: to be able to use Leith scheme in adjoint
31    
32    checkpoint57e_post
33    o Adding eddy stress controls a la Ferreira et al.
34    checkpoint57e_pre
35    
36    o fizhi pkg: fix AtoC and CtoA when called with same input & output array
37      update output.txt of exp. fizhi-gridalt-hs
38    o add more "Z" dimensions and associated coordinate vars to MNC
39    o pkg/exf: added twoDigitYear capability for option useExfYearlyFields
40    o parameter calendarDumps: when set, approximate months (30-31 days) and years
41      (360-372 days) for parameters chkPtFreq, pChkPtFreq, taveFreq, SEAICE_taveFreq,
42      KPP_taveFreq, and freq in pkg/diagnostics are converted to exact calendar
43      months and years.  Requires pkg/cal.
44    o diagnostics: add pickup functionality
45      - off by default for backwards compatibility
46      - current version only uses MDSIO -- MNC will be added
47    o allow to use pkg diagnostics for LAND pkg output & Shapiro Tendencies.
48    o pkg/shap_filt: fix for multi-tiles per face (CS-grid with EXCH2)
49    
50    checkpoint57d_post
51    o pkg/thsice used in the ocean: fix tile Pb related to sIceLoad forcing
52    o modify verification/ideal_2D_oce so that it tests the creation of mnc
53      output from the diagnostics package
54    o temporary fix in EXCH2_UV: add a 3rd call to fix the 24.tiles CS-grid set-up
55    o make genmake2 more portable by using ".$FS" instead of ".f" for more
56      of the test compilations (eg. IBM xlf on Mac OSX w/HFS filesys)
57    o add coordinate variables to the MNC output from the diagnostics package
58    o change MNC-flags default value: true when useMNC=TRUE
59    o add a "readgrid_mnc" flag to MNC and give model/src/ini_curvilinear_grid.F
60      the ability (off by default) to read the grid information using MNC
61    o lab_sea: use LSR_ERROR=1.E-12 for testing ; update output.txt
62    o diagnostics: fix a bug (sub-set of levels); keep full precision when averaging
63    o do snap-shot diagnostics at the middle of the time-interval (instead of
64      at the end).
65    o update exp. aim.5l_cs (use default LAND_OPTIONS.h file) and add
66      new test for AIM with thSIce + slab-ocean
67    o cpl_aim+ocn test: update output (optfile & default GMREDI_OPTIONS.h)
68    o move state variable diagnostics to the beginning of the time step ;
69      (note: still needs some work specially for snap-shot diagnostics)
70      duplicate & replace UVELVVEL diagnostics with UV_VEL_C & UV_VEL_Z
71    
72    checkpoint57c_post
73    o Change testing option (-ieee) to get closer agreement between g77 & ifort
74    o generate new output.txt files on faulks with g77 & the new -ieee option
75    checkpoint57c_pre
76    
77    o add "_d 0" in freeze ; change some "FLOAT" to "DFLOAT" and went back (TAF);
78      update output.txt of exp. global_ocean.90x40x15
79    o fix in ini_eos.F (one "_d 0" was missing): now g77 & ifc give much closer
80      results; update global_ocean_pressure & global_ocean.cs32x15 output.txt
81    o add saltFlux(+File) forcing capability with periodicExternalForcing
82    o allow to use pkg diagnostics for GM-Redi & ThSIce output
83    o diagnostics_fill: fill in up to sNx+1 or sNy+1 (if U,V or Z pt) for mnc.
84    o improvements for the MNC output from DIAGNOSTICS:
85      - correct handling of the unlimitied dimension
86      - all dims now have associated coordinate variables
87      - variables located at U, V, and Corner ("Z") points are now written
88        with the correct horzontal dimensions (eg. 'Xp1', 'Yp1') so that
89        *all* data points are output
90    o added seaice_summary.F and removed obsolete ALLOW_SEAICE's from pkg/seaice
91    o added pkg/seaice/seaice_monitor.F
92    o mdsio_readfield.F can now read files visible only to master MPI process.
93    o pkg/seaice: some test code for ice-modified ocean stress
94    o exf_getffields interpolation defaults to bilinear for all scalar forcing
95      fields (remains bicubic for wind velocity and stress).  This avoids, e.g.,
96      spurious negative numbers for precipitation and humidity.  Will cause
97      some small numerical differences for integrations using pkg/exf/exf_interp.F.
98    o pkg/ctrl/
99      * Add ctrlvec diagnostics in pack/unpack for nondimensional I/O
100        May be enabled via doPackDiag
101      *  introduce z-scaling of
102         + gradient (doZscalePack) and
103         + control (doZscaleUnpack)
104    o pkg/mdsio/
105      * enable useSingleCpuIO for state estimation (ctrl_pack/unpack) mdsio_gl.F
106      * N.B.: leave tiled I/O for tapelev (i.e. mds...vector)
107    
108    checkpoint57b_post
109    o simplify options in diagnostics_fill arguments (remove weird combinations)
110    o fix MNC coordinate variables so that they now contain per-face index
111      values (instead of xC,xG,yC,yG values) when run with EXCH2 since, in
112      general, EXCH2 grids are only aligned to a "local" coordinate system
113    o test diagnostics pkg in dic_example (no output) and ideal_2D_oce (with ouput)
114    o Implement instantaneous output within pkg diagnostics:
115      setting a negative frequency in data.diagnostics produces
116     "snap-shot" output (as opposed to time-average if freq > 0)
117    o move out off EQUIVALENCE all diagnostics that fizhi does not use ;
118      NOTE: change ptracer diagnostics name: use 2 characters to work with
119            more than 9 tracers. Add also diagnostics of advect & diffus flux.
120    o more CF compliance: convert all MNC 'iter' variables to 'T' so that it
121      becomes the coordinate variable for the 'T' dimension
122    o add CF-style coordinate variables to MNC
123      - just a first cut:  numbers are meaningless on the cubesphere and
124        missing along the T axis but otherwise it works!
125    o add surface flux diagnostics: TAUX, TAUY, TFLUX, TRELAX, TICE, SFLUX, SRELAX
126    o pkg/thSIce: read initial state from 6 files ; allow monitor to use MNC.
127    o add diagnostics of advective & diffusive flux for T & S (pTracers coming soon)
128      this is based directly on what the model compute, so that the content of
129      each diagnostics might be affected by switching options (e.g., implicitDiffusion)
130    o small changes for diagnostics (gad_biharm_?.F, arguments of S/R impldiff.F)
131    o clean up build options files for SunOS, in particular
132      - remove -traditional from xmakedepend
133      - change -xarch=v9 to -xarch=native for f77
134      - restore use of make (not gmake)
135      - add CC=gcc if using g77
136    o changes per discussion of AM, JMC, & EH3 today:
137      - move redundant "grid" variables out of "state" -- in preparation of
138        creating proper CF-style coordinate variables and in recognition
139        that any/all grid variables can be easily copied (eg. w/NCO) from
140        the grid files into any of the other NetCDF files
141      - *always* output grid variables with MDSIO (this will eventually be
142        changed)
143      - output MNC grid file if useMNC is true
144    o every instance of _END_MASTER() has been found and replaced with
145      _END_MASTER( myThid ) in order to satisfy certain picky Sun
146      preprocessors
147    o re-arrange diagnostics pkg initialisation:
148     - allow each package to extend the available diagnostics list
149     - add some checking and fix small problems (multi-threaded, ...)
150     - new S/R diagnostics_fill (replace fill_diagnostics):
151       look through the short list of active diag. (instead of the long list)
152       create function DIAGNOSTICS_IS_ON to tell if a diagnostics is active
153    
154    checkpoint57a_post
155    o this set of changes restores TAMC compatibility
156      tested for global_ocean.90x40x15 adjoint on trough
157      (what a pain)
158    
159    checkpoint57a_pre
160    o some modifs in tools/build_options for sunos
161    o call ctrl_pack for ctrl at end for optimcycle=0
162    
163    checkpoint57
164    o add horizontal bi-harmonic viscosity for vertical velocity
165      - new parameter viscA4W (defaults to viscA4)
166      - affects only non-hydrostatic code
167      - to be done: no-slip lateral boundary conditions
168    o switch back to "sflux = sflux - runoff" in exf_getforcing.F
169    o implement Implicit Vertical advection for pTracers
170    o depth convergence accelerator: replace deltaTtracer by dTtracerLev(k)
171      (implemented also for implicit vertical diffusion & advection)
172    o OBCS: extend application of tracer open boundary conditions
173      to a strip beyond the boundary of width Olx/Oly
174    o add call monitor to TAF set of required calls (flow directives)
175      and include in natl_box_adjoint
176    o untangle a few ifdefs related to cost, ctrl, autodiff
177      untangel a few ALLOW_ECCO_OPTIMIZATION
178    o Apply Cooper & Haines representative estimates also at sub-surface (k=Nr)
179      (theta2, salt2 in ecco_cost_weights)
180    
181    checkpoint56c_post
182    o OBCS as control variables
183      - update ctrl_ad_diff.list, obcs_ad_diff.list
184      - remove balance of obcs controls from default
185      - fix index bug nobcs in ctrl_init
186      - fix dummy fields filen in ctrl_pack
187      - add dummy weights for obcs
188    o lsopt: comment out fort.94 output
189    o optim:
190      - remove unnecessary header files
191      - adjusted namelists
192      - add xerbla.F to Makefile
193    o exf:
194      - multiple modifications of exf_check_range
195      - unit change in exf_init_runoff from [m/year] to [m/s]
196    o mdsio:
197      - i/o-vector change debugLevel from debLevA to debLevB
198    
199    checkpoint56b_post
200    o collect all ptracers output in an new routine (PTRACERS_OUTPUT) that
201      is called from DO_THE_MODEL_IO
202      - rename PTRACERS_STATV_WRITE to PTRACERS_WRITE_TIMEAVE
203      - introduce new parameter PTRACERS_dumpFreq (defaults to dumpFreq)
204      - clean up PTRACERS_WRITE_TIMEAVE a little
205    o add another verification experiment that tests both the cfc-pkg and
206      the gchem-pkg with GCHEM_SEPARATE_FORCING undefined, that is with
207      reactive tendencies treated inline with regular timestepping
208    o testreport previously did a lousy job of comparing small numbers, so
209      we (Ed and Martin) changed the  way the cut-off of 1.e-12 is
210      implemented in the little c-progam tmp_cmpnum.c which is embedded in
211      testreport.
212    o ptracers_monitor: bug fix for MPI
213    
214    checkpoint56a_post
215    o GCHEM: finish reorganizating the package
216      - forward_step calls GCHEM_CALC_TENDENDY, which computes gchemTendency
217        (introduces another 3D-array for each passive tracer, but only if
218        GCHEM_SEPARATE_FORCING is undefined. For GCHEM_SEPARATE_FORCING
219        gchemTendency is not needed because the timestep is done separately)
220      - gchemTendency is added to gPtr in GCHEM_ADD_TENDENCY
221      - GCHEM is now---more or less cleanly---separate from PTRACERS
222      - to bo done: handling of surfaceForcingPtr that is needed for KPP not
223        so clear to me how that should be done in a general way.
224    o CFC: improve formatting of output in CFC_ATMOS
225    o PTRACERS:
226      - rename GCHEM_MONITOR to PTRACERS_MONITOR and call it from MONITOR, so
227        that ALL experiments with ptracers enable can be checked. This makes
228        GCHEM_MONITOR obsolete.
229      - include a runtime parameter PTRACERS_monitorFreq that defaults to
230        monitorFreq
231      - set default PTRACERS_write_mdsio to false if PTRACERS_write_mnc is true
232    o add PTRACERS (PTR0[1-5]) to testreport output
233    o exf_check_range:
234      * default changed to .TRUE.
235      * will check values for niter0 if debLevA, every timestep if debLevB
236      * STOP in exf_check_range if 'out of range'
237      * range chosen generous to allow for potential extema
238      TBD: a version with stricter range
239           permitted range would be runtime parameters
240    o GMredi:
241      - fix ldd97 slope limit ; extend valid domain of Psi-Bolus ;
242      - change S/R GRAD_SIGMA to be valid in the overlap on CS-grid.
243      - change the default GMREDI_OPTIONS.h: compile everything except Visbeck
244    o GCHEM:
245      - move call to GCHEM_FORCING_SEP, so that it is now called before
246        the blocking exchanges to avoid computing halos in GCHEM_FORCING_SEP
247      - introduced a useGCHEM runtime flag and applied it everywhere.
248      - renamed PTRACERS_SEPARATE_FORCING to GCHEM_SEPARATE_FORCING;
249        this flag is now only visible within GCHEM-pkg routines.
250      - moved gchem_forcing_int temporarily into ptracers_forcing, this will
251        be replaced by a 3D array that is computed before thermodynamics; for
252        this, the tracer ID iTracer had to be included into the parameter list
253        of ptracers_forcing
254      - set up forward_step to call gchem_forcing, that will replace
255        gchem_forcing_int in ptracers_forcing
256      - cleaning up
257    o small cleaning of exch2: remove files that are also in eesupp/src
258    
259    checkpoint56
260    o AIM: read land-Fraction earlier (from ini-fixed) and monitor land at nIter0
261    o mnc: cleanup "full" files--fixes out-of-memory problem
262    o ECCO-GODAE
263      * model/, pkg/, code/, input/ now complete w.r.t. ECCO-GODAE production setup
264      * fully merged and updated from SIO code
265        windstress sign change affects
266        - exf_inscal_[u/v]stress
267        - sign of xx_tau[u/v] adjustments
268        - signs in cost_scat
269      * ctrl_get_gen: avoid update of tau[u/v] for first few days
270      * natl_box_adjoint updated and compressed
271      * 2-level checkpoint switch added
272        (tested in EXP. 1 of natl_box_adjoint)
273      * new switch doInitXX to avoid init. of xx_... in optimcycle=0
274    o SVD
275      * first complete, non-hacked version for SVD calculations
276      * all interfaces clean w.r.t to handling of xx_..., adxx_..., g_xx_...
277        performed via direct access files admtlm_vector.it????
278        (via ctrl_[un]pack)
279      * optimcycle is used for ARPACK iteration counter
280        (note: adxx_... is iterated, rather than xx_...; latter is constant!)
281      * EV problem ok w.r.t. L2-norm in tangent space; need to check other norms
282        and add linear transforms where necessary
283      * controls are initial/final SST, SSS (can be extended; need to check
284        ctrl_set_[un]pack_xyz.F according to ctrl_set_[un]pack_xy.F
285    o mdsio: filename info to both stderr, stdout
286    o exf: exf_inscal_runoff: separated default conversion [m/year] -> [m/sec]
287      from sign change
288    
289    checkpoint55j_post
290    o isolate dissipation tendency (allow to keep it out off AB) in V.I form.
291      affects (truncation level) output.txt of global_ocean.cs32x15(&.thsice)
292    o add consistent build directories and .cvsignore files to verification
293    o added viscA4GridMin and viscA4GridMax for more control on biharmonic viscosity
294    o make all subroutines 30 or less characters in length for certain older
295      compilers to work (a thorough search only turns up two routines in
296      pkg/ptracers)
297    o allow (vecinv only) a different horiz. viscosity for Divergence and Vorticity;
298      affects (truncation level) output.txt of global_ocean.cs32x15(&.thsice)
299    
300    checkpoint55i_post
301    o change arrays for total vertical diffusivity (2.D if explicit,
302      3.D if implicit) ; each ptracer uses its own background value.
303    o added mnc/NetCDF output capability to ocn_compon_interf
304      - added bits to verification/cpl_aim+ocn so that it can run on
305        ITRDA and other clusters without the mpirun "-wd" option
306    o fixed wayward endif in mom_fluxform.F that messed up cyclindrical
307      configuration
308    o give MNC the ability to create additional files rather than
309      exceeding a specified file size limit "MNC_MAX_FILESIZE"
310      - the default is just less than 2GB which is a practical limit
311        on many systems
312    o Compute the non-local term using either KPP vertical diffusivity (=default)
313       or the total vertical diffusivity (when KPP_ghatUseTotalDiffus=T)
314    
315    checkpoint55h_post
316    o add verification test "vermix"
317    o remove all the *_ioinc flags and replace with the single global
318      outputTypesInclusive flag
319    o allow to set a vertical profile of vertical diffusivity for T & S
320    o call PACKAGE_BOOT & PACKAGES_READPARMS just after INI_PARMS
321    o useMNC moved from data.mnc to data.pkg
322    
323    checkpoint55g_post
324    o Renaming carbon AD experiments to comply with testreport conventions
325    o Updating adjoint of Held-Suarez hs94.1x64x5
326    o Fixing directives for non-ECCO forward_step, after ECCO directives
327      have been fixed to avoid recomp. of do_oceanic_phys
328      Works well for global_ocean.90x40x15,
329      but recomp. issue remains for carbon
330    o Updating adjoint output for natl_box_adjoint after
331      pkg/ecco has been modified (see taga c55d_post)
332    
333    checkpoint55f_post
334    o rename to timeave_init_fixed
335    
336    checkpoint55e_post
337    o some delicate re-shuffle of store directives to avoid one
338      extra call of do_oceanic_physics
339      affects ecco_the_main_loop.F, do_oceanic_physics.F
340      checkpoint_lev1_directives.h
341    o NB: this may break global_ocean adjoint temporarily,
342      but it is clear how to fix it. Will do later, need this now.
343    
344    checkpoint55d_post
345    o ECCO specific cost function terms (up-to-date with 1x1 runs)
346    o ecco_cost_weights is modified to 1x1 runs
347    o modifs to allow observations to be read in as
348      single file or yearly files
349    o enable to read exf forcing fields as either
350      single file or yearly files (flag useExfYearlyFields)
351    checkpoint55d_pre
352    
353    o switch between 2-level and 3-level checkpointing
354    o add ability of MNC to write local and "partial" (eg. 2D slices where
355      the full 3D field is never actually stored) arrays to NetCDF files
356      with the correct (that is, the complete multi-dimensional) set of
357      array indicies
358      - used in mom_vecinv() to write the diagFreq output
359      - tested (demonstrated) in verification/aim.5l_cs
360    o further mnc-ification
361      - add verification/lab_sea to the list with mnc setups
362      - fix undefined mnc v-names in cd_code
363      - add kpp to mnc output (both snapshot and timeave)
364    o non-hydrostatic code
365      - added horizontal viscosity parameter viscAhW for w, that replaces viscAh
366        in calc_gw.F
367      - defaults to viscAh
368      - this is useful, when I want to use viscAh=0 (e.g., only biharmonic
369        friction or Leith) in non-hydrostatic mode, as long as there is
370        no biharmonic friction and/or Leigth or equivalent for vertical velocity.
371    o pkg/cost
372      extend simple cost functions to treat time mean quantities
373      (T,U,V) via cost_accumulate_state from cost_tile
374    o multidimAdvection on CS-grid: implement the full 3 pass ; overlap needs to
375        be 2 times larger than the minimum size the advection scheme requires.
376        now get a perfect conservation of salt in advect_cs test-exp (updated)
377    o GGL90 (Gaspar's TKE mixed layer)
378      - add horizontal diffusion of TKE, requires exchanges in
379        do_fields_blocking_exchanges, horizontal diffusivity is zero by
380        default. In OPA there is no horizontal diffusion of TKE but the
381        mixing coefficients are computed from a horizontal average of TKE of
382        6 points or so. I think that diffusion has a little more physical
383        justification.
384      - clean up ggl90_calc in the hope of reducing memory usage (this hope
385        was in vain)
386      - mask tke-variable in ggl90_init
387    o fix mask Pb in multidimAdvection on CS-grid (still a small Pb with ipass)
388    o fix biharmonic diffusion on CS-grid.
389    o more obcs stuff
390      - added obcs_external_fields_load as an alternative to the EXF-pkg option
391        for reading boundary values. This routine is called from
392        obcs_prescribe_read
393      - updated obcs_check
394      - changed sponge layer relaxation parameter units for days to seconds
395      - turned off sponge layer by default
396      - changed argument list of OBCS_CALC to myTime+deltaTclock
397      - fixed about 35 bugs in obcs_external_fields_load
398    
399    checkpoint55c_post
400    o obcs stuff
401      - new runtime flags useOBCSprescribe, useOBCSbalance
402      - re-arranged obcs_calc
403      - moved exf_getobcs to obcs_prescibe_read
404        obcs_prescibe_read is called after ORLANSKI stuff
405        and independent of it (executable can contain all).
406      - updated obcs_check
407      - added exchanges for U,V,gU,gV for useOBCSprescribe=.TRUE.
408        These may be necessary only if tangential velocities are
409        prescribed at OB, not sure, needs testing.
410    o make the MNC_CW_ADD_VATTR_* subroutines all take scalar arguments
411      which simplifies the calls and passes the ifc check-bounds test
412    
413    checkpoint55b_post
414    o add a 2D scalar, Z location, exchange_2 routine.
415    o EXCH_UV for CS-grid: add one u,v in the corner-halo region, allows
416      to compute vorticity on a wider stencil [e.g., vort3(0,1)&(1,0)]
417      affects advect_cs results (for the wrong reason): update output.txt
418    o use a more standard discretization for biharmonic viscosity ;
419     (original version still available with #define MOM_VI_ORIGINAL_VISCA4 )
420      affects results of dome set-up: update output.txt
421    o fix gad_advection.F (CubedSphere part), back to version 1.23
422    o fix bug in mom_vi_del2uv.F (CubedSphere part).
423    
424    checkpoint55a_post
425    o merged code to
426      * prescribe/read time-dependent open boundaries
427        (works in conjunction with exf, cal)
428      * sponge layer code for open boundaries
429      * each boundary N/S/E/W now has its own CPP option
430        (healthy for the adjoint)
431    
432    checkpoint55
433    o up-to-date adjoint of previous breaks
434      - natl_box_adjoint: problem for exp 12, 13: cost = 0. needs fix
435      - global_ocean_ebm: adjoint still needs fix (TLM ok)
436      - global_ocean.90x40x15: extended GMREDI_OPTIONS.h
437      - carbon: * remove tr1-related adjoint verification
438                * add ptracer as control variable
439    o remove all tr1-related code (ALLOW_PASSIVE_TRACER)
440      (adjoint stuff still has some tr1 'names', but all use ptracer arrays)
441    
442    checkpoint54f_post
443    o in verification/carbin/ remove experiment related to
444      ALLOW_PASSIVE_TRACER (array tr1 etc)
445      code_ad/ input_ad/ results_ad
446    
447    o add two new packages
448      - ggl90, TKE-model of Gaspar et al. (1990), Blanke+Delecluse (1993)
449        + subject to optimization (memory)
450      - opps, OPPS (ocean penetrative plume scheme) of Paluszkiewicz+Romea (1997)
451        + subject to reordering (many GOTOs in the original code)
452        + so far opps is called for every (i,j) point, and then operates in
453          the vertical; one may want to reorder the scheme in order operate in
454          horizontal slabs at the cost of (a lot of) memory, at least ten new 3D
455          fields)
456    o overhaul of IO so that we now have flags for MDSIO and/or MNC
457      - all verification tests compile and run with linux_ia32_g77
458      - defaults are compatible with current input files--nothing
459        should change if you were not previously using MNC
460      - MNC output has been added in numerous places (eg. timeave)
461        but there are still a few writes not yet do-able with MNC
462        (this is in progress)
463      - flags now allow for either/or/both use of MDSIO and MNC and
464        documentation will soon follow
465      - numerous small formatting cleanups for ProTeX
466    o add version info (via BUILD_INFO.h) to MNC and stdout
467    
468    checkpoint54e_post
469    o add two new packages
470      - pp81 (Packanowski and Philander, 1981), Richardson number and
471        stratification dependent mixing
472      - my82 (Mellor and Yamada, 1982) level 2 turbulence closure scheme
473      - these scheme operate in a similar manner as KPP (without ghat, of
474        course), however there is only one diffusivity that is used for both
475        temperature and salinity (and passive tracers)ç
476    o add offline package
477    o add "verification/dic_example" which contains a dic-gchem-ptracer setup
478      provided by Stephanie Dutkiewicz
479    o genmake2: add ability to search for C compilers and cleanup test output
480      - fixes recent SX-6 problems and should help with others (eg. HP-UX)
481    
482    checkpoint54d_post
483    o data.diagnostics: if levels() is unspecified then ALL levels are diagnosed
484    o bug fix in pkg/cal/cal_addtime.F for TheCalendar='model' day count is wrong,
485      leading to additional shift by 5 days each year of integration
486       (i.e. leading to considerable offset over the years)
487    o update global_ocean.cs32x15/thsice: use z* + RealFW + staggerTimeStep
488    o start with no AB and no initial filtering (staggerTimeStep):
489      change the results of test-exp: hs94.128x64x5, hs94.1x64x5 & hs94.cs-32x32x5
490    o move ocean specific S/R calls from forward_step.F to do_oceanic_phys.F
491      (external loading & cpl import/export stay in forward_step.F)
492    o update coupling interface to work with new staggerTimeStep
493    o change MDSIO ptracers_pickup.
494    o fix a bug in Flux deriv. vs Ts (pkg/aim_v23/phy_suflux_sice.F);
495    o genmake2 fixes so netcdf now works on halem ("osf1_alpha_*")
496    o bugs fixed in kpp_calc.F (ustarY) and external_forcing.F (Qsw & Partial-cell)
497    
498    checkpoint54c_post
499    o replace surfaceTendency U,V,S,T,Tice,Ptr by surfaceForcing U,V,S,T,Tice,Ptr
500      this affects (truncation error) output.txt of test-exp:
501       global_ocean_ebm,_pressure,.cs32x15(&.thsice), lab_sea & natl_box
502    o pkg/kpp: replace pMask by maskC to reduce memory size (one 3.D array)
503    o change Qnet to always be the net heat flux, (+upward).
504      affects (truncation error) output of natl_box exp.: updated
505    o define the max number of passive tracers in PTRACERS_SIZE.h
506    o start to test mnc routinely in exp0
507    o add sea-ice loading (sIceLoad) as a new forcing field.
508    
509    checkpoint54b_post
510    o add testreport "-j JOBS" option for parallel builds (tested and pretty
511       impressive on Altix and Opteron systems)
512    o diagnostics can now write NetCDF files through the mnc package
513    o staggerTimeStep & NLFS: update pkg aim_v23 & thsice; update aim.5l_cs output
514    o staggerTimeStep & multi-Dim-Advec: Exch(U,V) added
515    o staggerTimeStep & NLFS: rescale T & S surface tendencies.
516      affects (truncation error) output of lab_sea & natl_box exp.: updated
517    o change pickup _cd & _ptracers (old pickup restart: usePickupBeforeC54=.T.)
518    
519  checkpoint54a_post  checkpoint54a_post
520  o re-write staggerTimeStep: step fwd U,V and then T,S (reverse the order).  o re-write staggerTimeStep: step fwd U,V and then T,S (reverse the order).
521  o change pickup file (to restart from old pickup, set usePickupBeforeC54=.T.)  o change pickup file (to restart from old pickup, set usePickupBeforeC54=.T.)
Legend:
Removed from v.1.322  
changed lines
  Added in v.1.471
  ViewVC Help
Powered by ViewVC 1.1.22