/[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 1.1008 by mlosch, Mon Jun 30 14:26:26 2008 UTC revision 1.1092 by jmc, Wed Apr 29 00:04:57 2009 UTC
# Line 4  $Name$ Line 4  $Name$
4      Notes on tags used in MITgcmUV      Notes on tags used in MITgcmUV
5      ==============================      ==============================
6    
7    o write_utils : change WRITE_1D_R8 to WRITE_1D_RL
8      and add 3 other S/R for other types (R4,R8,RS).
9      Change calls to WRITE_0D/1D_R[4,8,S,L] to match the type of argument.
10    o eesupp/inc/CPP_EEMACROS.h (EXCH & GLOBAL_SUM/MAX macros):
11     - ensure suffix (_R4,_R8,_RS,_RL) correspondance between macro and S/R ;
12     - reduce number of macro definitions (keep only those which are used);
13       can always call directly the corrresponding S/R if needed.
14     - everywhere in the code: change macros (EXCH & GLOBAL_SUM/MAX) suffix
15       _R4/_R8 to _RS/_RL when applied to _RS/_RL variable.
16     Fixed wrong type of arg in:
17       atm2d/put_ocnvars.F cheapaml/cheapaml.F ocn_compon_interf/ocn_apply_import.F
18       ctrl/ctrl_map_ini_ecco.F seaice/seaice_do_diags.F seaice/seaice_model.F
19     To fix: global_sum of var in common block is wrong (multi-threaded) in:
20       dic/dic_atmos.F ebm/ebm_area_t.F ebm/ebm_zonalmean.F sbo/sbo_calc.F
21     To fix: aim_v23/aim_do_co2.F (BARRIER & GLOBAL_SUM within bi,bj loops)
22    o adjustment.cs-32x32x1: test "blank tiles" when compiling with mpi
23    o eesupp/src: new S/R to stop everyone when 1 (or more) Proc. find an error
24    o pkg/exch2: new S/R EXCH2_CHECK_DEPTHS to check that unconnected tile
25      edges are closed (zero depth); might happen with "blank tiles";
26      for now, disable if using OBCS.
27    o tools/gemake2: delete modifs from March 27-29 2009 (with option "-mpi":
28      link *_mpi files from "MODS" dir) to return to a strait-forward behavior.
29    o move read_write.F to write_utils.F ; new parameter (maxLengthPrt1D)
30      to reduce length of 1.D array print in STDOUT.
31    o adjustment.cs-32x32x1: changed to oceanic test with 1 continent
32      + use 48 tiles (16x8): this will allow to test "blank tiles".
33    o start to test MPI + multi-threaded (change testreport to skip tests
34      where number of tiles do not match).
35    o genmake2: add option "-omp" to turn on Open-MP ;
36      passed to testreport (if using -mth) ; merge few (*+mth) optfiles.
37    o pkg/exch2 (+ utils/exch2): ignore blank tiles (instead of removing them)
38      and keep the original tile numbering. Note: compatible with old
39      W2_EXCH2_TOPOLOGY.h & w2_e2setup.F topology files.
40    
41    checkpoint61l
42    o Overlaps had been forgotten in calculating ijk keys : fixed
43    o fix cyrus makedepend for gcc 4.4
44    o experiment fizhi-cs-aqualev20:
45      switching to new version of S/R GETPWHERE (#define TRY_NEW_GETPWHERE)
46      and generate new output. Note: new output is much closer to the old
47      one (v1.8) generated with pgf77 -O2 on Mar 14 2007 than it is from
48      the previous one (v1.9) generated with pgf77 -O0 on Jun 13 2007.
49    o pkg/fizhi:
50     - change to avoid indices going deliberately over array-bounds
51     - remove unnecessary MPI stuff
52     - perpetual spring equinox with "#define FIZHI_USE_FIXED_DAY"
53     - new version of S/R GETPWHERE available with #define TRY_NEW_GETPWHERE:
54       does not go over array-bounds and therefore returns reliable output.
55     - in fizhi_driver.F & fizhi_turb.F, fix "get_alarm" calls:
56       this S/R has 4 output arguments, which are used inside "get_alarm";
57       when it is called with the same variable "ndum" in place of several
58       output arguments, this produces weird side effect inside "get_alarm"
59      (e.g., datein=dates(n) is overwritten by timein=times(n) since both
60       datein & timein, resp. 2nd and 3rd arg., are pointed to the same "ndum"
61       address) and produces error.
62    o tools/gemake2: (March 27-29 2009)
63      with option "-mpi": link *_mpi files from "MODS" dir (this is what
64      testreport does).
65    o lab_sea experiment: change from 2x1 tiles to 2x2 tiles and regenerate output
66    o pkg/seaice: fix bug in new version of S/R SEAICE_LSR.F:
67       update lab_sea.lsr & lab_sea.salt_plume results
68    o pkg/seaice:
69      Major overhaul of the LSOR solver: change discretization from original
70      finite differences to finite volume. The old routine is still in the
71      file seaice_lsr.F and can be turned on with the CPP-flag
72      SEAICE_OLD_AND_BAD_DISCRETIZATION
73      Along with this change, the discretization of the strain rates is changed.
74      The same flag turns on the old discretization in seaice_calc_strainrates.F
75      All verification experiments with seaice are affected (except for
76      seaice_exf_offline); global_ocean.cs32x15/input.icedyn recovers the old
77      results by setting the above flag.
78      Further changes involve changes in defaults:
79      - ALLOW_FLOODING is defined and turned on by default
80      - SEAICEadvSnow = .true. is now the default
81      - SEAICEadvSalt = .true. is now the default
82      - SEAICEadvAge  = .true. is now the default
83      - SEAICE_clipVelocities  = .false. is now the default
84                                         (as per J. Zhang's recommendation)
85      - B-grid, and thus not tested: SEAICE_TEST_ICE_STRESS_1/EXPLICIT_SSH_SLOPE
86        is defined, SEAICE_TEST_ICE_STRESS_1 is renamed into SEAICE_BICE_STRESS
87      - seaice_growth: replace computation of UG by a simple copy from wspeed
88    
89    checkpoint61k
90    o pkg/seaice: a few bug fixes mostly concerning the metric terms:
91      seaice_lsr: fixed a few metric terms,
92                  affects lab_sea.lsr, lab_sea.salt_plume, seaice_obcs
93                  add more debugging diagnostics
94      seaice_evp: removed superfluous many metric terms of FV discretization
95                  of stress divergence
96                  affects lab_sea, lab_sea.hb87
97      seaice_ocean_stress: removed superfluous many metric terms of FV discretization
98                  of stress divergence for non-evp solver
99                  (this part is not tested anywhere)
100      seaice_calc_strainrates: fixed a bug in no-slip boundary conditions,
101                  they were effectively only half slip
102                  affects lab_sea.hb87
103      updated all relevant verification experiments (except lab_sea//output_adm.txt
104        which was left over, but fails at level 7 & 6)
105    
106    checkpoint61j
107    o pkg/seaice: turn a few hard wired parameters into run time parameters
108    o pkg/seaice/exf/monitor: turn netcdf coordinate variable T into model
109      time in seconds as promised by the usints in seaice_monitor and exf_monitor
110    o pkg/mnc: fix the coordinate variables for multi-tile curvi-linear grids
111      that are not cubed-sphere grids
112    o pkg/seaice: fix a bug for the rare case of SEAICE_VECTORIZE_LSR
113    o pkg/ctrl:
114      fix bug in ctrl_depth_ini.F (EXCH_XYZ was applied to 2-D field xx_r_low)
115    o non-hydrostatic (calc_gw.F):
116      fix viscA4 on CS-grid + fix diagnostics: Wm_Diss & Wm_Advec
117      update output of exp. global_ocean.cs32x15.viscA4
118    o remove backward compatibility for thetaMin,phiMin
119      (replaced by xgOrigin,ygOrigin on Jan 27, 2009)
120    o pkg/exf: fix a serious bug in exf_set_uv.F: do a rotation of the
121      interpolated wind field not only for curvilineargrid=.true., but also
122      for a rotated grid (rotateGrid=.true.)
123    o pkg/exf: add capability to bypass interpolation for runoff
124      by setting yet another CPP-flag
125    o eesupp/src, B-grid exchange:
126      add simple (6 tiles, non MPI) CS exch + standard interface S/R.
127    o autodiff
128      new CPP option ALLOW_TAMC_SINGLEPREC_COMLEV
129      allows to switch to single-prec common blocks;
130      corresponding switch occurs in tamc.h, integer isbyte
131      TAF store directivs "byte" and "kind" seem equivalent;
132      Most tamc.h have been updated correspondingly.
133    
134    checkpoint61i
135    o autodiff:
136      fix autodiff_sore/_restore indices for obcs
137      (spotted by I. Hoteit, M. Mazloff)
138    o pkg/autodiff, pkg/ctrl:
139      Add flag to reduce all tapelev I/O to single-prec.
140      In data.ctrl set
141        doSinglePrecTapelev = .TRUE.
142    o model/src/ini_curvilinear_grid.F, new grid-file format without EXCH2:
143      check in hack for SX8 compiler (for dxV, dyU); remove it afterwards.
144    o pkg/shelfice: fix bug with SHELFICEconserve flag, prepare for
145      real fresh water flux (not yet)
146    o pkg/mdsio & rw:
147     - add argument & option to S/R MDS_WRITEVEC_LOC (avoid Open/Close & write-meta)
148     - add simple interface S/R to MDS_WRITEVEC_LOC in pkg/rw: WRITE_GLVEC_RX.
149    o pkg/flt:
150     - replace FLT_INIT by 3-steps standard initialization S/R: readparms,
151       init_fixed & ini_varia.
152     - clean-up & simplify linear interpolation S/R:
153       move flt_bilinear.F -> flt_interp_linear.F ; add arg. myThid.
154     - fix some indices (mainly vertical index) ; add IMPLICIT NONE.
155     - more efficient I/O, using new options of MDS_WRITEVEC_LOC S/R.
156     - add vert. coordinate & horiz. indices to output files.
157     - change vertical position in initial condition, from index to depth [m].
158     - store horizontal (decimal) indices i,j in common block (instead of coord. x,y)
159       (easier to get to a curvilinear grid) ; delX,delY no longer used.
160    o pkg/ggl90: a few modifications:
161     - fix bottom boundary condition, and interpolation of KappaE
162       near top and bottom
163     - use same set of viscosity/diffusivity for TKE/momnetum/tracer
164     - add smoothing option as in Blanke and Delecluse (1993) (--> ALLOW_GGL90_SMOOTH)
165     - add a few options for mixing-length upper limit (--> mxlMaxFlag)  
166    o rename thetaMin,phiMin -> xgOrigin,ygOrigin
167      (maintain temporary backward compatibility, until next checkpoint)
168    
169    checkpoint61h
170    o pkg/diagnostics with "periodic averaging diagnostics":
171      fix S/R DIAGNOSTICS_COUNT ; hack diagnostics_out.F to get NetCDF output.
172    o pkg/my82: add missing "_d 0" ; update output of exp. vermix.my82
173    o pkg/obcs: fix loop ranges for balancing code
174    o pkg/flt:
175     - improve criteria for finding which tile owns a float.
176     - fix FLT_EXCH for case without MPI ; apply cyclic BC + fix also the MPI case.
177    o Add well-mixed CO2 box in aim_v23 (which includes changes in pkg
178      aim_compon_interf, ocn_compon_interf, gchem, and dic to get coupling
179      with ocean biogeo)
180    o pkg/flt:
181     - do some cleaning and fix the restart ;
182     - add output.txt in flt_example/results to get this pkg tested.
183    o genmake2: add an EXTENDED_SRC option and flag.
184       for now, cannot be turned on on command line (only through genmake_local)
185    o pkg/mdsio: read/write vector:
186     - singleCpuIO: fix RL/RS in MDSWRITEVECTOR by calling new S/R MDS_BUFFERtoRL/RS
187     - singleCpuIO=F: fix arrType & filePrec & _BYTESWAPIO in both MDSREADVECTOR
188       & MDSWRITEVECTOR by calling new S/R MDS_RD/WR_VEC_RL/RS.
189     - affects gradient of test-exp "bottom_ctrl_5x5" (not due to _BYTESWAPIO)
190      (drop to 4 digits matching for grad). But this test does not look very
191      reliable (was already failling on eddy, fc5, at 6.digits). Update output.
192    
193    checkpoint61g
194    o pkg/flt:
195      - move FLT_CPPOPTIONS.h to FLT_OPTIONS.h (standard name)
196       + make OPTIONS file more standard.
197      - rename S/R MDSREADVECTOR_FLT to FLT_MDSREADVECTOR (to mach src file name)
198      - fix _BYTESWAPIO CPP-Flag
199      - standard reading of file-parameter "data.flt"
200      - fix argument list of S/R FLT_RESTART
201      still need to fix _BYTESWAPIO in pkg/mdsio/mdsio_writevector.F
202    o pkg/obcs: fix a CPP-flag, bug reported by Jeff Blundell
203    o gather_2d.F/scatter_2d.F: suppress vectorisation on NEC SX in respond to
204      a still unfixed compiler/optimization bug
205    
206    checkpoint61f
207    o pkg/seaice, LSR solver: fix bug in GLOBAL_MAX calls ;
208      update results of global_ocean.cs32x15.icedyn test.
209    o move getcon.F from model/src to pkg/fizhi.
210    o pkg/exf: add parameter for extrapolation of temp up to the surface
211       and option to prevent negative evap (in bulk_largeyeager04 only).
212    o Prather Advection scheme: fix tracer conservation for divergent flow
213      (e.g., when using NonLin Free-Surface).
214    o kpp: retire KPPmld diagnostics --> use MXLDEPTH instead
215    o gmredi (Visbeck-variable-K):
216     - add more parameters to Visbeck-variable-K.
217     - use a 5 points average for dSigmaR in Visbeck-K calculation
218       (more "homogenous": same stencil and same weights as in dSigmaH)
219     - update output of ideal_2D_oce experiment.
220    o fix CPP-flag REAL4_IS_SLOW, when _RS expands into real*4
221      (#undef REAL4_IS_SLOW)
222     - pkg/mnc/mnc_cw_cvars.F: write _RS-grid variable as netcdf-real*4
223       coordinate variable
224     - pkg/monitor/monitor.F: call mon_printstats_rs for _RS variables
225       (surface forcing fields), removes some of the functionality
226     - model/src/write_grid.F: write _RS variables as RS-netcdf variables
227     - model/src/diags_oceanic_surf_flux.F: fix a few diagnostics, but
228       probably not all: copy _RS surface flux fields to RL field before
229       calling DIAGNOSTICS_FILL
230     - model/inc/CPP_EEMACROS.h: make the _EXCH_*_RS macros expand into
231       real*4 (CALL EXCH_*_RS) versions.
232     - tested in 2 experiments: inverted_barometer & solid-body.cs-32x32x1
233       (generate new output).
234    
235    checkpoint61e
236    o gmredi (Visbeck-variable-K):
237      - fix the "OLD_VISBECK_CALC" option + move the #undef to GMREDI_OPTIONS.h
238      - change computation of Visbeck-K where Slope > Smax :        
239        now: N*min(Slope,Smax) (similar to OLD_VISBECK_CALC with gkw91 taperFct)
240        previously was: M*sqrt(min(Slope,Smax)) ; update ideal_2D_oce output.
241    o bottom-drag in P-coord.: change units of bottomDragLinear & bottomDragQuadratic
242      to be the same as with Z-coord. (i.e., m/s & no-units respectively).
243    o calc_viscosity: fix index range (was wrong for CD-Scheme & explicit Visc)
244    o pkg gmredi, linear & fm07 tapering: put an upper limit on Slope^2 so that Kwz
245      does not become too large (to avoid precision problems in implicit-diffusion
246      solver); update ideal_2D_oce output.
247    o pkg ggl90:
248      - in ggl90_cal.F: compute only one set of visc/diff, used to
249        step forward TKE/T/S/momentum
250      - default value of GGL90viscMax/GGL90diffMax larger and equal (to
251        have Prandlt =1)
252    o gmredi (fm07):
253      - add lower limit on Transition layer thickness + lower limit on 1/lambda
254      - allow to set few more params from data.gmredi
255    o pkg ggl90:
256          - add missing sqrt(2) factor in computation of mixing length
257            scale in ggl90_calc.F
258            (see Eq. (2.35) in Blanke and Delecluse, JPO, 1993)
259    
260    checkpoint61d
261    o adjoint modifs
262      - adapt to new field rhoInSitu
263      - allow to revert from StoreDynVars2D, StoreDynVars3D
264        to individual fields
265        (switches AUTODIFF_USE_OLDSTORE_2D, AUTODIFF_USE_OLDSTORE_3D)
266    o store 3-D (in-situ) density in commom block (DYNVARS.h)
267     - save 1 rho computation.
268     - no longer modify T & S inland when using down_slope pkg.
269    o gad_som : allow to switch to SOM advection for T & S without corresponding
270      pickup files (using new S/R: MDS_CHECK4FILE).
271    o keep removing _BEGIN/_END_MASTER between MDSIO S/R call
272      (for useSingleCpuIO to work in multi-threaded)
273    o pkg/shelfice:
274     - disentangle parameters: retire shelfIceFile in data/PARM05 and substitute
275       with SHELFICEtopoFile in data.shelfice
276     - move code for reading ice shelf topography and modifying hFacC into separate
277       subroutines of the shelfice package
278     - separate initialisation of "fixed" and "variable" variables
279     - kTopC is not (yet) replaced by kSurfC, although this is possible
280    o fix broken diagnostic SIatmFW and changed the units from m/s to kg/m^2/s
281    o add initialisation of deepFac if using Pcoords (new S/R set_grid_factors)
282      and rename:
283      ini_phiref.F          --> set_ref_state.F  (+ set anelastic factors)
284      ini_reference_state.F --> load_ref_files.F (- set anelastic factors)
285    o change FIND_RHO_SCALAR : return rho (instead of rho - rhoConst)
286    
287    checkpoint61c
288    o add option ALLOW_ADDFLUID and run-time selector "selectAddFluid"
289      to add mass source/sink of fluid in the interior (3-D generalisation
290      of oceanic real-fresh water flux).
291    o pkg/monitor: fix recip_dr argument in mon_advcflw2 call (-> advcfl_W_hf_max)
292    o vermix test experiment: switch from LINEAR EOS to MDJWF (not tested before)
293    o new pkg: down_slope
294      density-driven downsloping flow parameterisation (Tellus, 1999, 412-430).
295      - presently, modify T & S inland (dwnslp_calc_rho.F).
296        can be avoided if rho was stored in common bloc and used in calc_phi_hyd.
297      - implementation for ocean in P-coords not tested.
298      - add secondary test to global_ocean.90x40x15 (input.dwnslp) to check this pkg.
299    o move kSurfC,kSurfW & kSurfS from SURFACE.h to GRID.h (next to kLowC)
300      (to facilitate conversion of oceanic pkg to p-coordinate).
301    o change FIND_RHO to FIND_RHO_2D :
302      pass arguments tFld & sFld as local (tile) 2D-arrays ; +fix EOS_CHECK.
303    o new pkg: cheapaml
304    
305    checkpoint61b
306    o exch2:
307      change index bounds in rx2_cube exchanges (new S/R: EXCH2_GET_UV_BOUNDS)
308      - no longer depend on the order sequence (N,S,E,W).
309      - 3rd exchange no longer needed (tested with 24 tiles).
310      - same modif to hand-written adjoint S/R (global_ocean.cs32x15: zero diff)
311      - exch_UV_A-grid readily available (but not yet tested).
312      comment out 3rd exch call and remove copy of V to U at SE & NE face-corners
313      (both are no longer needed) in exch_uv: no effect in forward run; but
314       get truncation error differences with adjoint exch.
315    o exch2:
316     - change index-bounds storage (moved from target to local tile,
317       more intuitive this way) ; rename/remove some variables.
318     - change utils/exch2/matlab-topology-generator & code_mods accordingly.
319    
320    checkpoint61a
321    o exch2/matlab-topology-generator:
322      fix bug in index bounds for N-S internal exchange (hard to tell if this
323      had any effect on the solution).
324  o pkg/mnc: small fix in mnc_handle_err: make sure that length of msgbuf  o pkg/mnc: small fix in mnc_handle_err: make sure that length of msgbuf
325    is exceeded    is exceeded
326  o testreport: modify syntax of awk, so that it works also with  o testreport: modify syntax of awk, so that it works also with
# Line 2169  o add two new packages Line 2486  o add two new packages
2486    - my82 (Mellor and Yamada, 1982) level 2 turbulence closure scheme    - my82 (Mellor and Yamada, 1982) level 2 turbulence closure scheme
2487    - these scheme operate in a similar manner as KPP (without ghat, of    - these scheme operate in a similar manner as KPP (without ghat, of
2488      course), however there is only one diffusivity that is used for both      course), however there is only one diffusivity that is used for both
2489      temperature and salinity (and passive tracers)ç      temperature and salinity (and passive tracers)
2490  o add offline package  o add offline package
2491  o add "verification/dic_example" which contains a dic-gchem-ptracer setup  o add "verification/dic_example" which contains a dic-gchem-ptracer setup
2492    provided by Stephanie Dutkiewicz    provided by Stephanie Dutkiewicz

Legend:
Removed from v.1.1008  
changed lines
  Added in v.1.1092

  ViewVC Help
Powered by ViewVC 1.1.22