/[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 1.1035 by mlosch, Mon Oct 27 05:16:06 2008 UTC revision 1.1110 by mlosch, Fri May 29 10:44:50 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 pkg/seaice:
8      - fix diagnostics for flux of ice in case of B-grid
9      - turn strain rates eij and press into global fields within global
10        common block in SEAICE.h for more straighforward diagnostics
11      - fix diagnostics for principal stress components, press, zeta, eta
12        to give something meaning full
13    o change tiling of global_ocean.cs32x15 (12 tiles, 32x16) and generate
14      new output (all 4 tests) using default rotationPeriod.
15    o Fix computations of L4rdt in mom_calc_visc.F
16    o eesupp:
17      new S/R ALL_PROC_DIE (like EEDIE, without irrelevant threads err msg):
18      should be called before a "stop" if we know that all process are going
19      to stop; if one Proc does call this S/R, will hang in MPI_FINALISE.
20    
21    checkpoint61o
22    o pkg/exch2: change check_depths to issue just a warning (instead of error+stop)
23    o model/src/ini_curvilinear_grid.F:
24       compute angleSin/CosC when they are not read from a file
25    o pkg/seaice:
26       add pseudo time stepping for LSOR
27    o pkg/exch2:
28       temporary fix for exch2_s3d_rx; update results of exp. hs94.cs-32x32x5.impIGW
29    o pkg/seaice:
30       Adding separate sea ice albedo, drag coefficients, and HO in Southern
31       Ocean from those in Arctic Ocean.  See *_south in SEAICE_PARAMS.h
32    o SingleCpuIO:
33       fix bug put before chkp61n (May 11), when more than 2 MPI cpu are used.
34    o pkg/seaice:
35       put exchanged variable in (local) common block for MPI+Multi-Threads
36       to work (necessary with exch1, and for now with exch2 too).
37    o verification: to get more experiments tested with mpi, mth and mpi+mth,
38      change tiling of:
39       aim.5l_Equatorial_Channel, aim.5l_LatLon, dome, exp4, global_ocean.90x40x15,
40       hs94.cs-32x32x5, MLAdjust, offline_exf_seaice & tutorial_plume_on_slope
41      update output of exp:
42       exp4, global_ocean.90x40x15(+.dwslp), MLAdjust(all 5),
43       tutorial_plume_on_slope and hs94.cs-32x32x5 (use default rotationPeriod)
44      + ideal_2D_ocean: use default rotation period + test Global_Sum_SINGLECPU
45                       (note: output.txt generated on faulks using only 1 tile)
46    o eesupp & mdsio (SingleCpuIO):
47     - remove MISSING_TILE_IO (from MDSIO_OPTIONS.h), replaced by run-time
48       parameter "W2_useE2ioLayOut" (read from file "data.exch2").
49       Note: was not effective for globalFile & useSingleCpuIO=F; now fixed.
50     - move MDSIO_SCPU.h (pkg/mdsio) to EEBUFF_SCPU.h (eesupp/inc).
51     - fix GLOBAL_SUM_SINGLECPU when using Exch2; re-use same buffers and same
52       gather/scatter S/R as with SingleCpuIO (=> 1 less 2D global RL array).
53    o pkg/exch2:
54     - new code to set-up W2-Exch2 topology (replace matlab-topology-generator):
55       read parameter file "data.exch2" if it exists; otherwise try default regular
56       cube without blank-tile; new header file "W2_EXCH2_SIZE.h";
57     - update matlab-topology-generator (exch2_setup_cs6_print.m) to be compatible
58       with new code (not to be used, just as a backup solution).
59     - add examples (e.g., for lat-lon-cap_120) of parameter file "data.exch2"
60       in utils/exch2/input.
61    
62    checkpoint61n
63    o eesupp & mdsio (SingleCpuIO):
64      - move mapping to global io-buffer inside gather_2d/scater_2d: this save
65        memory (1 less 2D global RL array); skip 1 buffer copy; and only send/
66        receive real*4 array (instead of real*8) to read/write 32.bit files.
67        (new template for gather_2d/scater_2d, new set of S/R MDS_PASS_R4,8toRL,S
68         and remove new mapping S/R)
69    o pkg/mdsio: in preparation for topology-generator within pkg/exch2:
70      - Change declaration of SingleCpuIO buffer, reduced to only 1 dim.:
71        xyBuffer_size, which is set to W2_ioBufferSize from W2_EXCH2_PARAMS.h
72        when using exch2. Add S/R to map global io-buffer to global model array.
73      - uses exch2_global_Nx,y instead of exch2_domain_nxt,nyt.
74    
75    checkpoint61m
76    o write_utils : change WRITE_1D_R8 to WRITE_1D_RL
77      and add 3 other S/R for other types (R4,R8,RS).
78      Change calls to WRITE_0D/1D_R[4,8,S,L] to match the type of argument.
79    o eesupp/inc/CPP_EEMACROS.h (EXCH & GLOBAL_SUM/MAX macros):
80     - ensure suffix (_R4,_R8,_RS,_RL) correspondance between macro and S/R ;
81     - reduce number of macro definitions (keep only those which are used);
82       can always call directly the corrresponding S/R if needed.
83     - everywhere in the code: change macros (EXCH & GLOBAL_SUM/MAX) suffix
84       _R4/_R8 to _RS/_RL when applied to _RS/_RL variable.
85     Fixed wrong type of arg in:
86       atm2d/put_ocnvars.F cheapaml/cheapaml.F ocn_compon_interf/ocn_apply_import.F
87       ctrl/ctrl_map_ini_ecco.F seaice/seaice_do_diags.F seaice/seaice_model.F
88     To fix: global_sum of var in common block is wrong (multi-threaded) in:
89       dic/dic_atmos.F ebm/ebm_area_t.F ebm/ebm_zonalmean.F sbo/sbo_calc.F
90     To fix: aim_v23/aim_do_co2.F (BARRIER & GLOBAL_SUM within bi,bj loops)
91    o adjustment.cs-32x32x1: test "blank tiles" when compiling with mpi; 2nd
92      "nlfs" mpi test is going to stop when checking for unconnected tile egdes.
93    o eesupp/src: new S/R to stop everyone when 1 (or more) Proc. find an error
94    o pkg/exch2: new S/R EXCH2_CHECK_DEPTHS to check that unconnected tile
95      edges are closed (zero depth); might happen with "blank tiles";
96      for now, disabled if using OBCS.
97    o tools/gemake2: delete modifs from March 27-29 2009 (with option "-mpi":
98      link *_mpi files from "MODS" dir) to return to a strait-forward behavior.
99    o move read_write.F to write_utils.F ; new parameter (maxLengthPrt1D)
100      to reduce length of 1.D array print in STDOUT.
101    o adjustment.cs-32x32x1: changed to oceanic test with 1 continent
102      + use 48 tiles (16x8): this will allow to test "blank tiles".
103    o start to test MPI + multi-threaded (change testreport to skip tests
104      where number of tiles do not match).
105    o genmake2: add option "-omp" to turn on Open-MP ;
106      passed to testreport (if using -mth) ; merge few (*+mth) optfiles.
107    o pkg/exch2 (+ utils/exch2): ignore blank tiles (instead of removing them)
108      and keep the original tile numbering. Note: compatible with old
109      W2_EXCH2_TOPOLOGY.h & w2_e2setup.F topology files.
110    
111    checkpoint61l
112    o Overlaps had been forgotten in calculating ijk keys : fixed
113    o fix cyrus makedepend for gcc 4.4
114    o experiment fizhi-cs-aqualev20:
115      switching to new version of S/R GETPWHERE (#define TRY_NEW_GETPWHERE)
116      and generate new output. Note: new output is much closer to the old
117      one (v1.8) generated with pgf77 -O2 on Mar 14 2007 than it is from
118      the previous one (v1.9) generated with pgf77 -O0 on Jun 13 2007.
119    o pkg/fizhi:
120     - change to avoid indices going deliberately over array-bounds
121     - remove unnecessary MPI stuff
122     - perpetual spring equinox with "#define FIZHI_USE_FIXED_DAY"
123     - new version of S/R GETPWHERE available with #define TRY_NEW_GETPWHERE:
124       does not go over array-bounds and therefore returns reliable output.
125     - in fizhi_driver.F & fizhi_turb.F, fix "get_alarm" calls:
126       this S/R has 4 output arguments, which are used inside "get_alarm";
127       when it is called with the same variable "ndum" in place of several
128       output arguments, this produces weird side effect inside "get_alarm"
129      (e.g., datein=dates(n) is overwritten by timein=times(n) since both
130       datein & timein, resp. 2nd and 3rd arg., are pointed to the same "ndum"
131       address) and produces error.
132    o tools/gemake2: (March 27-29 2009)
133      with option "-mpi": link *_mpi files from "MODS" dir (this is what
134      testreport does).
135    o lab_sea experiment: change from 2x1 tiles to 2x2 tiles and regenerate output
136    o pkg/seaice: fix bug in new version of S/R SEAICE_LSR.F:
137       update lab_sea.lsr & lab_sea.salt_plume results
138    o pkg/seaice:
139      Major overhaul of the LSOR solver: change discretization from original
140      finite differences to finite volume. The old routine is still in the
141      file seaice_lsr.F and can be turned on with the CPP-flag
142      SEAICE_OLD_AND_BAD_DISCRETIZATION
143      Along with this change, the discretization of the strain rates is changed.
144      The same flag turns on the old discretization in seaice_calc_strainrates.F
145      All verification experiments with seaice are affected (except for
146      seaice_exf_offline); global_ocean.cs32x15/input.icedyn recovers the old
147      results by setting the above flag.
148      Further changes involve changes in defaults:
149      - ALLOW_FLOODING is defined and turned on by default
150      - SEAICEadvSnow = .true. is now the default
151      - SEAICEadvSalt = .true. is now the default
152      - SEAICEadvAge  = .true. is now the default
153      - SEAICE_clipVelocities  = .false. is now the default
154                                         (as per J. Zhang's recommendation)
155      - B-grid, and thus not tested: SEAICE_TEST_ICE_STRESS_1/EXPLICIT_SSH_SLOPE
156        is defined, SEAICE_TEST_ICE_STRESS_1 is renamed into SEAICE_BICE_STRESS
157      - seaice_growth: replace computation of UG by a simple copy from wspeed
158    
159    checkpoint61k
160    o pkg/seaice: a few bug fixes mostly concerning the metric terms:
161      seaice_lsr: fixed a few metric terms,
162                  affects lab_sea.lsr, lab_sea.salt_plume, seaice_obcs
163                  add more debugging diagnostics
164      seaice_evp: removed superfluous many metric terms of FV discretization
165                  of stress divergence
166                  affects lab_sea, lab_sea.hb87
167      seaice_ocean_stress: removed superfluous many metric terms of FV discretization
168                  of stress divergence for non-evp solver
169                  (this part is not tested anywhere)
170      seaice_calc_strainrates: fixed a bug in no-slip boundary conditions,
171                  they were effectively only half slip
172                  affects lab_sea.hb87
173      updated all relevant verification experiments (except lab_sea//output_adm.txt
174        which was left over, but fails at level 7 & 6)
175    
176    checkpoint61j
177    o pkg/seaice: turn a few hard wired parameters into run time parameters
178    o pkg/seaice/exf/monitor: turn netcdf coordinate variable T into model
179      time in seconds as promised by the usints in seaice_monitor and exf_monitor
180    o pkg/mnc: fix the coordinate variables for multi-tile curvi-linear grids
181      that are not cubed-sphere grids
182    o pkg/seaice: fix a bug for the rare case of SEAICE_VECTORIZE_LSR
183    o pkg/ctrl:
184      fix bug in ctrl_depth_ini.F (EXCH_XYZ was applied to 2-D field xx_r_low)
185    o non-hydrostatic (calc_gw.F):
186      fix viscA4 on CS-grid + fix diagnostics: Wm_Diss & Wm_Advec
187      update output of exp. global_ocean.cs32x15.viscA4
188    o remove backward compatibility for thetaMin,phiMin
189      (replaced by xgOrigin,ygOrigin on Jan 27, 2009)
190    o pkg/exf: fix a serious bug in exf_set_uv.F: do a rotation of the
191      interpolated wind field not only for curvilineargrid=.true., but also
192      for a rotated grid (rotateGrid=.true.)
193    o pkg/exf: add capability to bypass interpolation for runoff
194      by setting yet another CPP-flag
195    o eesupp/src, B-grid exchange:
196      add simple (6 tiles, non MPI) CS exch + standard interface S/R.
197    o autodiff
198      new CPP option ALLOW_TAMC_SINGLEPREC_COMLEV
199      allows to switch to single-prec common blocks;
200      corresponding switch occurs in tamc.h, integer isbyte
201      TAF store directivs "byte" and "kind" seem equivalent;
202      Most tamc.h have been updated correspondingly.
203    
204    checkpoint61i
205    o autodiff:
206      fix autodiff_sore/_restore indices for obcs
207      (spotted by I. Hoteit, M. Mazloff)
208    o pkg/autodiff, pkg/ctrl:
209      Add flag to reduce all tapelev I/O to single-prec.
210      In data.ctrl set
211        doSinglePrecTapelev = .TRUE.
212    o model/src/ini_curvilinear_grid.F, new grid-file format without EXCH2:
213      check in hack for SX8 compiler (for dxV, dyU); remove it afterwards.
214    o pkg/shelfice: fix bug with SHELFICEconserve flag, prepare for
215      real fresh water flux (not yet)
216    o pkg/mdsio & rw:
217     - add argument & option to S/R MDS_WRITEVEC_LOC (avoid Open/Close & write-meta)
218     - add simple interface S/R to MDS_WRITEVEC_LOC in pkg/rw: WRITE_GLVEC_RX.
219    o pkg/flt:
220     - replace FLT_INIT by 3-steps standard initialization S/R: readparms,
221       init_fixed & ini_varia.
222     - clean-up & simplify linear interpolation S/R:
223       move flt_bilinear.F -> flt_interp_linear.F ; add arg. myThid.
224     - fix some indices (mainly vertical index) ; add IMPLICIT NONE.
225     - more efficient I/O, using new options of MDS_WRITEVEC_LOC S/R.
226     - add vert. coordinate & horiz. indices to output files.
227     - change vertical position in initial condition, from index to depth [m].
228     - store horizontal (decimal) indices i,j in common block (instead of coord. x,y)
229       (easier to get to a curvilinear grid) ; delX,delY no longer used.
230    o pkg/ggl90: a few modifications:
231     - fix bottom boundary condition, and interpolation of KappaE
232       near top and bottom
233     - use same set of viscosity/diffusivity for TKE/momnetum/tracer
234     - add smoothing option as in Blanke and Delecluse (1993) (--> ALLOW_GGL90_SMOOTH)
235     - add a few options for mixing-length upper limit (--> mxlMaxFlag)  
236    o rename thetaMin,phiMin -> xgOrigin,ygOrigin
237      (maintain temporary backward compatibility, until next checkpoint)
238    
239    checkpoint61h
240    o pkg/diagnostics with "periodic averaging diagnostics":
241      fix S/R DIAGNOSTICS_COUNT ; hack diagnostics_out.F to get NetCDF output.
242    o pkg/my82: add missing "_d 0" ; update output of exp. vermix.my82
243    o pkg/obcs: fix loop ranges for balancing code
244    o pkg/flt:
245     - improve criteria for finding which tile owns a float.
246     - fix FLT_EXCH for case without MPI ; apply cyclic BC + fix also the MPI case.
247    o Add well-mixed CO2 box in aim_v23 (which includes changes in pkg
248      aim_compon_interf, ocn_compon_interf, gchem, and dic to get coupling
249      with ocean biogeo)
250    o pkg/flt:
251     - do some cleaning and fix the restart ;
252     - add output.txt in flt_example/results to get this pkg tested.
253    o genmake2: add an EXTENDED_SRC option and flag.
254       for now, cannot be turned on on command line (only through genmake_local)
255    o pkg/mdsio: read/write vector:
256     - singleCpuIO: fix RL/RS in MDSWRITEVECTOR by calling new S/R MDS_BUFFERtoRL/RS
257     - singleCpuIO=F: fix arrType & filePrec & _BYTESWAPIO in both MDSREADVECTOR
258       & MDSWRITEVECTOR by calling new S/R MDS_RD/WR_VEC_RL/RS.
259     - affects gradient of test-exp "bottom_ctrl_5x5" (not due to _BYTESWAPIO)
260      (drop to 4 digits matching for grad). But this test does not look very
261      reliable (was already failling on eddy, fc5, at 6.digits). Update output.
262    
263    checkpoint61g
264    o pkg/flt:
265      - move FLT_CPPOPTIONS.h to FLT_OPTIONS.h (standard name)
266       + make OPTIONS file more standard.
267      - rename S/R MDSREADVECTOR_FLT to FLT_MDSREADVECTOR (to mach src file name)
268      - fix _BYTESWAPIO CPP-Flag
269      - standard reading of file-parameter "data.flt"
270      - fix argument list of S/R FLT_RESTART
271      still need to fix _BYTESWAPIO in pkg/mdsio/mdsio_writevector.F
272    o pkg/obcs: fix a CPP-flag, bug reported by Jeff Blundell
273    o gather_2d.F/scatter_2d.F: suppress vectorisation on NEC SX in respond to
274      a still unfixed compiler/optimization bug
275    
276    checkpoint61f
277    o pkg/seaice, LSR solver: fix bug in GLOBAL_MAX calls ;
278      update results of global_ocean.cs32x15.icedyn test.
279    o move getcon.F from model/src to pkg/fizhi.
280    o pkg/exf: add parameter for extrapolation of temp up to the surface
281       and option to prevent negative evap (in bulk_largeyeager04 only).
282    o Prather Advection scheme: fix tracer conservation for divergent flow
283      (e.g., when using NonLin Free-Surface).
284    o kpp: retire KPPmld diagnostics --> use MXLDEPTH instead
285    o gmredi (Visbeck-variable-K):
286     - add more parameters to Visbeck-variable-K.
287     - use a 5 points average for dSigmaR in Visbeck-K calculation
288       (more "homogenous": same stencil and same weights as in dSigmaH)
289     - update output of ideal_2D_oce experiment.
290  o fix CPP-flag REAL4_IS_SLOW, when _RS expands into real*4  o fix CPP-flag REAL4_IS_SLOW, when _RS expands into real*4
291    (#undef REAL4_IS_SLOW)    (#undef REAL4_IS_SLOW)
292   - pkg/mnc/mnc_cw_cvars.F: write _RS-grid variable as netcdf-real*4   - pkg/mnc/mnc_cw_cvars.F: write _RS-grid variable as netcdf-real*4
# Line 16  o fix CPP-flag REAL4_IS_SLOW, when _RS e Line 299  o fix CPP-flag REAL4_IS_SLOW, when _RS e
299     calling DIAGNOSTICS_FILL     calling DIAGNOSTICS_FILL
300   - model/inc/CPP_EEMACROS.h: make the _EXCH_*_RS macros expand into   - model/inc/CPP_EEMACROS.h: make the _EXCH_*_RS macros expand into
301     real*4 (CALL EXCH_*_RS) versions.     real*4 (CALL EXCH_*_RS) versions.
302     - tested in 2 experiments: inverted_barometer & solid-body.cs-32x32x1
303       (generate new output).
304    
305  checkpoint61e  checkpoint61e
306  o gmredi (Visbeck-variable-K):  o gmredi (Visbeck-variable-K):
# Line 2271  o add two new packages Line 2556  o add two new packages
2556    - my82 (Mellor and Yamada, 1982) level 2 turbulence closure scheme    - my82 (Mellor and Yamada, 1982) level 2 turbulence closure scheme
2557    - these scheme operate in a similar manner as KPP (without ghat, of    - these scheme operate in a similar manner as KPP (without ghat, of
2558      course), however there is only one diffusivity that is used for both      course), however there is only one diffusivity that is used for both
2559      temperature and salinity (and passive tracers)ç      temperature and salinity (and passive tracers)
2560  o add offline package  o add offline package
2561  o add "verification/dic_example" which contains a dic-gchem-ptracer setup  o add "verification/dic_example" which contains a dic-gchem-ptracer setup
2562    provided by Stephanie Dutkiewicz    provided by Stephanie Dutkiewicz

Legend:
Removed from v.1.1035  
changed lines
  Added in v.1.1110

  ViewVC Help
Powered by ViewVC 1.1.22