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revision 1.1476 by mlosch, Tue Jul 19 12:54:25 2011 UTC revision 1.1512 by jmc, Wed Oct 12 03:05:43 2011 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/exf:
8      - fix previous modif in exf_readparms.F (revision 1.66: treatment of
9        optional namelist EXF_NML_OBCS).
10      - add many debug-print (to trace down where pkg/cal error msg comes from)
11    o pkg/mom_vecinv/mom_vi_hdissip.F
12      - rearrange loops so that vectorization is improved and in particular
13        the adjoint routine vectorizes. The code is a little longer now, but I
14        think easier to read.
15        Note: CPP-flag MOM_VI_ORIGINAL_VISCA4 is not tested.
16    o pkg/seaice:
17      - allow to specify initial seaice velocity from files (uIceFile,vIceFile)
18    o pkg/exch2:
19      - alternative code (without tile x tile matrix) for cumulated (global) sum;
20        used as default; keep using matrix version in adjustment.cs-32x32x1.
21    o tools/build_options:
22      - after merging some MPI and/or multi-threads specific optfiles so that
23        the modified default optfile support both built (using genmake2 -mpi
24        for the MPI built, using genmake2 -omp for OpenMP built),
25        move now obsolete optfiles to tools/build_options/unsupported/
26       (add copy of email sent to support list in doc/optfiles_changes.txt)
27    
28    checkpoint63c (2011/09/28)
29    o pkg/ebm:
30      - fix ebm_zonalmean.F for several procs in Ydir (nPy > 1); update output of
31        test exp. global_ocean_ebm (affects machine truncation, 12 digits for cg2d)
32    o pkg/seaice (SItracer pickup)
33    * Simple code for pickup of SItracer fields (#define ALLOW_SITRACER)
34      To be done:
35      - thorough testing of missing fields in S/R seaice_read_pickup
36      - thorough matching between generic tracers and specific fields used
37        (e.g. volume-weighted age, area-weighted age, salinity, ...)
38    o pkg/grdchk:
39      - all procs calculate and print finite-difference gradient (for testreport)
40      - change description output used by testreport;
41      - AD testing: also compare and report Finite-difference gradient;
42        => update all output_adm*.txt
43    o test exp. global_ocean_ebm:
44      - switch back useRealFreshWaterFlux (no problem anymore with run-off);
45        and turn on exactConserve; update (fwd) output.
46    o pkg/seaice (LSR):
47      - print to STDOUT number of solver iterations at SEAICE_monFreq interval.
48      - modify solver to deal cleanly with u/v switch at face edges (CS-grid):
49        * identical results with non-CS topology (but save up to half of EXCH calls)
50        * no much changes in cs-32 verification tests since no ice at face edges
51         (differences due to convergence criteria, since nb of iterations changed)
52        * expect some differences on lat-lon-cap grid.
53        update FWD results of global_ocean.cs32x15 test exp. (icedyn & seaice)
54    o pkg/exch2:
55      - add new CPP option to disable Cumul-Sum matrix (to save storage when using
56        many tiles); until alternative coding is added, just add a stop.
57    o pkg/kpp:
58      - move ptracer/salt correction to KPP diffusivity from calc_3d_diffusivity.F
59        to S/R KPP_CALC_DIFF_PTR (+ add tracer-index to argument list).
60    o optfiles:
61      - merged few MPI specific (*+mpi*) and multi-threads specific (*+mth) optfiles
62        into corresponding standard one, which now support different build:
63        (when using "genmake2 -mpi" for MPI built, "genmake2 -omp" for OpenMP built)
64      - add "darwin_amd64_gfortran" optfile (initially from Constantinos, tested by Gael)
65    o pkg/obcs (seaice):
66      - add missing EXCH for uIce,vIce after applying OBCS;
67      - remove S/R EXF_SWAPFFIELDS_X/Y , disable S/R EXF_SET_OBCS_X/Y by adding
68        argument = number of levels to S/R EXF_SWAPFFIELDS_XZ/YZ and S/R
69        EXF_SET_OBCS_XZ/YZ ; update obcs_exf_load.F;
70      - fix EXF_SET_OBCS_XZ/YZ for multi-threaded (assuming loaded arrays are shared)
71      - verification exp. seaice_obcs: split domain in 2 tiles ; add SIZE.h_mpi
72        and eedata.mth for MPI and mutlti-threaded testing.
73    o pkg/flt:
74      - make FLT EXCH working with multi-threads (and MPI + multi-threads);
75      - use buffer for floats IO (trajectories & profiles); size set in FLT_SIZE.h;
76      - fix pickup and trajectories + profiles output with multi-threads;
77      - add parameter to select group of fields to write along trajectory and
78        profile (default unchanged);
79      - only call PORT_RAND* function when flt_noise <> 0;
80      - add multi-threaded test for verification exp. flt_example.
81    o eesupp/src:
82      - fix S/R ALL_PROC_DIE for MPI+multi-threads.
83      - USE_OMP_THREADING: check that number of threads (from eedata) matches
84        actual number (from env.var. setting).
85    o pkg/ebm:
86      - fix multi-threading in ebm_area_t.F ; clean-up EBM.h header file.
87      - add multi-threaded test for verification exp. global_ocean_ebm
88    
89    checkpoint63b (2011/08/29)
90    o pkg/ebm:
91      - fix sign of runoff;
92      - update directly forcing fields (Qnet,EmPmR) to use standard
93        external_forcing_surf.F (remove ebm_forcing_surf.F);
94      - avoid loading forcing fields a 2nd time (1rst time from ini_forcing.F);
95      - set either tauThetaClimRelax (in data) or tauThetaZonRelax (in data.ebm)
96        and apply relaxation towards corresponding SST field (2-D map or ZonAver).
97      - update global_ocean_ebm parameters file data and update output (fwd+ad).
98    o verification/matrix_example:
99      - split domain in 8 tiles (2x4); add SIZE.h_mpi and eedata.mth for
100        MPI and mutlti-threaded testing.
101    o pkg/matrix:
102      - change name of S/R MATRIX_INIT to S/R MATRIX_INIT_VARIA ;
103      - fix for multi-tiles (add bi,bj indices to exp/impMatrixCounter);
104      - fix for multi-threaded (remove DATA statement);
105      - use standard DIFFERENT_MULTIPLE function;
106      - add MATRIX_OPTIONS.h
107    o verification/matrix_example:
108       To allow to split the domain in several tiles, change the domain size
109        from 31x31 to 32x32 by adding 1 row (on Southern side) + 1 column (on
110        Western side) of land points.
111    o (*_)write_pickup:
112      - fix few bugs in mypackage_read/write_pickup.F
113      - in MDS_WR_METAFILES calls, replace "myTime" by a local copy into
114        array of length 1 (was caught by compiler syntax-check).
115    o pkg/diagnostics (velocity potential solver):
116      - fix initialisation of main diagonal matrix (for overlap values)
117    o tools/build_options:
118      - towards single optfile for MPI and non-MPI built: merge few +mpi optfile
119        into previously non MPI one (linux_am64 pgf77,open64,pathf90,ifort11)
120      - linux_amd64_gfortran: merge +mpi_generic version into standard optfile:
121        * move IEEE flags to DEVEL section; take IEEE flags from +mpi_generic ;
122        * FAST case: for now, keep -O3 with ini_masks_etc.F in NOOPTFILES list;
123        and use "-devel" testreport option for standard testing on baudelaire.
124    o pkg/grdchk:
125      - Assume that all gradient-check position are within the same tile
126        corresponding to global indices (iGloTile,jGloTile) and that
127        positions (i,j indices or nbeg) are local to this tile;
128      - set tile local-indices and proc. number according to tile global-indices;
129      - remove grdchkwhichproc from namelist (retired param);
130      - send adjoint gradient to all procs so that all procs print it to STDOUT;
131      - switch on MPI test for global_ocean.90x40x15 AD test experiment.
132    o adding package bbl (Bottom Boundary Layer)
133      description in MITgcm/pkg/bbl/bbl_description.tex
134      example/test experiment in MITgcm_contrib/bbl
135    o adjoint verifications
136      - changed 5 experiments to multi-tiles
137        * global_ocean.90x40x15
138        * obcs_ctrl
139        * offline_exf_seaice
140        * tutorial_dic_adjoffline
141        * tutorial_tracer_adjsens
142        changed reference output for those that crossed tile boundaries
143        (changed choices of gradient check positions)
144      - with same tiling, switch on MPI test for the last 4 (add SIZE.h_mpi)
145      - temporary bug fix in grdchk_loc.F for obcs
146    o genmake2 & testreport
147      - add target "obj" (just for OBJFILES files) to Makefile;
148      - add option to specify FEXTRAFLAGS on command line.
149    o pkg/mypackage:
150      - remove bi,bj arguments from argument list of S/R MYPACKAGE_CALC_RHS
151    
152    checkpoint63a (2011/08/02)
153    o pkg/diagnostics (velocity potential):
154      - fix velocity-potential calculation when using OBCS: balance net inflow
155        at each level (new S/R OBCS_DIAG_BALANCE).
156      - fix some of the problems with OBCS in stream-function calculation.
157    o pkg/exf/exf_readparms.F
158      - make treatment of optional namelists (EXF_NML_04, EXF_NML_SGRUNOFF,
159        EXF_NML_OBCS) more consistent, so that you need not have these lists
160        in data.exf when they are not used.
161    o optim/optim_readdata.F:
162      - add some output about obcs variables that might help debugging
163      - add a check about nvarlength
164    o pkg/ctrl: once again, fix computation of endrec in s/r ctrl_init_rec
165    o pkg/diagnostics (velocity potential):
166      - fix mask for OBCS (still problems in stream-function with OBCS);
167      - add specific parameter (default = main code CG2D params) for solver;
168      - in case of poor convergence, use solution corresponding to lowest residual.
169    o pkg/seaice/seaice_growth.F: small changes that permit vectorizable
170      adjoint code. In general statements like tmpscal=fld(i,j) are problematic
171      and should be avoided where possible.
172    o model/src (rStar):
173      - include r* effect on reference-state (PhiRef) in totPhiHyd
174        (so that it's really the potential anomaly at the cell center);
175        affect solution only if z* with full pressure in EOS.
176      - test-exp global_ocean.90x40x15: reduce viscA4 (was not stable) and
177        update output (because of z* in totPhiHyd and viscA4 changes);
178      - keep the previous diagnostics as "PHIHYDcR" (closer to potential anomaly
179        @ constant r) until interpolation at constant r is implemented.
180    o pkg/diagnostics
181      - fix RCENTER diagnostics in case cell center is not at interface middle
182  o add code for TEOS-10 (www.teos-10.org, McDougall et al. 2011). Use  o add code for TEOS-10 (www.teos-10.org, McDougall et al. 2011). Use
183    this eos with eosType = 'TEOS10', in data (PARM01). This eos implies    this eos with eosType = 'TEOS10', in data (PARM01). This eos implies
184    that THETA and SALT are "conservative temperature" and "absolute    that THETA and SALT are "conservative temperature" and "absolute
# Line 16  o pkg/seaice/seaice_growth.F Line 191  o pkg/seaice/seaice_growth.F
191      remove then obsolete STORE directives      remove then obsolete STORE directives
192    - fix STORE directives for tice and tices, so that only the    - fix STORE directives for tice and tices, so that only the
193      appropriate part of the fields are stored (and not the entire      appropriate part of the fields are stored (and not the entire
194      field)      field); update global_ocean.cs32x15.seaice AD output.
195    - cosmetic changes: adjust CPP flags and indentation for better    - cosmetic changes: adjust CPP flags and indentation for better
196      legibilty      legibilty
197  o pkg/autodiff: add mnc-output of adBottomDragFld (code contributed by  o pkg/autodiff: add mnc-output of adBottomDragFld (code contributed by
# Line 25  o pkg/gmredi: Line 200  o pkg/gmredi:
200     Add Sub-Meso Eddies parameterisation from Baylor (for now, disabled with TAF),     Add Sub-Meso Eddies parameterisation from Baylor (for now, disabled with TAF),
201     and test it in verification exp. "front_relax.bvp" (update output.bvp.txt)     and test it in verification exp. "front_relax.bvp" (update output.bvp.txt)
202    
203  checkpoint63 (2011/07/11)  checkpoint63  (2011/07/11)
204  o pkg/exch2:  o pkg/exch2:
205   - rename+move: nTiles in W2_EXCH2_PARAMS.h --> exch2_nTiles in W2_EXCH2_TOPOLOGY.h   - rename+move: nTiles in W2_EXCH2_PARAMS.h --> exch2_nTiles in W2_EXCH2_TOPOLOGY.h
206   - exch2 version of Cumul-Sum routine: S/R W2_SET_MAP_CUMSUM set up the   - exch2 version of Cumul-Sum routine: S/R W2_SET_MAP_CUMSUM set up the
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