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revision 1.1489 by dimitri, Sun Aug 7 07:08:14 2011 UTC revision 1.1517 by jmc, Sat Oct 22 14:11:04 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/obcs + seaice-dynamics:
8      - new implementation calls OBCS_APPLY_UVICE (in seaice_dynsolver.F) before
9        solving for uIce,vIce and prevent SEAICE_LSR or SEAICE_EVP to modify OB
10        values (consistent with an implicit method).
11      - add option OBCS_UVICE_OLD (in OBCS_OPTIONS.h, defined by default) to
12        return to older implementation (same results as before); note that none of
13        the "experimental" OBCS_SEAICE options are implemented in the new version.
14      - switch test exp. seaice_obcs to use new version (update output).
15    o pkg/seaice:
16      - add few stop (B-grid & CS-exch, B-grid & obcs, AUTODIFF & SEAICE_maskRHS)
17      - add parenthesis in Water-Ice drag calculations (evp & lsr);
18      - in seaice_lsr.F, simplify and fix AA3 setting in case sNx or sNy=1;
19        and fix case SEAICE_waterDrag=0 (but unstable if no or little seaice)
20      - update output of test exp lab_sea that uses evp or lsr (fwd+ad)
21        and global_ocean.cs32x15 (icedyn & seaice fwd+ad).
22    o pkg/layers:
23      - Include potential density as new coordinate (Thanks to David Munday)
24    o pkg/dic:
25      - Remove subroutine CALC_PCO2_APPROX_CO3 from carbon_chem.F and add
26        carbonate computation/output to CALC_PCO2_APPROX
27    o model/src:
28      - improve vectorization also for adjoint code of
29        solve_tridiagonal and solve_pentadiagonal. As this requires up to
30        5 new 3D-fields, this code is only turned on for the combination of
31        ALLOW_AUTODIFF_TAMC and TARGET_NEC_SX.
32      - remove hard-wiring of CPP-flag ALLOW_SOLVERS_KLOOPINSIDE to
33        ALLOW_AUTODIFF. This flag now needs to be set outside of
34        solve_tri/pentadiagonal.F
35    o pkg/exf:
36      - fix previous modif in exf_readparms.F (revision 1.66: treatment of
37        optional namelist EXF_NML_OBCS).
38      - add many debug-print (to trace down where pkg/cal error msg comes from)
39    o pkg/mom_vecinv/mom_vi_hdissip.F
40      - rearrange loops so that vectorization is improved and in particular
41        the adjoint routine vectorizes. The code is a little longer now, but I
42        think easier to read.
43        Note: CPP-flag MOM_VI_ORIGINAL_VISCA4 is not tested.
44    o pkg/seaice:
45      - allow to specify initial seaice velocity from files (uIceFile,vIceFile)
46    o pkg/exch2:
47      - alternative code (without tile x tile matrix) for cumulated (global) sum;
48        used as default; keep using matrix version in adjustment.cs-32x32x1.
49    o tools/build_options:
50      - after merging some MPI and/or multi-threads specific optfiles so that
51        the modified default optfile support both built (using genmake2 -mpi
52        for the MPI built, using genmake2 -omp for OpenMP built),
53        move now obsolete optfiles to tools/build_options/unsupported/
54       (add copy of email sent to support list in doc/optfiles_changes.txt)
55    
56    checkpoint63c (2011/09/28)
57    o pkg/ebm:
58      - fix ebm_zonalmean.F for several procs in Ydir (nPy > 1); update output of
59        test exp. global_ocean_ebm (affects machine truncation, 12 digits for cg2d)
60    o pkg/seaice (SItracer pickup)
61    * Simple code for pickup of SItracer fields (#define ALLOW_SITRACER)
62      To be done:
63      - thorough testing of missing fields in S/R seaice_read_pickup
64      - thorough matching between generic tracers and specific fields used
65        (e.g. volume-weighted age, area-weighted age, salinity, ...)
66    o pkg/grdchk:
67      - all procs calculate and print finite-difference gradient (for testreport)
68      - change description output used by testreport;
69      - AD testing: also compare and report Finite-difference gradient;
70        => update all output_adm*.txt
71    o test exp. global_ocean_ebm:
72      - switch back useRealFreshWaterFlux (no problem anymore with run-off);
73        and turn on exactConserve; update (fwd) output.
74    o pkg/seaice (LSR):
75      - print to STDOUT number of solver iterations at SEAICE_monFreq interval.
76      - modify solver to deal cleanly with u/v switch at face edges (CS-grid):
77        * identical results with non-CS topology (but save up to half of EXCH calls)
78        * no much changes in cs-32 verification tests since no ice at face edges
79         (differences due to convergence criteria, since nb of iterations changed)
80        * expect some differences on lat-lon-cap grid.
81        update FWD results of global_ocean.cs32x15 test exp. (icedyn & seaice)
82    o pkg/exch2:
83      - add new CPP option to disable Cumul-Sum matrix (to save storage when using
84        many tiles); until alternative coding is added, just add a stop.
85    o pkg/kpp:
86      - move ptracer/salt correction to KPP diffusivity from calc_3d_diffusivity.F
87        to S/R KPP_CALC_DIFF_PTR (+ add tracer-index to argument list).
88    o optfiles:
89      - merged few MPI specific (*+mpi*) and multi-threads specific (*+mth) optfiles
90        into corresponding standard one, which now support different build:
91        (when using "genmake2 -mpi" for MPI built, "genmake2 -omp" for OpenMP built)
92      - add "darwin_amd64_gfortran" optfile (initially from Constantinos, tested by Gael)
93    o pkg/obcs (seaice):
94      - add missing EXCH for uIce,vIce after applying OBCS;
95      - remove S/R EXF_SWAPFFIELDS_X/Y , disable S/R EXF_SET_OBCS_X/Y by adding
96        argument = number of levels to S/R EXF_SWAPFFIELDS_XZ/YZ and S/R
97        EXF_SET_OBCS_XZ/YZ ; update obcs_exf_load.F;
98      - fix EXF_SET_OBCS_XZ/YZ for multi-threaded (assuming loaded arrays are shared)
99      - verification exp. seaice_obcs: split domain in 2 tiles ; add SIZE.h_mpi
100        and eedata.mth for MPI and mutlti-threaded testing.
101    o pkg/flt:
102      - make FLT EXCH working with multi-threads (and MPI + multi-threads);
103      - use buffer for floats IO (trajectories & profiles); size set in FLT_SIZE.h;
104      - fix pickup and trajectories + profiles output with multi-threads;
105      - add parameter to select group of fields to write along trajectory and
106        profile (default unchanged);
107      - only call PORT_RAND* function when flt_noise <> 0;
108      - add multi-threaded test for verification exp. flt_example.
109    o eesupp/src:
110      - fix S/R ALL_PROC_DIE for MPI+multi-threads.
111      - USE_OMP_THREADING: check that number of threads (from eedata) matches
112        actual number (from env.var. setting).
113    o pkg/ebm:
114      - fix multi-threading in ebm_area_t.F ; clean-up EBM.h header file.
115      - add multi-threaded test for verification exp. global_ocean_ebm
116    
117    checkpoint63b (2011/08/29)
118    o pkg/ebm:
119      - fix sign of runoff;
120      - update directly forcing fields (Qnet,EmPmR) to use standard
121        external_forcing_surf.F (remove ebm_forcing_surf.F);
122      - avoid loading forcing fields a 2nd time (1rst time from ini_forcing.F);
123      - set either tauThetaClimRelax (in data) or tauThetaZonRelax (in data.ebm)
124        and apply relaxation towards corresponding SST field (2-D map or ZonAver).
125      - update global_ocean_ebm parameters file data and update output (fwd+ad).
126    o verification/matrix_example:
127      - split domain in 8 tiles (2x4); add SIZE.h_mpi and eedata.mth for
128        MPI and mutlti-threaded testing.
129    o pkg/matrix:
130      - change name of S/R MATRIX_INIT to S/R MATRIX_INIT_VARIA ;
131      - fix for multi-tiles (add bi,bj indices to exp/impMatrixCounter);
132      - fix for multi-threaded (remove DATA statement);
133      - use standard DIFFERENT_MULTIPLE function;
134      - add MATRIX_OPTIONS.h
135    o verification/matrix_example:
136       To allow to split the domain in several tiles, change the domain size
137        from 31x31 to 32x32 by adding 1 row (on Southern side) + 1 column (on
138        Western side) of land points.
139    o (*_)write_pickup:
140      - fix few bugs in mypackage_read/write_pickup.F
141      - in MDS_WR_METAFILES calls, replace "myTime" by a local copy into
142        array of length 1 (was caught by compiler syntax-check).
143    o pkg/diagnostics (velocity potential solver):
144      - fix initialisation of main diagonal matrix (for overlap values)
145    o tools/build_options:
146      - towards single optfile for MPI and non-MPI built: merge few +mpi optfile
147        into previously non MPI one (linux_am64 pgf77,open64,pathf90,ifort11)
148      - linux_amd64_gfortran: merge +mpi_generic version into standard optfile:
149        * move IEEE flags to DEVEL section; take IEEE flags from +mpi_generic ;
150        * FAST case: for now, keep -O3 with ini_masks_etc.F in NOOPTFILES list;
151        and use "-devel" testreport option for standard testing on baudelaire.
152    o pkg/grdchk:
153      - Assume that all gradient-check position are within the same tile
154        corresponding to global indices (iGloTile,jGloTile) and that
155        positions (i,j indices or nbeg) are local to this tile;
156      - set tile local-indices and proc. number according to tile global-indices;
157      - remove grdchkwhichproc from namelist (retired param);
158      - send adjoint gradient to all procs so that all procs print it to STDOUT;
159      - switch on MPI test for global_ocean.90x40x15 AD test experiment.
160  o adding package bbl (Bottom Boundary Layer)  o adding package bbl (Bottom Boundary Layer)
161    description in MITgcm/pkg/bbl/bbl_description.tex    description in MITgcm/pkg/bbl/bbl_description.tex
162    example/test experiment in MITgcm_contrib/bbl    example/test experiment in MITgcm_contrib/bbl
   
163  o adjoint verifications  o adjoint verifications
164    - changed 5 experiments to multi-threaded    - changed 5 experiments to multi-tiles
165      * global_ocean.90x40x15      * global_ocean.90x40x15
166      * obcs_ctrl      * obcs_ctrl
167      * offline_exf_seaice      * offline_exf_seaice
# Line 17  o adjoint verifications Line 169  o adjoint verifications
169      * tutorial_tracer_adjsens      * tutorial_tracer_adjsens
170      changed reference output for those that crossed tile boundaries      changed reference output for those that crossed tile boundaries
171      (changed choices of gradient check positions)      (changed choices of gradient check positions)
172      - with same tiling, switch on MPI test for the last 4 (add SIZE.h_mpi)
173    - temporary bug fix in grdchk_loc.F for obcs    - temporary bug fix in grdchk_loc.F for obcs
   
174  o genmake2 & testreport  o genmake2 & testreport
175    - add target "obj" (just for OBJFILES files) to Makefile;    - add target "obj" (just for OBJFILES files) to Makefile;
176    - add option to specify FEXTRAFLAGS on command line.    - add option to specify FEXTRAFLAGS on command line.
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