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revision 1.393 by edhill, Tue Nov 23 21:25:24 2004 UTC revision 1.427 by dimitri, Wed Dec 22 07:27:07 2004 UTC
# Line 3  $Header$ Line 3  $Header$
3      Notes on tags used in MITgcmUV      Notes on tags used in MITgcmUV
4      ==============================      ==============================
5    
6    o mdsio_readfield.F can now read files visible only to master MPI process.
7    o pkg/seaice: some test code for ice-modified ocean stress
8    o exf_getffields interpolation defaults to bilinear for all scalar forcing
9      fields (remains bicubic for wind velocity and stress).  This avoids, e.g.,
10      spurious negative numbers for precipitation and humidity.  Will cause
11      some small numerical differences for integrations using pkg/exf/exf_interp.F.
12    
13    checkpoint57b_post
14    o simplify options in diagnostics_fill arguments (remove weird combinations)
15    o fix MNC coordinate variables so that they now contain per-face index
16      values (instead of xC,xG,yC,yG values) when run with EXCH2 since, in
17      general, EXCH2 grids are only aligned to a "local" coordinate system
18    o test diagnostics pkg in dic_example (no output) and ideal_2D_oce (with ouput)
19    o Implement instantaneous output within pkg diagnostics:
20      setting a negative frequency in data.diagnostics produces
21     "snap-shot" output (as opposed to time-average if freq > 0)
22    o move out off EQUIVALENCE all diagnostics that fizhi does not use ;
23      NOTE: change ptracer diagnostics name: use 2 characters to work with
24            more than 9 tracers. Add also diagnostics of advect & diffus flux.
25    o more CF compliance: convert all MNC 'iter' variables to 'T' so that it
26      becomes the coordinate variable for the 'T' dimension
27    o add CF-style coordinate variables to MNC
28      - just a first cut:  numbers are meaningless on the cubesphere and
29        missing along the T axis but otherwise it works!
30    o add surface flux diagnostics: TAUX, TAUY, TFLUX, TRELAX, TICE, SFLUX, SRELAX
31    o pkg/thSIce: read initial state from 6 files ; allow monitor to use MNC.
32    o add diagnostics of advective & diffusive flux for T & S (pTracers coming soon)
33      this is based directly on what the model compute, so that the content of
34      each diagnostics might be affected by switching options (e.g., implicitDiffusion)
35    o small changes for diagnostics (gad_biharm_?.F, arguments of S/R impldiff.F)
36    o clean up build options files for SunOS, in particular
37      - remove -traditional from xmakedepend
38      - change -xarch=v9 to -xarch=native for f77
39      - restore use of make (not gmake)
40      - add CC=gcc if using g77
41    o changes per discussion of AM, JMC, & EH3 today:
42      - move redundant "grid" variables out of "state" -- in preparation of
43        creating proper CF-style coordinate variables and in recognition
44        that any/all grid variables can be easily copied (eg. w/NCO) from
45        the grid files into any of the other NetCDF files
46      - *always* output grid variables with MDSIO (this will eventually be
47        changed)
48      - output MNC grid file if useMNC is true
49    o every instance of _END_MASTER() has been found and replaced with
50      _END_MASTER( myThid ) in order to satisfy certain picky Sun
51      preprocessors
52    o re-arrange diagnostics pkg initialisation:
53     - allow each package to extend the available diagnostics list
54     - add some checking and fix small problems (multi-threaded, ...)
55     - new S/R diagnostics_fill (replace fill_diagnostics):
56       look through the short list of active diag. (instead of the long list)
57       create function DIAGNOSTICS_IS_ON to tell if a diagnostics is active
58    
59    checkpoint57a_post
60    o this set of changes restores TAMC compatibility
61      tested for global_ocean.90x40x15 adjoint on trough
62      (what a pain)
63    
64    checkpoint57a_pre
65    o some modifs in tools/build_options for sunos
66    o call ctrl_pack for ctrl at end for optimcycle=0
67    
68    checkpoint57
69    o add horizontal bi-harmonic viscosity for vertical velocity
70      - new parameter viscA4W (defaults to viscA4)
71      - affects only non-hydrostatic code
72      - to be done: no-slip lateral boundary conditions
73    o switch back to "sflux = sflux - runoff" in exf_getforcing.F
74    o implement Implicit Vertical advection for pTracers
75    o depth convergence accelerator: replace deltaTtracer by dTtracerLev(k)
76      (implemented also for implicit vertical diffusion & advection)
77    o OBCS: extend application of tracer open boundary conditions
78      to a strip beyond the boundary of width Olx/Oly
79    o add call monitor to TAF set of required calls (flow directives)
80      and include in natl_box_adjoint
81    o untangle a few ifdefs related to cost, ctrl, autodiff
82      untangel a few ALLOW_ECCO_OPTIMIZATION
83    o Apply Cooper & Haines representative estimates also at sub-surface (k=Nr)
84      (theta2, salt2 in ecco_cost_weights)
85    
86    checkpoint56c_post
87    o OBCS as control variables
88      - update ctrl_ad_diff.list, obcs_ad_diff.list
89      - remove balance of obcs controls from default
90      - fix index bug nobcs in ctrl_init
91      - fix dummy fields filen in ctrl_pack
92      - add dummy weights for obcs
93    o lsopt: comment out fort.94 output
94    o optim:
95      - remove unnecessary header files
96      - adjusted namelists
97      - add xerbla.F to Makefile
98    o exf:
99      - multiple modifications of exf_check_range
100      - unit change in exf_init_runoff from [m/year] to [m/s]
101    o mdsio:
102      - i/o-vector change debugLevel from debLevA to debLevB
103    
104    checkpoint56b_post
105    o collect all ptracers output in an new routine (PTRACERS_OUTPUT) that
106      is called from DO_THE_MODEL_IO
107      - rename PTRACERS_STATV_WRITE to PTRACERS_WRITE_TIMEAVE
108      - introduce new parameter PTRACERS_dumpFreq (defaults to dumpFreq)
109      - clean up PTRACERS_WRITE_TIMEAVE a little
110    o add another verification experiment that tests both the cfc-pkg and
111      the gchem-pkg with GCHEM_SEPARATE_FORCING undefined, that is with
112      reactive tendencies treated inline with regular timestepping
113    o testreport previously did a lousy job of comparing small numbers, so
114      we (Ed and Martin) changed the  way the cut-off of 1.e-12 is
115      implemented in the little c-progam tmp_cmpnum.c which is embedded in
116      testreport.
117    o ptracers_monitor: bug fix for MPI
118    
119    checkpoint56a_post
120    o GCHEM: finish reorganizating the package
121      - forward_step calls GCHEM_CALC_TENDENDY, which computes gchemTendency
122        (introduces another 3D-array for each passive tracer, but only if
123        GCHEM_SEPARATE_FORCING is undefined. For GCHEM_SEPARATE_FORCING
124        gchemTendency is not needed because the timestep is done separately)
125      - gchemTendency is added to gPtr in GCHEM_ADD_TENDENCY
126      - GCHEM is now---more or less cleanly---separate from PTRACERS
127      - to bo done: handling of surfaceForcingPtr that is needed for KPP not
128        so clear to me how that should be done in a general way.
129    o CFC: improve formatting of output in CFC_ATMOS
130    o PTRACERS:
131      - rename GCHEM_MONITOR to PTRACERS_MONITOR and call it from MONITOR, so
132        that ALL experiments with ptracers enable can be checked. This makes
133        GCHEM_MONITOR obsolete.
134      - include a runtime parameter PTRACERS_monitorFreq that defaults to
135        monitorFreq
136      - set default PTRACERS_write_mdsio to false if PTRACERS_write_mnc is true
137  o add PTRACERS (PTR0[1-5]) to testreport output  o add PTRACERS (PTR0[1-5]) to testreport output
138  o exf_check_range:  o exf_check_range:
139    * default changed to .TRUE.    * default changed to .TRUE.
# Line 25  o GCHEM: Line 156  o GCHEM:
156      be replaced by a 3D array that is computed before thermodynamics; for      be replaced by a 3D array that is computed before thermodynamics; for
157      this, the tracer ID iTracer had to be included into the parameter list      this, the tracer ID iTracer had to be included into the parameter list
158      of ptracers_forcing      of ptracers_forcing
159    - set up forward_step for a call to gchem_forcing, that will replace    - set up forward_step to call gchem_forcing, that will replace
160      gchem_forcing_int in ptracers_forcing      gchem_forcing_int in ptracers_forcing
161    - cleaning up    - cleaning up
162  o small cleaning of exch2: remove files that are also in eesupp/src  o small cleaning of exch2: remove files that are also in eesupp/src
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