--- MITgcm/doc/tag-index	2009/02/12 07:53:34	1.1064
+++ MITgcm/doc/tag-index	2009/04/29 00:04:57	1.1092
@@ -1,14 +1,146 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.1064 2009/02/12 07:53:34 mlosch Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.1092 2009/04/29 00:04:57 jmc Exp $
 $Name:  $
 
     Notes on tags used in MITgcmUV
     ==============================
 
-o model/src/ini_curvilinear_grid.F: check in hack for SX8 compiler
-  to make sure that recip_dxV and recip_dyU are never zero, until we 
-  have a proper exchange for them. Most compilers do not seem
-  to mind divisions by zero in the overlaps, as long as the results are
-  not used anywhere, but sxf90 does. 
+o write_utils : change WRITE_1D_R8 to WRITE_1D_RL 
+  and add 3 other S/R for other types (R4,R8,RS). 
+  Change calls to WRITE_0D/1D_R[4,8,S,L] to match the type of argument.
+o eesupp/inc/CPP_EEMACROS.h (EXCH & GLOBAL_SUM/MAX macros):
+ - ensure suffix (_R4,_R8,_RS,_RL) correspondance between macro and S/R ;
+ - reduce number of macro definitions (keep only those which are used);
+   can always call directly the corrresponding S/R if needed.
+ - everywhere in the code: change macros (EXCH & GLOBAL_SUM/MAX) suffix 
+   _R4/_R8 to _RS/_RL when applied to _RS/_RL variable.
+ Fixed wrong type of arg in:
+   atm2d/put_ocnvars.F cheapaml/cheapaml.F ocn_compon_interf/ocn_apply_import.F 
+   ctrl/ctrl_map_ini_ecco.F seaice/seaice_do_diags.F seaice/seaice_model.F
+ To fix: global_sum of var in common block is wrong (multi-threaded) in:
+   dic/dic_atmos.F ebm/ebm_area_t.F ebm/ebm_zonalmean.F sbo/sbo_calc.F
+ To fix: aim_v23/aim_do_co2.F (BARRIER & GLOBAL_SUM within bi,bj loops)
+o adjustment.cs-32x32x1: test "blank tiles" when compiling with mpi
+o eesupp/src: new S/R to stop everyone when 1 (or more) Proc. find an error
+o pkg/exch2: new S/R EXCH2_CHECK_DEPTHS to check that unconnected tile
+  edges are closed (zero depth); might happen with "blank tiles";
+  for now, disable if using OBCS.
+o tools/gemake2: delete modifs from March 27-29 2009 (with option "-mpi":
+  link *_mpi files from "MODS" dir) to return to a strait-forward behavior.
+o move read_write.F to write_utils.F ; new parameter (maxLengthPrt1D)
+  to reduce length of 1.D array print in STDOUT.
+o adjustment.cs-32x32x1: changed to oceanic test with 1 continent
+  + use 48 tiles (16x8): this will allow to test "blank tiles".
+o start to test MPI + multi-threaded (change testreport to skip tests
+  where number of tiles do not match).
+o genmake2: add option "-omp" to turn on Open-MP ;
+  passed to testreport (if using -mth) ; merge few (*+mth) optfiles.
+o pkg/exch2 (+ utils/exch2): ignore blank tiles (instead of removing them)
+  and keep the original tile numbering. Note: compatible with old
+  W2_EXCH2_TOPOLOGY.h & w2_e2setup.F topology files.
+
+checkpoint61l
+o Overlaps had been forgotten in calculating ijk keys : fixed
+o fix cyrus makedepend for gcc 4.4
+o experiment fizhi-cs-aqualev20:
+  switching to new version of S/R GETPWHERE (#define TRY_NEW_GETPWHERE)
+  and generate new output. Note: new output is much closer to the old
+  one (v1.8) generated with pgf77 -O2 on Mar 14 2007 than it is from
+  the previous one (v1.9) generated with pgf77 -O0 on Jun 13 2007.
+o pkg/fizhi:
+ - change to avoid indices going deliberately over array-bounds
+ - remove unnecessary MPI stuff
+ - perpetual spring equinox with "#define FIZHI_USE_FIXED_DAY"
+ - new version of S/R GETPWHERE available with #define TRY_NEW_GETPWHERE:
+   does not go over array-bounds and therefore returns reliable output.
+ - in fizhi_driver.F & fizhi_turb.F, fix "get_alarm" calls:
+   this S/R has 4 output arguments, which are used inside "get_alarm";
+   when it is called with the same variable "ndum" in place of several
+   output arguments, this produces weird side effect inside "get_alarm"
+  (e.g., datein=dates(n) is overwritten by timein=times(n) since both
+   datein & timein, resp. 2nd and 3rd arg., are pointed to the same "ndum"
+   address) and produces error.
+o tools/gemake2: (March 27-29 2009)
+  with option "-mpi": link *_mpi files from "MODS" dir (this is what 
+  testreport does).
+o lab_sea experiment: change from 2x1 tiles to 2x2 tiles and regenerate output
+o pkg/seaice: fix bug in new version of S/R SEAICE_LSR.F:
+   update lab_sea.lsr & lab_sea.salt_plume results
+o pkg/seaice: 
+  Major overhaul of the LSOR solver: change discretization from original
+  finite differences to finite volume. The old routine is still in the
+  file seaice_lsr.F and can be turned on with the CPP-flag
+  SEAICE_OLD_AND_BAD_DISCRETIZATION
+  Along with this change, the discretization of the strain rates is changed.
+  The same flag turns on the old discretization in seaice_calc_strainrates.F
+  All verification experiments with seaice are affected (except for 
+  seaice_exf_offline); global_ocean.cs32x15/input.icedyn recovers the old
+  results by setting the above flag.
+  Further changes involve changes in defaults:
+  - ALLOW_FLOODING is defined and turned on by default
+  - SEAICEadvSnow = .true. is now the default
+  - SEAICEadvSalt = .true. is now the default
+  - SEAICEadvAge  = .true. is now the default
+  - SEAICE_clipVelocities  = .false. is now the default 
+                                     (as per J. Zhang's recommendation)
+  - B-grid, and thus not tested: SEAICE_TEST_ICE_STRESS_1/EXPLICIT_SSH_SLOPE
+    is defined, SEAICE_TEST_ICE_STRESS_1 is renamed into SEAICE_BICE_STRESS
+  - seaice_growth: replace computation of UG by a simple copy from wspeed
+
+checkpoint61k
+o pkg/seaice: a few bug fixes mostly concerning the metric terms:
+  seaice_lsr: fixed a few metric terms,
+              affects lab_sea.lsr, lab_sea.salt_plume, seaice_obcs
+              add more debugging diagnostics
+  seaice_evp: removed superfluous many metric terms of FV discretization
+              of stress divergence
+              affects lab_sea, lab_sea.hb87
+  seaice_ocean_stress: removed superfluous many metric terms of FV discretization
+              of stress divergence for non-evp solver 
+              (this part is not tested anywhere)
+  seaice_calc_strainrates: fixed a bug in no-slip boundary conditions,
+              they were effectively only half slip
+              affects lab_sea.hb87
+  updated all relevant verification experiments (except lab_sea//output_adm.txt
+    which was left over, but fails at level 7 & 6)
+
+checkpoint61j
+o pkg/seaice: turn a few hard wired parameters into run time parameters
+o pkg/seaice/exf/monitor: turn netcdf coordinate variable T into model 
+  time in seconds as promised by the usints in seaice_monitor and exf_monitor
+o pkg/mnc: fix the coordinate variables for multi-tile curvi-linear grids
+  that are not cubed-sphere grids
+o pkg/seaice: fix a bug for the rare case of SEAICE_VECTORIZE_LSR
+o pkg/ctrl:
+  fix bug in ctrl_depth_ini.F (EXCH_XYZ was applied to 2-D field xx_r_low)
+o non-hydrostatic (calc_gw.F):
+  fix viscA4 on CS-grid + fix diagnostics: Wm_Diss & Wm_Advec
+  update output of exp. global_ocean.cs32x15.viscA4
+o remove backward compatibility for thetaMin,phiMin
+  (replaced by xgOrigin,ygOrigin on Jan 27, 2009)
+o pkg/exf: fix a serious bug in exf_set_uv.F: do a rotation of the 
+  interpolated wind field not only for curvilineargrid=.true., but also 
+  for a rotated grid (rotateGrid=.true.)
+o pkg/exf: add capability to bypass interpolation for runoff
+  by setting yet another CPP-flag
+o eesupp/src, B-grid exchange:
+  add simple (6 tiles, non MPI) CS exch + standard interface S/R.
+o autodiff
+  new CPP option ALLOW_TAMC_SINGLEPREC_COMLEV
+  allows to switch to single-prec common blocks;
+  corresponding switch occurs in tamc.h, integer isbyte
+  TAF store directivs "byte" and "kind" seem equivalent;
+  Most tamc.h have been updated correspondingly.
+
+checkpoint61i
+o autodiff:
+  fix autodiff_sore/_restore indices for obcs
+  (spotted by I. Hoteit, M. Mazloff)
+o pkg/autodiff, pkg/ctrl:
+  Add flag to reduce all tapelev I/O to single-prec. 
+  In data.ctrl set
+    doSinglePrecTapelev = .TRUE.
+o model/src/ini_curvilinear_grid.F, new grid-file format without EXCH2:
+  check in hack for SX8 compiler (for dxV, dyU); remove it afterwards.
 o pkg/shelfice: fix bug with SHELFICEconserve flag, prepare for 
   real fresh water flux (not yet)
 o pkg/mdsio & rw:
@@ -2354,7 +2486,7 @@
   - my82 (Mellor and Yamada, 1982) level 2 turbulence closure scheme
   - these scheme operate in a similar manner as KPP (without ghat, of 
     course), however there is only one diffusivity that is used for both
-    temperature and salinity (and passive tracers)ç
+    temperature and salinity (and passive tracers)
 o add offline package
 o add "verification/dic_example" which contains a dic-gchem-ptracer setup
   provided by Stephanie Dutkiewicz