--- MITgcm/doc/tag-index	2004/04/18 22:31:33	1.279
+++ MITgcm/doc/tag-index	2004/07/02 17:59:46	1.319
@@ -1,8 +1,144 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.279 2004/04/18 22:31:33 jmc Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.319 2004/07/02 17:59:46 heimbach Exp $
 
     Notes on tags used in MITgcmUV
     ==============================
 
+checkpoint54
+checkpoint53g_post
+o prepare splitting of thermodynamics: store convect.counter in common block
+o store d.etaH/dt (instead of Div.hV) in common ; affects (truncation error)
+  output of: global_ocean.cs32x15, global_ocean_pressure & internal_wave
+o cnh's modifs to gad_advection.F for cube-sphere multi-dim advection
+o new parameter "nShapS": allow to treat differently S from T (nShapT)
+o separate Vert.Advec.Scheme from horizontal Advec.Scheme (T & S)
+o restore adjointability
+
+checkpoint53f_post
+o modifications that affect AIM experiment results (update output.txt):
+  - no advection of S at top interface Nr (pkg/generic_advdiff) 
+  - air surf. temp: use lower value between T0 & T1 (phy_suflux_prep.F)
+o AIM pkg:
+  - include stability function into surf.Flux derivative relative to Tsurf
+  - calculate clear-sky radiation & surface temp. change (for diagnostics)
+ 
+checkpoint53e_post
+o merged cylindrical coord configuration
+o added rotating_tank experiment
+checkpoint53e_pre
+
+checkpoint53d_post
+o faulks upgraded: re-generate output.txt that have changed:
+   global_ocean.cs32x15(.thsice), global_ocean_ebm, lab_sea, natl_box
+o Added Bryan and Lewis, 1979, vertical diffusivity profile
+o pkg/land: fix problem in land_impl_temp.F when Ts arround freezing. 
+o added Sadourny discretization of Coriolis
+  - moved some PARAMETERS from mom_*_coriolis.F to PARAMS.h
+  - re-enabled use of omega3 (useAbsVorticity)
+o added Leith (Phys. Fluids, 1968, 10, 1409-1416) variable viscosity for
+  vector-invariant equations
+  - note: does *NOT* yet use same variable visc. for no-slip BC's.
+o recoded the lateral boundary conditions for non-hydrostatic w, this time
+  hopefully without new bugs
+  - still to do: biharmonic friction for non-hydrostatic w
+o bug fix for mom_*_sidedrag: rA -> rAs,rAw
+o regenerated output for global_ocean_ebm (using -ieee)
+o fix mom_common/mom_*_sidedrag.F to recover numeric output prior to creation
+  of mom_common/
+  - simple re-arrangement of instructions within computing loop
+checkpoint53d_pre
+
+checkpoint53c_post
+o new version of coupler for AIM+thSIce and Ocean models
+ - new fields (SSS,h_MixLayer ...) are exchanged through the coupler
+ - land: change Evaporation of snow
+ - aim with thSIce: fix bug in snow-precip.
+o changes to calc_gw.F
+ - bug fix for w^2 term near the bottom boundary
+ - (hopefully) improve the lateral slip boundary condtions for use with
+    partial/looped cells
+  - because the bug fix changes two verification experiments anyway (exp5
+    and plume on slope), change the lateral boundary condition from half slip
+    to the value of no_slip_sides
+o ebm package wasnt quite up to the parallel task. Fixed that.
+o Adjoint of EBM package + verification
+  * TLM OK
+  * ADM not sufficient accuracy yet (needs further testing)
+
+checkpoint53b_post
+o Commiting new energy balance model to repository
+  * package is pkg/ebm
+  * verif. is verification/global_ocean_ebm
+  * references are in ebm_driver.F
+C      * X. Wang, P. Stone and J. Marotzke, 1999:
+C        Global thermohaline circulation. Part I:
+C        Sensitivity to atmospheric moisture transport.
+C        J. Climate 12(1), 71-82
+C      * X. Wang, P. Stone and J. Marotzke, 1999:
+C        Global thermohaline circulation. Part II:
+C        Sensitivity with interactive transport.
+C        J. Climate 12(1), 83-91
+C      * M. Nakamura, P. Stone and J. Marotzke, 1994:
+C        Destabilization of the thermohaline circulation
+C        by atmospheric eddy transports.
+C        J. Climate 7(12), 1870-1882
+o Will need long integration testing.
+checkpoint53b_pre
+
+o created pkg/mom_common in preparation for variable viscosity code
+o renamed and split ini_mnc_io
+o pkg/land: only liquid water can diffuse or run-off
+o AIM using land: soil wetness availability account for snow
+o added printMapIncludesZeros to EEPARMS namelist
+
+checkpoint53a_post
+o restore TAMC compatiility for exf_constants.h
+  (no usage of _d in .h)
+o Additional storing in KPP in an attempt to fix
+  TAMC problem with adjoint of KPP code.
+  (no success...)
+  Identical code works fine with TAF.
+o Fixed verification/natl_box_adjoint experiments.
+  Initial conditions for Experiments 4 and 5 are now
+  set to "SEAICE_initialHEFF=0", which is more reasonable,
+  and hence gives results closer to that of Experiment 2.
+  Experiment 6 requires "SEAICE_initialHEFF=1" and is working once again.
+
+checkpoint53
+o stable checkpoint with up to date adjoint
+  TLM tests only run for 1st grdchk at the moment. Its unclear if
+  this is a code problem or a problem with resetting code for g_
+  variables that is being autogenerated wrong.
+  Otherwise:
+   o code is testing well on Linux (P4 and AMD), SGI Alitix and Irix. 
+   o IBM and HPQ tests could not be run because NCAR (IBM) and NCCS (HPQ) 
+     are both still in chaos following their security messes.
+
+checkpoint52n_post
+o various build (mostly genmake2) changes including:
+  - ability to build/run more easily within Cygwin and MacOS X
+  - more complicated Makefiles with a stronger dependence on Gnu Make
+o pkg/seaice modifications
+  - added SEAICE_deltaTtherm and SEAICE_deltaTdyn in order to reduce cost
+    of pkg/seaice.  For time being, SEAICE_deltaTtherm = deltaTtracer
+    and SEAICE_deltaTdyn must be integer multiple of SEAICE_deltaTtherm
+  - changed proxy for geostrophic velocity and updated 
+    verification/lab_sea/results/* accordingly
+  - removed ADI dynamic solver from pkg/seaice
+  - replaced all occurrences of 1/CSTICE or 1/CSUICE
+    they caused a segmentation fault under certain circumstances
+  - removed unused field WATR
+o bug fix in exf-package:
+  -  u/vwind are defined at tracer/pressure points. The values of u/vwindmask
+     now reflect that.
+o small fixes in the cal-package:
+  - set reference date to first of January for the 'model'-calendar
+  - failing of cal_CheckDate in cal_FullDate now actually results in a
+    warning
+o small modifications in exf-package to increase flexibility:
+  - change climtempfreeze from a constant to a runtime parameter that
+    is specified in data.exf_clim (default = -1.9)
+  - introduce runtime parameter windstressmax (default = 2.0) that is
+    specified in data.exf
 o fix in pkg/thsice:
   - update Evap (Tsf changes) to be consistent with Latent heat flux
   - maintain snow precipitation unchanged (even if Tsf >=0).