--- MITgcm/doc/tag-index	2006/10/19 06:54:23	1.734
+++ MITgcm/doc/tag-index	2006/12/30 22:15:37	1.762
@@ -1,8 +1,111 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.734 2006/10/19 06:54:23 dimitri Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.762 2006/12/30 22:15:37 jmc Exp $
 $Name:  $
 
     Notes on tags used in MITgcmUV
     ==============================
+
+checkpoint58t_post
+o pkg/diagnostics: fix multi-threaded output (when singleCpuIO=F)
+o pkg/mdsio:
+ - clean-up mdsio_readfield.F & mdsio_writefield_new.F and
+   move to new files: mdsio_read_field.F (S/R MDS_READ_FIELD) &
+   mdsio_write_field.F (S/R MDS_WRITE_FIELD);
+ - fix multi-threaded singleCpuIO option in MDS_WRITE_FIELD
+ - collect old S/R  in one file: mdsio_rw_field.F (now just a call to
+   either MDS_READ_FIELD or MDS_WRITE_FIELD )
+ - new S/R (to replace MDSWRITEMETA), which allows to write more
+   informations (variable names, time ...) to meta files.
+ - modify rdmds.m to give back the meta file content.
+o pkg/diagnostics: change vertical interpolation to be safer, and more
+   flexible (define p-levels to interpolate to in data.diagnostics);
+  add argument to S/R DIAGNOSTICS_GET_POINTERS to catch the right 
+   diagnostic pointer.
+o pkg/seaice: more cleaning up of seaice_growth, added many comments
+o pkg/exf: put runoff0 and runoff into the appropriate common block
+o fix multi-category seaice:
+ - change cpp flag SEAICE_MULTILEVEL to more meaningful name: 
+   SEAICE_MULTICATEGORY
+ - fix short wave heat flux
+o pkg/seaice: change default (SEAICE_OPTIONS.h): use C-grid dynamics
+   and allow to use EVP solver. Change forward lab_sea: test both EVP 
+   solver and LSR solver, and use C-grid dynamics (like lab_sea adjoint)
+o Initial check-in of lab_sea adjoint
+  (very similar to natl_box_adjoint/code_seaice)
+  * used C-grid and EVP solver
+  * used KPP, GM/Redi
+  * uses inAdExact=.TRUE.
+  * gradient checks fail for both ADM and TLM
+    due to sensitive snow melt code in seaice_grwoth (look for "JZ")
+    f.d. gradients actually seem more problematic than ADM, TLM gradients;
+    issue is related to forward mismatch between g77 an ifort
+o pkg/seaice: overhaul of thermodynamics
+ - growth.F and groatb.F are replaced by new routine seaice_growth.F
+ - budget.F is replaced by two new routines seaice_budget_ocean/ice.F
+ - move a few global fields out of SEAICE.h into seaice_growth.F and
+   make them 2D (FICE/QNETO/ ...)
+ - remove FO (it is the same as QNETO)
+ - introduce a few local fields to avoid modifying external fields such
+   as atemp, etc.
+
+checkpoint58s_post
+o pkg/exf: moved exf_init_runoff.F to exf_init.F and exf_set_gen.F
+  changed exf_set_gen.F so that
+    genperiod=0 means input file is one time-constant field and
+    genperiod=-12 means input file contains 12 monthly means
+o CG2D: use pre-computed solver main-diagonal (stored in common block);
+  this affects truncation error ; generate new output file for exp. which
+  fails: exp4(12d), fizhi-cs-aqualev20(12d), front_relax(10d),
+    global_ocean.90x40x15(10d), global_ocean.cs32x15(10d).thsice(11d).viscA4(10d),
+    ideal_2D_oce(10d), internal_wave(09d), isomip.htd(11d), matrix_example(07d),
+    MLAdjust(4x11d,12d), natl_box(11d), rotating_tank(12d),
+    tutorial_global_oce_in_p(10d), tutorial_plume_on_slope(11d),
+    vermix(12d).ggl90(12d).my82(11d).opps(12d).pp81(11d)
+o start implementation of deep-atmosphere and anelastic formulation
+o verification: remove 2nd copy of input files and use script "prepare_run"
+  to make a symbolic link to the 1rst copy (reduce downloaded size by ~81.M)
+o mom_common/vecinv/fluxform: fix a few initialisation isssues
+o profiles: fix for multithreaded case
+
+o diagnostics: rename few diags:
+  s/'PRESSURE'/'RCENTER '/g
+  s/'TICE    '/'oceFreez'/g
+  s/'TAUX    '/'oceTAUX '/g
+  s/'TAUY    '/'oceTAUY '/g
+  s/'SWFLUX  '/'oceQsw  '/g
+  s/DIFx/DFxE/g
+  s/DIFy/DFyE/g
+  and add few ocean-forcing diagnostics:
+  atmPload, sIceLoad, oceQnet, oceFWflx, oceSflux, surForcT & surForcS
+o modifications to pkg/seaice/growth.F and budget.F, which change results of
+  lab_sea experiment: HSNOW was sometimes treated as effective and sometimes
+  as actual snow thickness.  It now refers everywhere to effective snow
+  thickness, meaning that for non-zero AREA, actual thickness is HEFF/AREA.
+
+checkpoint58r_post
+o modifications to pkg/seaice/growth.F, which change results of
+  lab_sea experiment: fixes pertain to melting snow over open water, to
+  masking EVAP under sea ice, and to using the correct AREA variable for
+  computations of EVAP, PRECIP, HSNOW, and GHEFF
+o add ability to read bathy, salt, and theta using MNC (off by def)
+o add flooding algorithm and advection of HSNOW for pkg/seaice;
+  both are turned off by default and do no change any results
+o seaice advection with pkg/thsice: a step toward the use of non-linear 
+  advection scheme, but #ifdef or commented out for now (requires more EXCH).
+o use standard version of PTRACERS_INI_VARIA in tutorial_tracer_adjsens
+  (identical results) and the standard version of EXTERNAL_FIELDS_LOAD
+  in natl_box (affects results @ truncation level: update output.txt)
+o multi-threading and IO:
+  - replace some call to MDSIO S/R by the corresponding READ/WRITE_FLD S/R.
+  - remove most of BEGIN_MASTER/ END_MASTER around READ/WRITE_FLD S/R calls
+    (needed to work with SingleCpuIO): tested in all verif. exp.
+o GAD: use simpler DST3 formulation as default (old version left within #ifdef)
+  affects the results (but none of the verification test uses this scheme).
+o Adding some pkg/diagnostics capability to pkg/seaice
+  (will certainly be subject to changes)
+o ctrl: adding new control variables:
+  lwflux, lwdown, evap, snowprecip, apressure, runoff
+
+checkpoint58q_post
 o added CPP_EEOPTIONS.h flag DISABLE_MPI_READY_TO_RECEIVE.  Speeds up
   1/6-deg Southern Ocean configuration by 8% on IBM Datastar and
   high_res_cube configuration by 4% on Columbia.