--- MITgcm/doc/tag-index	2009/06/02 15:01:00	1.1115
+++ MITgcm/doc/tag-index	2009/06/26 16:19:12	1.1133
@@ -1,10 +1,73 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.1115 2009/06/02 15:01:00 mlosch Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.1133 2009/06/26 16:19:12 jmc Exp $
 $Name:  $
 
     Notes on tags used in MITgcmUV
     ==============================
 
+o build_options: ifort+mpi_aces optfile (following Constantinos advise):
+  allow different versions of ifort (8 or 9) and different versions
+   of mpi (mpich or mpich2) to be used with the same optfile.
+  requires to load a netcdf module and set MPI_INC_DIR (see comments inside
+   optfile). Change testing scripts (example_scripts/ACESgrid) accordingly.
+
+checkpoint61r
+o pkg/seaice: 
+ - clean up the 3-time levels of UICE,VICE,HEFF,AREA in three steps:
+  1. introduce fields for time step (N-1)
+  2. do not use levels 2 and 3 anymore (but keep them)
+  3. replace 3D versions of UICE,VICE,HEFF,AREA by 2D versions. This 
+     includes changes to pkg/thsice/thsice_get_velocity.F, 
+     model/src/external_forcing_surf.F, pkg/obcs/obcs_apply_seaice.F, and
+     pkg/obcs/obcs_apply_uvice.F.
+ - completely remove code for leap-frog time stepping for second order
+   advection
+ - adjusted adjoint accordingly;
+   gradient checks have improved by an order of magnitude!
+ 
+checkpoint61q
+o pkg/seaice: fix bug in free slip boundary conditons for LSOR solver
+ - the boundary conditions along open boundaries are unclear, because the
+   associated masks are set to zero and are thus treated as closed when
+   applying the slip-boundary conditions.
+ - move initialisation of grid variables from seaice_init_varia to _fixed
+o adding doc/diags_changes.txt
+o model/src: 
+  do_the_model_io: rename few pkg S/R which are called from do_the_model_io, 
+   to avoid "_diags" naming if no relation to pkg/diagnostics.
+  ini_theta,ini_salt: fix (at least compile the code) reading from NetCDF 
+   file and only call PLOT_FIELD_XYZ if debugMode=T.
+  remove few PLOT_FIELD_XY calls outside initialisation.
+  remove few unnecessary BARRIER.
+o pkg/salt_plume: add SaltPlumeSouthernOcean to allow disabling
+  of salt_plume package in Southern Ocean 
+o pkg/thsice: 
+ - fix hOceMxL in overlap (needed for sea-ice advection); 
+   update output of experiment global_ocean.cs32x15.icedyn.
+o pkg/seaice: 
+ - make the (placeholder-)tracer IceAge a little more meaningful
+  by avoiding ridging of age due to convergent ice flow
+ - add diagnostics for surface temperature, atmospheric and oceanic
+   heat flux, and atmospheric and oceanic ice growth
+
+checkpoint61p
+o eesupp (global_max & global_sum):
+ - add one more element to buffer (start at index 0) for GL_MAX/SUM output;
+ - remove starting & endding barrier (no longer needed)
+o pkg/mdsio, writelocal:
+   works also in multi-threaded when LOCBIN_IO_THREAD_SAFE is undefined
+   (remove the STOP): uses shared buffer IO to store data from all threads
+   and then let master-thread write nThreads tiles.
+o pkg/mdsio (read/write field):
+ - tiled IO done in 1 piece (all levels at a time);
+ - new header file "MDSIO_BUFF_3D.h" with 3-D buffers.
+ - multi-threaded: allow to read/write local (non-shared) array
+   (was already working with singleCpuIO ; now works also without);
+   => no longer needs barrier call after reading a file (added inside
+   mds_read/write field).
+ - move barrier calls outside gather/scatter_2d to mds_read/write_field
 o pkg/obcs/exf
+  - exf_getffieldrec.F: add a few ". _d 0" and 
+                        add code to catch the case fldperiod = 0.  
   - obcs_precribe_read.F: change if statements so that they match 
                           the variable type (_RL)
   - add a separate exf_iprec_obcs to exf_set_obcs (by default equal to 
@@ -23,7 +86,9 @@
   - implement EXCH_IGNORE_CORNERS in scalar exchange (rx1);
     remove 2nd exch call in exch2_s3d_rx (no longer needed).
   - document S/R arg. list (+ update some comments)
-o pkg/seaice: 
+o pkg/seaice:
+  - added SEAICE_CLIM_AIR code, which permits modulation of surface air
+    temperature and humidity over sea ice based on climatological values.
   - clean up computation of Hibler+Bryan (1987) stress coupling for the case
     of LSR (this change is expected to change the results slightly because now 
     it uses slightly difference moduli from the second last LSR solution, but