--- MITgcm/doc/tag-index	2003/12/15 23:40:21	1.225
+++ MITgcm/doc/tag-index	2004/03/23 19:47:05	1.271
@@ -1,8 +1,132 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.225 2003/12/15 23:40:21 jmc Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.271 2004/03/23 19:47:05 heimbach Exp $
 
     Notes on tags used in MITgcmUV
     ==============================
+o MNC:
+  - make myThid the last argument for all subroutines
+  - new default for the grid files: NO halos
+  - add useMNC and other run-time flags
+  - separate per-file-group handling of the unlimited dimension
+  - early initialization of MNC w/ flags read at the eeboot stage 
+    and lookup tables set in initialize_fixed
+  - write all MNC output to a freshly-created directory
+o thermodynamics sea-ice (thsice) is now tested with testreport.
+o test exp. advect_cs: use the standard cs32 grid ; update output.
+o Added functionality to grdchk:
+  pick global i,j,k position (or nearest wet) where to perform check.
 
+checkpoint52l_post
+o new land formulation:
+  a) use ground enthalpy as prognostic variable to ensure exact
+     energy conservation.
+  b) account for water temperature and for latent heat of freezing
+     in all processes (rain, run-off, ground storage)
+  c) compute surface and ground temperature implicitly.
+o aim_v23 modification for new land model:
+  a) Treat separately land / ocean / sea-ice surface fluxes
+     to allow implicit computation of land & sea-ice surface temp.
+  b) add snow precipitation.
+checkpoint52l_pre
+
+o fix problem (when 1 tile is empty) in min/max monitor.
+o fix bug in timeAve (u,vZetatave in common block) 
+o no restoring terms under ice for pkg/seaice
+o moved SEAICE_DO_DIAGS to S/R do_the_model_io
+o bug fix for pkg/seaice pickups
+o change MNC call locations and add coordinate attributes
+o mask vorticity at the corner ; affects global_ocean.cs output
+o fix ini_curvilinear_grid ; test CS experiments with mpi
+o aim.5l_cs: modify sea-ice fraction input file ; update output
+o exf: Adding simple range check routine for exf fields after read
+
+checkpoint52k_post
+o removed top-level directory "diags"
+  - we migrated these functions to pkg/timeave a long time ago
+o fixed bug introduced in pkg/monitor
+o accuracy ctrlprec = 32 insuffient for gradient checks using
+  averaged fields (I/O via cost_averages)
+  -> use ctrl.h in active_file*.F to control I/O precision.
+o paramter list of CALL ADTHE_MAIN_LOOP
+o added initial do_the_model_io to ecco
+o set all ...Freq to zero after cost_final
+  taveFreq, dumpFreq, pChkptFreq
+o MAIN and ECCO differentiability restored
+
+checkpoint52j_post
+o fix nchklev in tamc.h for global_ocean...
+o Bringing flow and store directives up-to-date
+o Really weird thing!
+  call do_the_model_io from the_main_loop with parameters
+  starttime, niter0, instead of mytime, myiter, screws up the adjoint: 
+  TAF places a faulty re-call of initialise_varia
+  after cost_final call which should not be there!
+checkpoint52j_pre
+
+o tweaked pkg/mdsio/mdsio_readfield.F to have more useful logic and
+  error messages
+o fix errorMessageUnit problem. remove old version of mdsio from eesup/src
+o modified pkg/mdsio/mdsio_readfield.F -- commented out diskspace-eating
+  debug output
+o modfied mdsio_writefield.F to handle non-global files under exch2
+o update AIM Cubed-Sphere exp (aim.5l_cs):
+  use land, p*, and Franco.M forcing fields with fractional land-sea mask.
+o update AIM Equatorial Channel exp:
+  use standard aim_v23 pkg and change the SST fields to be more realistic.
+o globalFile now works with exch2
+o merged mom_vi_calc_relvort3.F, mom_vi_del2uv.F and 
+  mon_vort3.F to make exch2 friendly with >1 tile per cube face
+o limit timeave output for hi-res integrations
+
+checkpoint52i_post
+o removed CPP_EEOPTIONS.h from verification/*/code
+o updated the tiling for global_ocean_pressure
+checkpoint52i_pre
+
+o update aim.5l_LatLon using the standard aim_v23 pkg (instead of 
+  the old pkg/aim).
+
+checkpoint52h_pre
+o shortened offending lines in exch2_send_rx?.template
+o modified W2_EXCH2_TOPOLOGY.h to reflect current topology generator
+o genmake2: add build & execute test for NetCDF code
+o modded aim.5l_cs and global_ocean.cs32x15 to use exch2, removed
+  old grid files, moved CPP_EEMACROS.h to pkg/exch2
+o added useSingleCPUIO flag to monitor.F and mon_out.F
+o added temporary hack for sea-ice dynamics on the cube:
+  metric terms are ignored and it is assumed that
+  there is no sea-ice on cube faces 1, 2, 4, and 5.
+
+checkpoint52f_post
+o added exch2 cube routines to pkg/exch2
+o modified hs94.cs-32x32x5 to use it
+o added new grid files to hs94.cs-32x32x5
+checkpoint52f_pre
+
+checkpoint52e_post
+o first attempt to solve vertical advection (momemtum & T,S) Implicitly
+  for now, only implemented with Lax-Wendroff (tracer) and VectInv (mom)
+o step.1 : rewrite (as in MultiDimAdvec) explicit tracer stepping (gad_calc_rhs.F)
+  to work with implicit vertical advection and AB ;
+o Implic. vert. advect. implemented with flux-limiter, c2, u3 and c4 scheme.
+o update output (gad_calc_rhs.F changes affect truncation error) of exp:
+ front_relax, global_ocean .cs32x15 & _pressure, internal_wave, lab_sea, natl_box
+checkpoint52e_pre
+
+o fix bug in impldiff when Nr=1 or Nr=2.
+o change the albedo in pkg/thsice (as GISS model); update output_thsice.txt
+o little changes (fftpack, aim/phy_suflux ...) to pass the "checkbounds" test.
+o fix deltaTfreesurf in update_cg2d.F (left from c45d_post): affects 2
+  ocean exp. that use NLFS: global_ocean.cs32x15 & global_ocean_pressure
+o added exf_offset_atemp for Celsius to Kelvin conversion of atemp
+o eesupp/inc/EEPARAMS.h: MAX_NO_PROCS=1024
+o pkg/cal/cal_toseconds.F fix for long (>60 years) integrations
+
+checkpoint52d_post
+o re-tiled many expts to allow comparison in multi-processor mode
+  - updated output accordingly
+  - changed hs94.128x64x5 to use intial T from file rather than use the
+    random number generator
+o add infrastructure in model routines for fizhi and gridalt packages
 o change global_ocean.cs32x15 because of Pb with GM on CS-grid.
 o changes to permit hi-res, cubed-sphere, configuration
   - added useSingleCpuIO capability to mdsio_readfield.F and exf_interp.F