--- MITgcm/doc/tag-index	2008/06/11 18:56:14	1.1001
+++ MITgcm/doc/tag-index	2008/08/24 22:03:51	1.1018
@@ -1,9 +1,68 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.1001 2008/06/11 18:56:14 gforget Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.1018 2008/08/24 22:03:51 jmc Exp $
 $Name:  $
 
     Notes on tags used in MITgcmUV
     ==============================
 
+o add option ALLOW_ADDFLUID and run-time selector "selectAddFluid" 
+  to add mass source/sink of fluid in the interior (3-D generalisation 
+  of oceanic real-fresh water flux).
+o pkg/monitor: fix recip_dr argument in mon_advcflw2 call (-> advcfl_W_hf_max)
+o vermix test experiment: switch from LINEAR EOS to MDJWF (not tested before)
+o new pkg: down_slope
+  density-driven downsloping flow parameterisation (Tellus, 1999, 412-430).
+  - presently, modify T & S inland (dwnslp_calc_rho.F).
+    can be avoided if rho was stored in common bloc and used in calc_phi_hyd.
+  - implementation for ocean in P-coords not tested.
+  - add secondary test to global_ocean.90x40x15 (input.dwnslp) to check this pkg.
+o move kSurfC,kSurfW & kSurfS from SURFACE.h to GRID.h (next to kLowC)
+  (to facilitate conversion of oceanic pkg to p-coordinate).
+o change FIND_RHO to FIND_RHO_2D : 
+  pass arguments tFld & sFld as local (tile) 2D-arrays ; +fix EOS_CHECK.
+o new pkg: cheapaml
+
+checkpoint61b
+o exch2: 
+  change index bounds in rx2_cube exchanges (new S/R: EXCH2_GET_UV_BOUNDS)
+  - no longer depend on the order sequence (N,S,E,W).
+  - 3rd exchange no longer needed (tested with 24 tiles).
+  - same modif to hand-written adjoint S/R (global_ocean.cs32x15: zero diff)
+  - exch_UV_A-grid readily available (but not yet tested).
+  comment out 3rd exch call and remove copy of V to U at SE & NE face-corners 
+  (both are no longer needed) in exch_uv: no effect in forward run; but 
+   get truncation error differences with adjoint exch.
+o exch2: 
+ - change index-bounds storage (moved from target to local tile,
+   more intuitive this way) ; rename/remove some variables.
+ - change utils/exch2/matlab-topology-generator & code_mods accordingly.
+
+checkpoint61a
+o exch2/matlab-topology-generator: 
+  fix bug in index bounds for N-S internal exchange (hard to tell if this
+  had any effect on the solution).
+o pkg/mnc: small fix in mnc_handle_err: make sure that length of msgbuf
+  is exceeded
+o testreport: modify syntax of awk, so that it works also with 
+  awk, and not only with nawk and gawk
+
+checkpoint61
+o autodiff
+  Change default for TAF usage by removing argument '-nonew_arg'
+  This changes TAF subroutine argument list (ordering of active var.)
+  Omission of this flag leads to incompatibility w.r.t. TAMC
+  To restore TAMC-compatibility, need following modifs:
+  * use adoptfile tools/adjoint_options/adjoint_tamc_compatibility
+  * use CPP option #define AUTODIFF_TAMC_COMPATIBILITY
+  Tested TAF version is 1.9.22
+  N.B.: exch2 hand-written adjoint code currently not TAMC compatible
+
+checkpoint60
+--->>> This is the last checkpoint for which generating the adjoint
+--->>> is done via the TAMC-compatibility TAF-flag "-nonewarg"
+--->>> by default.
+--->>> Future checkpoints will ommit this flag by default.
+o pkg/generic_advdiff, os7mp: simplify and avoid division by zero.
+o pkg/grdchk: Add gradient check to etan0 perturbations.
 o pkg/exf: read ice area from file (#ifdef ALLOW_ICE_AREAMASK). 
 o pkg/autodiff: more flexibility in zeroadj. 
   model/src: modifying do_oceanic_phys.F accordingly. 
@@ -21,6 +80,7 @@
   -> ALLOW_EDDYPSI_CONTROL for estimation purpose.
   The key modifications are in model/src/taueddy_external_forcing.F
   pkg/gmredi/gmredi_calc_*F pkg/gmredi/gmredi_*transport.F
+
 checkpoint59r
 o new S/R (pkg/mdsio/mdsio_facef_read.F) reading of sNx+1 x sNy+1 array
   from per-face file (take S/R READSYMTILE_RS out of ini_curvilinear_grid.F);