--- MITgcm/doc/tag-index	2008/05/28 03:37:35	1.996
+++ MITgcm/doc/tag-index	2008/06/24 11:20:09	1.1006
@@ -1,9 +1,46 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.996 2008/05/28 03:37:35 jmc Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.1006 2008/06/24 11:20:09 heimbach Exp $
 $Name:  $
 
     Notes on tags used in MITgcmUV
     ==============================
 
+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. 
+o pkg/ctrl: Bounds for (kapgm,kapredi,eddypsi) parameter estimation.
+o model/src and pkg/gmredi: GMREDI_WITH_STABLE_ADJOINT CPP option
+  special setup of gmredi for which the adjoint is stable 
+  enough for parameter optimization.
+o bridging the gap between eddy stress and GM.
+  -> eddyTau is replaced with eddyPsi (eddyTau = f x rho0 x eddyPsi)
+      along with a change in CPP option (now ALLOW_EDDYPSI).
+  -> when using GM w/ GM_AdvForm: 
+      The total eddy streamfunction (Psi = eddyPsi + K x Slope)
+      is applied either in the tracer Eq. or in momentum Eq.
+      depending on data.gmredi (intro. GM_InMomAsStress).
+  -> 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);
   fix option to read coriolis(@ cell-corner) from files with CS-grid.