--- MITgcm/doc/tag-index	2003/10/08 19:35:00	1.183
+++ MITgcm/doc/tag-index	2003/10/27 22:56:29	1.196
@@ -1,9 +1,105 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.183 2003/10/08 19:35:00 edhill Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.196 2003/10/27 22:56:29 heimbach Exp $
 
     Notes on tags used in MITgcmUV
     ==============================
 
-checkpoint 51i_pre
+checkpoint51o_post
+o bringing AD-related verif's up to date with genmake2
+  - carbon/
+  - global_ocean.90x40x15/
+  - hs.94.1x64x5/
+  - (front_relax/ )
+o (more) consistent directory structure for AD-related verif.'s
+o cleaning ALLOW_GRADIENT_CHECK -> ALLOW_GRDCHK
+o cleaning some ALLOW_TANGENTLINEAR_RUN -> ALLOW_AUTODIFF
+o bug fix in find_alpha.F for MDJWF:
+  - modif. to alpha = 1/D*( dN/dT - rho*dD/Dt) to account for
+    change rho -> rho-rhoConst
+  - replace call find_rho to find_rhonum
+o initialisation of rFlx extended to full array (required by TAF)
+  and shifted to thermodynamics
+o removed PTRACERS.h in ptracers routine
+o added surfacetendencyPtr to S/R parameter list pracers_forcing
+o Correcting initialisations for fVerU, fVerV.
+o helping TAF to recognize dependency on kUp for
+  fVerU, fVerV
+o Replacing delZ by delR in pkg/ctrl/
+checkpoint51o_pre
+
+o undid all of cp51 pending some cleanups and discussion
+
+checkpoint51n_post
+o modifications to make FREEZE flux visible to pkg/kpp
+  - moved surfaceTendencyTice from pkg/seaice to main code
+  - FREEZE & EXTERNAL_FORCING_SURF moved to FORWARD_STEP
+  - subroutine FREEZE now limits only surface temperature
+    (this means new output.txt for global_ocean.90x40x15,
+     global_ocean.cs32x15, and global_with_exf)
+o added surface flux output variables to TIMEAVE_STATVARS
+
+checkpoint51n_pre
+o added "#undef ALLOW_USE_MPI" support to eesupp/src/gather_2d.F
+o added [#include "AD_CONFIG.h"] to all files that use the following
+  defines:
+  - ALLOW_ADJOINT_RUN
+  - ALLOW_TANGENTLINEAR_RUN
+  - ALLOW_ECCO_OPTIMIZATION
+
+checkpoint51m_post
+o incorporating changes to get TAMC/TAF working in genmake2
+  - added new TAMC/TAF targets to the Makefile
+  - various cleanups related to package handling
+  - these changes should have no impact on the forward model
+
+checkpoint51l_post
+o changes to pkg/cal and pkg/exf that allow and speed-up long integrations
+ - faster algorithm for cal_addtime.F
+ - higher precision arithmetic, where needed
+ - pkg/exf *startdate variables changed from calendar date to
+   model integration time
+
+checkpoint51l_pre
+o add salt flux to forcing fields (used when salty sea-ice forms or melts)
+o enable to apply restoring on S & T only in a latitude band.
+o update output (external_forcing_surf modif. change truncation errors)
+   global_ocean.cs32x15, global_ocean_pressure, lab_sea, natl_box
+
+checkpoint51k_post
+o change default to: useNHMTerms=.FALSE.
+ - new output.txt for atmos. exp (NHMTerms were wrong but now turned off):
+   adjustment.128x64x1, aim.5l_Eq_Ch, aim.5l_LatLon, hs94.128x64x5, hs94.1x64x5
+ - new output.txt for idealized oceanic exp (NHMTerms are now turned off):
+    exp1, ideal_2D_oce
+ - change data file of oceanic exp (leave the results unchanged for now)
+   exp2, global_ocean[90x40x15,pressure,with_exf], lab_sea, natl_box
+o set gravitySign automatically according to the vertical coordinate used
+  (and change sign: back to "logical" value: +1 when R increases downward)
+o added an include barrier to the default CPP_OPTIONS.h and 
+  removed the #include "PACKAGES_CONFIG.h" from it
+o fix a bug in mom_fluxform (from chk51j_post)
+
+checkpoint51j_post
+o Added some AD-related initialisations in mom_vecinv/ mom_fluxform/
+o adjusted some flow directives (dynamics, thermodynamics)
+o added cubed-sphere case to test cost function
+o heckpoint_lev?_directives.h now include
+  pkg-specific directives, whenever those are enabled.
+o Moving pkg-specific flow directives to corresponding pkg
+  Moving pkg-specific differentiation list to corresponding pkg
+  Moving pkg-specific checkpoint-lev storing to corresponding pkg
+  ---> conventions are
+       - pkg_ad.flow
+       - pkg_ad_diff.list
+       - pkg_ad_check_lev?_dir.h
+
+checkpoint51i_post
+o merge of the branch-genmake2
+  - knowingly breaks the older genmake
+  - automatic generation of all ALLOW_${PKG_NAME} defines
+  - new testreport supersedes older testscript
+o large number of package inclusion and header cleanups
+checkpoint51i_pre
+
 o new output for adjoin of global ocean vector invariant
 o fix for checkpoint of thermodynamic seaice and bulk_force
 o Steph gchem various cleanups