--- MITgcm/doc/tag-index	2003/10/22 16:35:47	1.192
+++ MITgcm/doc/tag-index	2003/10/30 19:21:04	1.201
@@ -1,10 +1,84 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.192 2003/10/22 16:35:47 dimitri Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.201 2003/10/30 19:21:04 heimbach Exp $
 
     Notes on tags used in MITgcmUV
     ==============================
 
-untagged
+checkpoint51q_post
+o cd_code:
+  - moved cd_scheme.F -> cd_code_scheme.F
+  - separate read_checkpoint from cd_code_ini_vars.F
+  - separated cd_code part from write_checkpoint
+  - updated AD_SOURCE, generated .flow
+  - added CD_CODE_VARS.h to the_main_loop
+  - Moving cd_code specific store dir.s to pkg/cd_code
+o ctrl package totally restructured
+  - pack/unpack now optional and decoupled from
+    xx_/adxx_ I/O
+  - ctrl_pack/unpack cleaned
+    (new routines ctrl_init_ctrlvar.F, pkg/ctrl/ctrl_init_wet.F)
+  - confined inclusion of AD_CONFIG.h to where necessary.
+o genmake2: changed AD dependencies from SRCFILES to AD_FILES
+
+checkpoint51p_post
+o create initial cd_code package
+  - WARNING: the initialization of fields within packages
+    is broken because INI_FIELDS (where READ_CHECKPOINT is
+    called) is called *before* PACKAGES_INIT_VARIABLES.
+    This seems to be backwards since
+    1) its important to initially zero the entire field including 
+       the "halo" region
+    2) zeroing needs to be done *before* reading pickup info
+       and the pickup call might or might not happen in any 
+       particular run
+  - this needs an overhaul for R2
+o cleanup verification/*/code/GMREDI_OPTIONS.h
+o cleanup testreport
+
+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
+o added the [#include "AD_CONFIG.h"] statement to all files that need 
+   it for adjoint/tl #defines
+ o re-worked the build logic in genmake2 to support AD_CONFIG.h
+ o removed tools/genmake since it no longer works
+
+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