--- MITgcm/doc/tag-index	2013/07/01 16:55:57	1.1889
+++ MITgcm/doc/tag-index	2013/07/25 01:12:45	1.1901
@@ -1,12 +1,76 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.1889 2013/07/01 16:55:57 dimitri Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.1901 2013/07/25 01:12:45 jmc Exp $
 $Name:  $
 
     Notes on tags used in MITgcmUV
     ==============================
 
+o Divided Adjoint (DIVA) with MPI:
+  - genmake2: do not create local ./mpi_headers dir when no file to copy into.
+  - remove option ALLOW_DIVIDED_ADJOINT_MPI (replaced by ALLOW_DIVIDED_ADJOINT
+    and ALLOW_USE_MPI) from model/src code and from ECCO_CPPOPTIONS.h.
+
+checkpoint64k (2013/07/23)
+o tools/OAD_support:
+  - avoid the need for file "oadtempflile" in insertTemplateDir.bash
+    and remove it from genmake2.
+o tools/build_options:
+  - remove MPI_HEADER_FILES_INC setting (no longer used) and comment out
+    MPI_HEADER_FILES list (let genmake2 find the missing headers)
+o verification/halfpipe_streamice:
+  - change to driving stress formulation; update both Fwd & AD output.
+o tools/genmake2 and Divided Adjoint with MPI:
+  - remove default setting of MPIINCLUDEDIR from $MPIHOME (always been broken);
+  - only create local ./mpi_headers dir if using MPI and MPIINCLUDEDIR is set;
+  - add new variable (LOCAL_MPI_HEADERS, replace MPI_HEADER_FILES_INC) in
+    Makefile, which is set by genmake2, and check which mpi-headers are needed.
+    Note: need to update adjoint_options/adjoint_diva_mpi accordingly.
+  - update target "CLEAN" (to also remove ./mpi_headers/ dir).
+o testreport:
+  - changes for Divided Adjoint Run: when file "run_ADM_DIVA" is present,
+    perform additional runs (number of additional runs is "add_DIVA_runs" taken
+    from file run_ADM_DIVA ; should match "nchklev_3" in file "code_ad/tamc.h").
+o verification/lab_sea (AD test):
+  - change to test Divided Adjoint Run in this set-up (both standard AD test
+    and 2 secondary AD test: noseaice + noseaicedyn); drop the evp AD test.
+o pkg atm_ & ocn_compon_interf:
+  - remove cpl_earlyExpImpCall=F option (was mainly a hack added for the old
+    staggerTimeStep implementation) and disable (retired) corresponding
+    parameter.
+o pkg/offline:
+  - comment out unused field-array: ICEM, ConvectCount, hflx[01], icem[01];
+  - add S/R OFFLINE_CHECK to print offline parameter summary
+    and stop if loading a file that is not used;
+  - enable to calculate GMRedi tensor, KPP mixing and convective index
+    when the corresponding file(s) is/are not specified (but pkg is used).
+  - comment out resetting of monitorFreq (to endTime) since it still useful
+    for monitoring CFL numbers and checking offline fields.
+o OpenAD:
+  - do not define OAD_DEBUG (in tools/adjoint_options/adjoint_oad) to get
+    smaller standard output) and generate new (smaller) output (on baudelaire
+    using gfortran with -ieee) for exp. tutorial_tracer_adjsens
+o model/src:
+  - call EXTERNAL_FORCING_SURF outside bi,bj loops (in do_oceanic_phys.F),
+    (where external_forcing_adjust was called) and change list of arguments;
+  - merge external_forcing_adjust.F into external_forcing_surf.F
+  - put surface relaxation of SST & SSS in new S/R (forcing_surf_relax.F)
+    which also contains balancing surface relaxation (ALLOW_BALANCE_RELAX,
+    previously in file "balance_relax.F", now removed); remove corresponding
+    arrays in FFIELDS.h.
+  - EXTERNAL_FORCING_SURF is now called when using pkg/offline; implement
+    a hack for getting back surfaceForcingS (loaded from file) when using
+    ALLOW_OLD_VIRTUALFLUX (pkg/dic, in DIC_OPTIONS.h) in offline set-up.
+  - update output of AD test experiment global_ocean.cs32x15.seaice_dynmix
+    (was getting only 11 digits for AD-grad, due to different truncation
+     error in AD code).
+
+checkpoint64j (2013/07/04)
+o pkg/offline:
+  - to enable the use of other features with pkg offline (e.g., obcs),
+    also call S/R DO_OCEANIC_PHYS in offline run - more modifs to come.
+  - comment out "allowFreezing" (now active) in 2 offline testing exp.
 o pkg/exf ALLOW_RUNOFTEMP
   - fix sign and make compatible with temp_EvPrRn .NE. UNSET_RL
-  - added RUNOFTEMP test to verification/global_ocean.cs32x15/input.seaice
+  - ahdded RUNOFTEMP test to verification/global_ocean.cs32x15/input.seaice
   - changes verification/global_ocean.cs32x15/results/output.seaice.txt
 o pkg/atm_phys:
   - allows to add some damping on uVel,vVel (strength only function of k).