--- MITgcm/doc/tag-index	2004/11/16 14:33:11	1.385
+++ MITgcm/doc/tag-index	2004/11/28 23:54:20	1.394
@@ -1,10 +1,82 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.385 2004/11/16 14:33:11 jmc Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.394 2004/11/28 23:54:20 mlosch Exp $
 
     Notes on tags used in MITgcmUV
     ==============================
 
+checkpoint56a_post
+o GCHEM: finish reorganizating the package
+  - forward_step calls GCHEM_CALC_TENDENDY, which computes gchemTendency 
+    (introduces another 3D-array for each passive tracer, but only if
+    GCHEM_SEPARATE_FORCING is undefined. For GCHEM_SEPARATE_FORCING
+    gchemTendency is not needed because the timestep is done separately)
+  - gchemTendency is added to gPtr in GCHEM_ADD_TENDENCY
+  - GCHEM is now---more or less cleanly---separate from PTRACERS
+  - to bo done: handling of surfaceForcingPtr that is needed for KPP not
+    so clear to me how that should be done in a general way.
+o CFC: improve formatting of output in CFC_ATMOS
+o PTRACERS:
+  - rename GCHEM_MONITOR to PTRACERS_MONITOR and call it from MONITOR, so
+    that ALL experiments with ptracers enable can be checked. This makes
+    GCHEM_MONITOR obsolete.
+  - include a runtime parameter PTRACERS_monitorFreq that defaults to
+    monitorFreq
+  - set default PTRACERS_write_mdsio to false if PTRACERS_write_mnc is true 
+o add PTRACERS (PTR0[1-5]) to testreport output
+o exf_check_range:
+  * default changed to .TRUE.
+  * will check values for niter0 if debLevA, every timestep if debLevB
+  * STOP in exf_check_range if 'out of range'
+  * range chosen generous to allow for potential extema
+  TBD: a version with stricter range
+       permitted range would be runtime parameters
+o GMredi:
+  - fix ldd97 slope limit ; extend valid domain of Psi-Bolus ;
+  - change S/R GRAD_SIGMA to be valid in the overlap on CS-grid.
+  - change the default GMREDI_OPTIONS.h: compile everything except Visbeck
+o GCHEM: 
+  - move call to GCHEM_FORCING_SEP, so that it is now called before
+    the blocking exchanges to avoid computing halos in GCHEM_FORCING_SEP
+  - introduced a useGCHEM runtime flag and applied it everywhere. 
+  - renamed PTRACERS_SEPARATE_FORCING to GCHEM_SEPARATE_FORCING;
+    this flag is now only visible within GCHEM-pkg routines.
+  - moved gchem_forcing_int temporarily into ptracers_forcing, this will
+    be replaced by a 3D array that is computed before thermodynamics; for 
+    this, the tracer ID iTracer had to be included into the parameter list
+    of ptracers_forcing
+  - set up forward_step to call gchem_forcing, that will replace 
+    gchem_forcing_int in ptracers_forcing
+  - cleaning up
+o small cleaning of exch2: remove files that are also in eesupp/src
+
+checkpoint56
 o AIM: read land-Fraction earlier (from ini-fixed) and monitor land at nIter0
 o mnc: cleanup "full" files--fixes out-of-memory problem
+o ECCO-GODAE
+  * model/, pkg/, code/, input/ now complete w.r.t. ECCO-GODAE production setup
+  * fully merged and updated from SIO code
+    windstress sign change affects
+    - exf_inscal_[u/v]stress
+    - sign of xx_tau[u/v] adjustments
+    - signs in cost_scat
+  * ctrl_get_gen: avoid update of tau[u/v] for first few days
+  * natl_box_adjoint updated and compressed
+  * 2-level checkpoint switch added
+    (tested in EXP. 1 of natl_box_adjoint)
+  * new switch doInitXX to avoid init. of xx_... in optimcycle=0
+o SVD
+  * first complete, non-hacked version for SVD calculations
+  * all interfaces clean w.r.t to handling of xx_..., adxx_..., g_xx_...
+    performed via direct access files admtlm_vector.it????
+    (via ctrl_[un]pack)
+  * optimcycle is used for ARPACK iteration counter
+    (note: adxx_... is iterated, rather than xx_...; latter is constant!)
+  * EV problem ok w.r.t. L2-norm in tangent space; need to check other norms
+    and add linear transforms where necessary 
+  * controls are initial/final SST, SSS (can be extended; need to check
+    ctrl_set_[un]pack_xyz.F according to ctrl_set_[un]pack_xy.F
+o mdsio: filename info to both stderr, stdout
+o exf: exf_inscal_runoff: separated default conversion [m/year] -> [m/sec]
+  from sign change 
 
 checkpoint55j_post
 o isolate dissipation tendency (allow to keep it out off AB) in V.I form.