--- MITgcm/doc/tag-index	2002/10/07 16:35:31	1.89
+++ MITgcm/doc/tag-index	2002/12/02 13:28:30	1.107
@@ -1,8 +1,150 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.89 2002/10/07 16:35:31 jmc Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.107 2002/12/02 13:28:30 cheisey Exp $
 
     Notes on tags used in MITgcmUV
     ==============================
 
+checkpoint47a_post
+o new pkg: aim_v23 
+ = F. Molteni atmos.physics (SPEEDY, ver23) adapted to MITgcm. 
+   for now, keep the same surface forcing as before.
+ - Part-Cell implemented into AIM; check that Heat & Water are conserved
+ - aim.5l_cs: use new aim pkg (run 10yr & get better results than before)
+ - aim.5l_LatLon & aim.5l_Equatorial_Channel are still using old aim pkg
+o add diagnostic of surface correction term in monitor output
+
+o bulk_force and therm_seaice 
+- Two packages:  bulk_force (Bulk forcing)
+  and therm_seaice (thermodynamic_seaice) - adopted from LANL CICE.v2.0.2
+- Earlier integration from Stephaine Dutkiewicz
+  and Patrick Heimbach.
+- Two ifdef statements for compile time,
+   ALLOW_THERM_SEAICE and ALLOW_BULK_FORCE
+
+checkpoint47
+differentiable version of checkpoint46n_post
+o bug fix in quasihydrostaticterms
+o * "clean" adjoint code (in terms of extensive recomputations)
+    can now be obtained for all GMREDI options (i.e. for 
+    - GM_VISBECK_VARIABLE_K
+    - GM_NON_UNITY_DIAGONAL
+    - GM_EXTRA_DIAGONAL
+    - GM_BOLUS_ADVEC )
+  * However, wrong gradient check problem remains unsolved.
+  * New CPP options have been introduced for different
+    tapering schemes
+o external_fields_load now part of differentiation list
+o pressure needs multiple storing;
+  would be nice to have store_pressure at beginning or
+  end of forward_step, e.g. by having phiHyd global (5-dim.)
+  (NB: pressure is needed for certain cases in find_rho,
+  which is also invoked through convective_adjustment).
+o recomputations in find_rho for cases 
+ 'JMD95'/'UNESCO' or 'MDJWF' are OK.
+o #define ATMOSPHERIC_LOADING should be differentiable
+o ini_forcing shifted to begining of initialise_varia
+o Incorporating QNVS line search routines into MITgcm
+  (this is separate code, and therefore not under pkg)
+  lsopt/, optim/
+o Updated verification/carbon/
+  - #define GM_VISBECK_VARIABLE_K
+  - GM_taper_scheme    = 'ldd97'    
+
+checkpoint46n_post
+Merging from release1_p8:
+o verification/natl_box:
+  updating new external_fields_load routine
+o New package: pkg/seaice
+  Sea ice model by D. Menemenlis (JPL) and Jinlun Zhang (Seattle).
+  The sea-ice code is based on Hibler (1979-1980).
+  Two sea-ice dynamic solvers, ADI and LSR, are included.
+  In addition to computing prognostic sea-ice variables and diagnosing 
+  the forcing/external data fields that drive the ocean model, 
+  SEAICE_MODEL also sets theta to the freezing point under sea-ice.
+  The implied surface heat flux is then stored in variable 
+  surfaceTendencyTice, which is needed by KPP package (kpp_calc.F and 
+  kpp_transport_t.F) to diagnose surface buoyancy fluxes and for the 
+  non-local transport term.  Because this call precedes model 
+  thermodynamics, temperature under sea-ice may not be "exactly" at 
+  the freezing point by the time theta is dumped or time-averaged.
+  N.B.: fairly large differences in accuracy occur across
+        different platforms/compilers; comparison between
+        g77 (Linux) and F77 (SGI Origin 2000/MIPSpro) 
+        generated output gives:
+   T           S           U           V
+  C D M    c        m  s        m  s        m  s        m  s
+  n p a R  g  m  m  e  .  m  m  e  .  m  m  e  .  m  m  e  .
+  f n k u  2  i  a  a  d  i  a  a  d  i  a  a  d  i  a  a  d
+  g d e n  d  n  x  n  .  n  x  n  .  n  x  n  .  n  x  n  .
+
+  Y Y Y Y  5  5  7  7  7  8 10  9  6  6  6  6  7  5  7  5  7 FAIL  lab_sea
+o GAD: 
+  - generated new common blocks to account for call of
+    same gad routines with differing traceridentities
+    (needed to modify tracerIdentity indices in GAD.h)
+  - generated separate common blocks for case useCubedSphereExchange
+    (Department of Futurology)
+  - parameter lists to gmredi_?transport: added tracerIdentity
+  - added new key indices to tamc.h
+o external_fields_load:
+  - added this routine to TAF list
+  - needed to make some common blocks global and additional storing
+    along the same lines as exf package (checkpoint_lev?_directives.h)
+o exf:
+  updated external forcing package
+  - bug fixes carried over from ecco-branch
+    (missing OBCS_OPTIONS.h in two routines)
+  - enable easy to use "no forcing".
+  - added exf I/O for atmospheric loading
+  - added exf I/O for runoff data
+  - transfered scaling between exf <-> MITgcm to exf namelist
+o Adding new verification experiment global_with_exf.
+  This verification experiment is almost identical to the
+  global_ocean.90x40x15 experiment, except that it uses
+  the exf (and cal) package instead of the
+  external_fields_load routine (cf README file).
+
+checkpoint46m_post
+o modified testscript to return -- when there are no lines of "%MON" output 
+o added new flag "quasiHydrostatic" for QH mode
+  and new routine quasihydrostaticterms()
+o added 2*Omega*Cos(phi)*W to u equations (non-hydrostatic Coriolis term)
+  New routine: mom_u_coriolis_nh()
+o fixed sign of non-hydrostatic metric terms in u and v equations.
+  Depend on correct sign of gravitySign.
+o added work.pc* to .cvsignore in aim directories using ifc
+o introduced flag for controllin non-hydrostatic metric terms
+o removed gravitySign from PARM04
+o switched to g77/ifc from pgf77 in aim experiments
+
+checkpoint46l_post
+o made convective adjustment work with pressure coordinates:
+ - changed the direction of k-loop in convective_adjustment.F for the
+   case of pressure coordinates (OCEANICP,ATMOSPHERIC buoyancyRelation)
+ - adjusted the reference pressure k-index in convective_adjustment.F
+ - adjusted the convection condition in convect.F (in analogy to
+   calc_ivdc.F)
+ - convective_adjustment no longer computes anything on the halos
+ - removed the warnings about negative salinity from find_rho.F and
+   find_alpha.F; instead the new routine look_for_neg_salinity, called
+   at the beginning of find_rho, find_alpha, and find_beta, does a 
+   check of the entire slice, if CPP-option 
+   CHECK_SALINITY_FOR_NEGATIVE_VALUES is defined
+checkpoint46l_pre
+
+checkpoint46k_post
+o fixed the verification/global_ocean.90x40x15 experiment:
+ - new bathymetry (the world according to A., JMC, and M.)
+ - new initial fields and forcing fields (*.bin files)
+ - new POLY3.COEFFS (for the next release one should switch to a full
+   equation of state: JMD95P or MDJWF)
+ - fixed several errors and redundancies in the data file
+ - experiment uses looped cells
+ - added matlab directory with diagnostic scripts for plotting of output
+
+o S/R aim_initialise.F replace S/R aim_init from file aim_do_inphys.F:
+ - read AIM physics parameters from a file (data.aimphys)
+ - set defaults values = F.Molteni paper (Clim.Dyn., 2002)
+
 checkpoint46j_post
 o split calc_exact_eta in 2 S/R : integr_continuity & update_etaH
 o move wVel computation at the end of the time step, in S/R integr_continuity