--- MITgcm/doc/tag-index	2004/05/14 16:31:58	1.293
+++ MITgcm/doc/tag-index	2004/07/13 18:26:12	1.329
@@ -1,8 +1,116 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.293 2004/05/14 16:31:58 jmc Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.329 2004/07/13 18:26:12 jmc Exp $
 
     Notes on tags used in MITgcmUV
     ==============================
 
+o define the max number of passive tracers in PTRACERS_SIZE.h
+o start to test mnc routinely in exp0
+o add sea-ice loading (sIceLoad) as a new forcing field.
+
+checkpoint54b_post
+o add testreport "-j JOBS" option for parallel builds (tested and pretty 
+   impressive on Altix and Opteron systems)
+o diagnostics can now write NetCDF files through the mnc package
+o staggerTimeStep & NLFS: update pkg aim_v23 & thsice; update aim.5l_cs output
+o staggerTimeStep & multi-Dim-Advec: Exch(U,V) added 
+o staggerTimeStep & NLFS: rescale T & S surface tendencies.
+  affects (truncation error) output of lab_sea & natl_box exp.: updated
+o change pickup _cd & _ptracers (old pickup restart: usePickupBeforeC54=.T.)
+
+checkpoint54a_post
+o re-write staggerTimeStep: step fwd U,V and then T,S (reverse the order).
+o change pickup file (to restart from old pickup, set usePickupBeforeC54=.T.)
+o get a perfect restart when using RealFreshWaterFlux + NLFS (not finished)
+o update output of all exp. that use staggerTimeStep (except hs94.cs & 2D)
+  + internal_wave (shift in writing cg2d_ini_res)
+checkpoint54a_pre
+
+o require forcing_In_AB=.FALSE. and remove surfaceTendencyTice from pkg/seaice
+  - modified verification/lab_sea and natl_box_adjoint accordingly
+
+checkpoint54
+checkpoint53g_post
+o prepare splitting of thermodynamics: store convect.counter in common block
+o store d.etaH/dt (instead of Div.hV) in common ; affects (truncation error)
+  output of: global_ocean.cs32x15, global_ocean_pressure & internal_wave
+o cnh's modifs to gad_advection.F for cube-sphere multi-dim advection
+o new parameter "nShapS": allow to treat differently S from T (nShapT)
+o separate Vert.Advec.Scheme from horizontal Advec.Scheme (T & S)
+o restore adjointability
+
+checkpoint53f_post
+o modifications that affect AIM experiment results (update output.txt):
+  - no advection of S at top interface Nr (pkg/generic_advdiff) 
+  - air surf. temp: use lower value between T0 & T1 (phy_suflux_prep.F)
+o AIM pkg:
+  - include stability function into surf.Flux derivative relative to Tsurf
+  - calculate clear-sky radiation & surface temp. change (for diagnostics)
+ 
+checkpoint53e_post
+o merged cylindrical coord configuration
+o added rotating_tank experiment
+checkpoint53e_pre
+
+checkpoint53d_post
+o faulks upgraded: re-generate output.txt that have changed:
+   global_ocean.cs32x15(.thsice), global_ocean_ebm, lab_sea, natl_box
+o Added Bryan and Lewis, 1979, vertical diffusivity profile
+o pkg/land: fix problem in land_impl_temp.F when Ts arround freezing. 
+o added Sadourny discretization of Coriolis
+  - moved some PARAMETERS from mom_*_coriolis.F to PARAMS.h
+  - re-enabled use of omega3 (useAbsVorticity)
+o added Leith (Phys. Fluids, 1968, 10, 1409-1416) variable viscosity for
+  vector-invariant equations
+  - note: does *NOT* yet use same variable visc. for no-slip BC's.
+o recoded the lateral boundary conditions for non-hydrostatic w, this time
+  hopefully without new bugs
+  - still to do: biharmonic friction for non-hydrostatic w
+o bug fix for mom_*_sidedrag: rA -> rAs,rAw
+o regenerated output for global_ocean_ebm (using -ieee)
+o fix mom_common/mom_*_sidedrag.F to recover numeric output prior to creation
+  of mom_common/
+  - simple re-arrangement of instructions within computing loop
+checkpoint53d_pre
+
+checkpoint53c_post
+o new version of coupler for AIM+thSIce and Ocean models
+ - new fields (SSS,h_MixLayer ...) are exchanged through the coupler
+ - land: change Evaporation of snow
+ - aim with thSIce: fix bug in snow-precip.
+o changes to calc_gw.F
+ - bug fix for w^2 term near the bottom boundary
+ - (hopefully) improve the lateral slip boundary condtions for use with
+    partial/looped cells
+  - because the bug fix changes two verification experiments anyway (exp5
+    and plume on slope), change the lateral boundary condition from half slip
+    to the value of no_slip_sides
+o ebm package wasnt quite up to the parallel task. Fixed that.
+o Adjoint of EBM package + verification
+  * TLM OK
+  * ADM not sufficient accuracy yet (needs further testing)
+
+checkpoint53b_post
+o Commiting new energy balance model to repository
+  * package is pkg/ebm
+  * verif. is verification/global_ocean_ebm
+  * references are in ebm_driver.F
+C      * X. Wang, P. Stone and J. Marotzke, 1999:
+C        Global thermohaline circulation. Part I:
+C        Sensitivity to atmospheric moisture transport.
+C        J. Climate 12(1), 71-82
+C      * X. Wang, P. Stone and J. Marotzke, 1999:
+C        Global thermohaline circulation. Part II:
+C        Sensitivity with interactive transport.
+C        J. Climate 12(1), 83-91
+C      * M. Nakamura, P. Stone and J. Marotzke, 1994:
+C        Destabilization of the thermohaline circulation
+C        by atmospheric eddy transports.
+C        J. Climate 7(12), 1870-1882
+o Will need long integration testing.
+checkpoint53b_pre
+
+o created pkg/mom_common in preparation for variable viscosity code
+o renamed and split ini_mnc_io
 o pkg/land: only liquid water can diffuse or run-off
 o AIM using land: soil wetness availability account for snow
 o added printMapIncludesZeros to EEPARMS namelist