--- MITgcm/doc/tag-index	2016/02/11 00:50:27	1.2234
+++ MITgcm/doc/tag-index	2016/05/08 19:15:17	1.2250
@@ -1,9 +1,98 @@
-$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.2234 2016/02/11 00:50:27 jmc Exp $
+$Header: /home/ubuntu/mnt/e9_copy/MITgcm/doc/tag-index,v 1.2250 2016/05/08 19:15:17 jmc Exp $
 $Name:  $
 
     Notes on tags used in MITgcmUV
     ==============================
 
+o verification/global_ocean.cs32x15:
+  - change secondary test "viscA4" to also test "selectP_inEOS_Zc=3"
+    with "selectNHfreeSurf=1".
+o model/src (non-hydrostatic free-surface):
+  - More "natural" expression of NH free-surface term (case selectNHfreeSurf=1):
+    was: tmpSurf/(1+tmpSurf); changed to: 1/(1+Gamma) with Gamma=1/tmpSurf.
+  - Calculate surface vertical velocity after 2-D solver adjustment (accounts
+    for EmPmR if RealFreshWaterFlux); used in RHS (cg3d_b) if exactConserv
+    and used to compute dPhiNH (in post_cg3d.F) if selectNHfreeSurf=1.
+    This fixes EmPmR contribution when selectNHfreeSurf=1 & RealFreshWaterFlux.
+  - Update output (changes at machine truncation level) of verification exp:
+    exp4 (11 digits for cg2d), global_ocean.cs32x15.viscA4 (11.d),
+    short_surf_wave (13.d) and tutorial_deep_convection.smag3d (12.d).
+o pkg/seaice: ITD code
+  - fix picking up from a single category model by initialising
+    heff/area/hsnowITD = 0. in seaice_itd_pickup.F
+  - split a long warning message in seaice_check_pickup.F into two lines,
+    because NEC SX-ACE cannot deal with the long line.
+o model/src:
+  - fix missing dPhiNH in pressure_for_eos.F (case: selectP_inEOS_Zc=3)
+o pkg/seaice:
+  - add missing checks for SEAICE_ALLOW_KRYLOV and SEAICE_ALLOW_BOTTOMDRAG
+o pkg/seaice:
+  - add basal stress as parameterisation for grounding ice
+    following Lemieux et al. (2015)
+  - turn on by setting new parameter SEAICEbasalDragK2 to a value
+    larger than 0. Lemieux et al. (2015) recommend 15.
+  - The adjoint complains with extra recomputations so there is also a
+    new cpp-flag SEAICE_ALLOW_BOTTOMDRAG that is undefined by default in
+    order to postpone the problem
+  - compile the new code in lab_sea
+o verification/halfpipe_streamice:
+  - update both TAF and OpenAD adm output (machine truncation differences)
+
+checkpoint65v (2016/04/08)
+o verification/advect_xz:
+  - increase overlap size from 3 to 4 and add new secondary test for PQM
+    advection scheme (with mono & wino limiter).
+  - change main exp. to test PPM (with weno limiter) adv.scheme on Temp.
+o model/src:
+  - new parameters "top_Pres" & "seaLev_Z" (replacing Ro_SeaLevel and recently
+    added phi0Ref) to set vertical axis origin and phiRef origin;
+    keep Ro_SeaLevel for backward compatibility (with a warning).
+   According to coordinate and fluid type:
+    OCN in Z: top_Pres(Ref) (=rhoConst*PhiRef(1)), seaLev_Z (=rF(1), @ the top)
+    ATM in Z: top_Pres(Ref) (=rhoConst*PhiRef(1)), seaLev_Z (=rF(Nr+1) @ bottom)
+    OCN in P: top_Pres (=rF(Nr+1)), seaLev_Z (= PhiRef(Nr+1)/g, @ the top)
+    ATM in P: top_Pres (=rF(Nr+1)), seaLev_Z (= PhiRef(1)/g, @ the bottom)
+  - remove Ro_SeaLevel from ATM experiment parameter files;
+  - in tutorial_global_oce_in_p, remove Ro_SeaLevel and set top_Pres to the
+    complement; update output.txt (changes at machine truncation level).
+o pkg/seaice/seaice_evp.F
+  - simplify computation of deltaZ and zetaZ to simple averaging following
+    Bouillon et al. (2013). This removes a lot of code, but also changes
+    verification experiment lab_sea.hb87 -> updated
+
+checkpoint65u (2016/03/14)
+o pkg/generic_advdiff:
+  - from Darren: add PPM and PQM advection schemes (number 40-42 and 50-52)
+    with 2 types of limiter (see: Engwirda & Kelley, submit. to JCP);
+    Note (from Darren): unlimited PPM/PQM scheme (40 & 50) are just for
+    testing and not for actual use.
+o model/src:
+  - add parameter "phi0Ref" to specify reference [pressure/geo] potential at
+    origin r = rF(1);
+  - add options (parameter selectP_inEOS_Zc) to select which pressure to use
+    in EOS for height coordinate: enable to include NH Pressure or to use
+    more accurate pressure vertical profile; options not linked to EOS type
+    (as previously, e.g., JMD95P/JMD95Z) but set default according to EOS type;
+  - start to implement variable gravity (along vertical): for now, only with
+    z-coords (not even z*).
+  - add Ideal Gas equation of state for height coordinate.
+  - update OpenAD output (affected at machine truncation level) of exp:
+    global_ocean.90x40x15, OpenAD (std) and tutorial_global_oce_biogeo.
+o pkg/exf:
+  - add ALLOW_EXF_OUTPUT_INTERP cpp switch to output the result
+    of exf interpolation (before any rescaling, rotation or interpolation
+    to velocity point) for each field that gets loaded from file. This option
+    identically mimics the input file organization (e.g. record numbers in year
+    by year input files) besides the change in horizontal grid.
+  - add rotateStressOnAgrid run-time switch so that wind stress fields
+    can be provided on the A-grid in zonal/meridional direction and
+    rotated on the fly. This only applies to the case when the exf
+    interpolation is off and rotateStressOnAgrid is false by default.
+o model/src:
+  - rename internal parameter "useDynP_inEos_Zc" to "storePhiHyd4Phys" (since
+    it's also used with pkg/atm_phys) and add few more parameters (but still
+    inactive, src code yet to come)
+
 checkpoint65t (2016/02/10)
 o pkg/atm_phys:
   - from Ruth Geen: add optical depth dependence on CO2 concentration.
@@ -147,7 +236,7 @@
   - add diagnostics for 3-D, Nr+1 levels diagnostics of radiative fluxes
     (shortwave & longwave, net & downward) and diagnostics of temp. tendency
     for individual contribution (convection, LSC cond, radiation)
-  - add Ruth Geen etal, GRL 2016, radiation optionis (see paper supp.
+  - add Ruth Geen etal, GRL 2016, radiation options (see paper supp.
     information); activated with: solar_exponent=0. and wv_exponent=-1.
 o pkg/ggl90:
   - within IDEMIX add upper limit for horizontal group velocity to