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revision 1.128 by heimbach, Thu Feb 6 22:43:09 2003 UTC revision 1.161 by jmc, Mon May 26 19:03:40 2003 UTC
# Line 3  $Header$ Line 3  $Header$
3      Notes on tags used in MITgcmUV      Notes on tags used in MITgcmUV
4      ==============================      ==============================
5    
6    o AIM: use true log-P extrapolation for near surface temp (= as in
7        F.Molteni paper) ; update aim.5l_cs output.
8    
9    checkpoint50g_post
10    o merged with release1_p17 (pkg/seaice and verification/lab_sea)
11      - added SEAICE_MULTILEVEL for 8-category sea-ice thermodynamics
12      - LSR sea-ice dynamic solver moved to SouthWest B-grid location and
13        made the default because of faster convergence than ADI
14    
15    checkpoint50f_post
16    o exf totally restructured
17      - replaced all exf_set_ routines by one generic exf_set_gen.F
18        and made sure it's still differentiable
19      - split exf_getffields.F into new exf_bulkformulae.F
20      - exf_inscal_/exf_outscal_ suffixes consistent with field names
21      - updated adjoint/makefile and relevant verif. accordingly
22    
23    checkpoint50f_pre
24     o AIM: near surface temp evaluated from Pot.Temp: fixed for Part Cell ;
25          + change Evap over land. (update aim.5l_cs output)
26     o added missing .cvsignores and made uniform across expts
27     o changed configuration of tidal_basin_2d expt
28     o added pkg/debug functions for tracing code in fatal crashes
29     o tidied pkg/monitor to use MONITOR_OPTIONS.h
30     o new fn in pkg/monitor to stop model if solution grows too big
31     o removed lots of single quotes from comments
32    
33    checkpoint50e_post
34    o make KPP work with PTRACERS
35     - fix gad_calc_rhs to call new routine kpp_transport_ptr, which is
36       nearly a copy of kpp_transport_s
37     - there is no analogue to SurfaceTendencyS, so I have to use
38       gPtr(of the surface layer) instead
39    o add a new platform SunFire+mpi (SunFire 15000) to genmake
40    checkpoint50e_pre
41    
42    checkpoint50d_post
43    o change kpp output from multiple-record state files to single-record state
44      files analogous to write_state.F
45    o reduce the output frequency of cg3d-related stuff to the monitor frequency,
46      analogous to the cg2d-related output.
47    o fix small problem with in ptracers_write_checkpoint.F: len(suff)=512,
48      so that writing to internal file fn (with length 512) fails.
49    checkpoint50d_pre
50    
51    checkpoint50c_post
52    o fix problem in ini_procs.F when using MPI (was there since checkpoint48f)
53    o add monitor diagnostic of vorticity (mon_vort3.F) and potential energy.
54    o add time-average diagnostic of U*V and vertical diffusive flux for theta.
55    o bug fixed in convective adjustment diagnostic (multi-tile set-up).
56    o 4th Order Adv scheme: return to previous (c40pre7) masking near boundaries.
57    
58    checkpoint50c_pre
59    Merging from release1_p13:
60    o bug fix for pkg/seaice dynamic solver
61    o Added SEAICE_initialHEFF to pkg/seaice
62    
63    checkpoint50b_post
64    o store u*,v* in gU,V instead of in guNm1,gvNm1
65    o in order to put the momForcing out of the Adams-Bashforth:
66      move forcing & CD-scheme calls from mom_fluxform & mom_vecinv
67      to timestep.F
68    o new flag "useCDscheme" (default=F); replace guCD,gvCD by local arrays
69    o re-generate output for highly sensitive test-exp:
70       global_ocean_pressure, ideal_2D_oce, lab_sea, natl_box
71    
72    checkpoint50b_pre
73    o restore the use of momAdvection & useCoriolis flags (mom_vecinv)
74    o corrected CPP option mismatch in exf_Bulk... functions for case
75      #define ALLOW_ATM_WIND && #undef ALLOW_ATM_TEMP
76    
77    checkpoint50a_post
78    o Bug fix for merging between c50 and KPP.
79      ikey was passed from thermodynamics to kpp_calc via
80      common block rather than being recomputed in kpp_calc,
81      in contradiction with new key itdkey.
82      New key ikppkey created, and tamc.h headers updated.
83    
84    checkpoint50
85    - 2nd step of merge with ecco-branch:
86      merge changes in ecco-branch back into main trunk
87    - bug fix in find_alpha
88    - more storing in gmredi_calc_tensor.F, kpp_routines.F
89    - avoid iterative loop in ini_pressure for ALLOW_AUTODIFF_TAMC
90    - merged some sliced AD support routines
91    
92    checkpoint49
93    merged from ecco-branch:
94    o exf:
95      - Enable initialisation of forcing fields to constant
96        (runtime) values.
97      - in exf_getffields.F
98        Reduce i-/j-loop to interior domain, discarding overlaps.
99        That also fixes wrong TAF-key computations for key_1, key_2
100        with bulf formulae.
101      - exf_init.F modify #ifdef for exf_init_evap
102      - exf_getffieldrec.F, ctrl_getrec.F
103        The following INT-usages are not safe:
104          fldsecs  = int(fldsecs/fldperiod)*fldperiod
105          fldcount = int(fldsecs/fldperiod) + 1
106        and were modified.
107    o autodiff: checkpoint_lev...
108      - updated storing for bulk formulae (some arrays were missing)
109      - added state for seaice package
110      - synchronized with main branch
111    o DIVA:
112      Modif.s in
113      - the_main_loop.F
114      - the_model_main.F
115      and added cost_final_restore.F cost_final_store.F
116      o With these changes, it is possible to fully separate
117        the first forward run to compute the cost function (mdthe_main_loop)
118        and adjoint runs over individual DIVA intervals (adthe_main_loop)
119        into separate model executions.
120        This enables better tuning of DIVA to given queue sizes.
121      o Loss of cost function value in consecutive DIVA runs is
122        fixed by storing to 'costfinal' file.
123      o Appropriate call of ctrl_unpack/_pack,grdchk_main at
124        beginning/end of adjoint integration is accounted for.
125      The current changes apply to TAF-1.4.26.
126      TAF has one remaining bug, requiring one manual change
127      (see MITgcm manual).
128    o cal: synchronized between MAIN and ecco-branch
129    
130    checkpoint48i_post
131    o Changes to restore differentiability of code w.r.t. previous tag
132      (mostly adding new routines to make list and replacing
133      pressure by totPhiHyd).
134    o Updated and merged grdchk package
135      - has both ADM and TLM checks
136      - works for single- and multi-proc.
137      - output cleaned
138      - worked successfully for parallel DIVA
139    o genmake:
140      - Adding -platform=SP4
141      - Modif. for DEC Alpha (many don't have makedepend; use mkdep instead).
142    o Modif. for DIVA:
143      ctrl_unpack should not be called in intermediate DIVA interval.
144      (similar thing would apply for active files such as
145      tbar, sbar, psbar, which should not be reinitialised;
146      only relevant for ecco-branch)
147    
148    checkpoint48h_post
149    o improve "ini_p_ground" when using finite difference form for calc_phi_hyd
150    o Added net flux to downward flux conversion to pkg/exf/exf_getffields.F
151    o Added SEAICE_initialHEFF to pkg/seaice
152    o ecco_the_model_main.F: SEAICE_WRITE_PICKUP must precede WRITE_CHECKPOINT
153    
154    checkpoint48g_post
155    --- EOS:
156    o compute locally the pressure for use in EOS: UNESCO, JMD95P, MDJWF
157      store total Potential in totPhyHyd for diagnostics & EOS.
158    o fix restart and overlap Pb when using Z-coord and EOS funct. of P
159    --- Pressure/geopotential gradient:
160    o use Ro_surf & R_low instead of hFac in cal_phi_hyd:
161    o NLFS + p-coord.: eta*Alpha' is not longer lagging 1.time-step behind
162      ( changes results of global_ocean_pressure )
163    o NLFS + z-coord.: add eta*Rho' contribution.
164    o accurate phiHyd when using interface-W at the middle between 2 centers
165     ( changes results of ideal_2D_oce )
166    o includes r* 2nd term in potential gradient.
167    
168    checkpoint48f_post
169    Merging from release1_p12:
170    o Modifications for using pkg/exf with pkg/seaice
171      - improved description of the various forcing configurations
172      - added basic radiation bulk formulae to pkg/exf
173      - units/sign fix for evap computation in exf_getffields.F
174      - updated verification/global_with_exf/results/output.txt
175    o Added pkg/sbo for computing IERS Special Bureau for the Oceans
176      (SBO) core products, including oceanic mass, center-of-mass,
177      angular, and bottom pressure (see pkg/sbo/README.sbo).
178    o Lower bound for viscosity/diffusivity in pkg/kpp/kpp_routines.F
179      to avoid negative values in shallow regions.
180      - updated verification/natl_box/results/output.txt
181      - updated verification/lab_sea/results/output.txt
182    o MPI gather, scatter: eesupp/src/gather_2d.F and scatter_2d.F
183    o Added useSingleCpuIO option (see PARAMS.h).
184    o Updated useSingleCpuIO option in mdsio_writefield.F to
185      work with multi-field files, e.g., for single-file pickup.
186    o pkg/seaice:
187      - bug fix in growth.F: QNET for no shortwave case
188      - added HeffFile for specifying initial sea-ice thickness
189      - changed SEAICE_EXTERNAL_FLUXES wind stress implementation
190    o Added missing /* */ to CPP comments in pkg/seaice, pkg/exf,
191      kpp_transport_t.F, forward_step.F, and the_main_loop.F
192    o pkg/seaice:
193      - adjoint-friendly modifications
194      - added a SEAICE_WRITE_PICKUP at end of the_model_main.F
195    
196    checkpoint48e_post
197    o New S/R for diagnostic of bottom pressure (phi0surf was missing in c48d_post)
198    o dynamics: change definition of computational domain & adapt mom_fluxform
199      accordingly ; when viscA4=0, allows to run the dynamics with Olx=Oly=2.
200    o following exp works with Olx=Oly=2 (and pass through checkbounds option):
201        adjust_nlfs.cs-32x32x1 adjustment.128x64x1 adjustment.cs-32x32x1
202        exp0 exp1 exp2 exp4 exp5 hs94.cs-32x32x5 hs94.128x64x5 hs94.1x64x5
203        global_ocean.90x40x15 global_with_exf global_ocean_pressure
204        inverted_barometer solid-body.cs-32x32x1
205      (high order AdvScheme and/or multiDimAd works with Olx=Oly=2 ? not sure)
206    
207    checkpoint48d_post
208    o in preparation for r*:
209     a) use pre-computed gradient of hydrostatic potential:
210        changes in timestep.F & mom_cdscheme.F affects results of ideal_2D_oce
211     b) move phi0surf from calc_phi_hyd to calc_grad_phi_hyd:
212        => affects results of glob_oce_pressure (different truncation error)  
213      update output.txt of ideal_2D_oce & global_ocean_pressure
214    
215    checkpoint48d_pre
216    o in preparation for r*:
217      new S/R (calc_grad_phi_hyd.F) to compute Hydrostatic potential gradient.
218      pass the 2 comp. of the grad. as arguments to momentum S/R.
219      but for the moment, only used if it does not change the results.
220    o add finite volume form of calc_phi_hyd for buoyancyRelation OCEANIC & OCEANICP
221    
222  checkpoint48c_post  checkpoint48c_post
223  Modifications in treatment of initial flux forcing controls  Modifications in treatment of initial flux forcing controls
224  to avoid extra storing of flux fields.  to avoid extra storing of flux fields.

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