/[MITgcm]/MITgcm/doc/tag-index
ViewVC logotype

Diff of /MITgcm/doc/tag-index

Parent Directory Parent Directory | Revision Log Revision Log | View Revision Graph Revision Graph | View Patch Patch

revision 1.519 by heimbach, Thu Jul 28 14:35:47 2005 UTC revision 1.615 by jmc, Thu Mar 2 02:03:39 2006 UTC
# Line 4  $Name$ Line 4  $Name$
4      Notes on tags used in MITgcmUV      Notes on tags used in MITgcmUV
5      ==============================      ==============================
6    
7  o adding precip control xx_precip  o change the default rotation period to 86164.s = the Earth rotation
8  o moved ptracer ctrl index 17 -> 32  o 1rst implementation of Implicit IGW using the 3-D solver (use3Dsolver=T)
9      and based on a reference stratification. Tested within hs94.cs-32x32x5.
10    o seaice advection: add code for choosing between the default (2nd order
11      central differences) and multiDim advection schemes provided by
12      pkg/generic_advdiff
13    o seaice:
14      - removed all references to SEAICE_GRID.h fields from
15        dynsolver, advect, diffus, lsr, without changing the results of lab_sea
16        (cubed-sphere configuration will change a little)
17      - grid computations in seaice_init are obsolete now.
18      - cleaned up code a little so that is easier to read (hopefully).
19      - added new (better?) discretizations of default advection and diffusion
20        (turn on with SEAICEuseFluxForm)
21      - replace 1 in 3d global fields by kSurface in growth.F
22      
23    checkpoint58a_post
24    o seaice:
25      - bug fix in advect.F
26    o shelfice:
27      - separate shelfice load anomaly from pload (breaks with time
28        dependent forcing), => introduce constant field shelficeLoadAnomaly.
29        Its default is 0., but it may be computed more cleverly from (unknown)
30        t- and s-profiles (tRef, sRef) and actual EOS. For now this has to be
31        done offline. A good approximation of the pressure load anomaly is
32        necessary to avoid large initial adjustment processes underneath
33        deep-reaching shelfice.
34      - small fix in ISOMIP shelfice_thermodynamics
35      - add more sophisticated thermodynamics of Hellmer (1989), this is
36        now the default
37      - give a few constants more intuitive names
38    o add code to balance EmPmP and Qnet at the end of do_ocean_physics. Useful
39      if bulk formulae are used in long integration (especially EmPmR). Turn
40      on with balanceEmPmR = .true. or balanceQnet = .true. in data, PARM01
41      if balancePrintMean, the imbalance that is substracted is printed to
42      STDOUT.
43    o fix bug (typo) in obcs_apply_eta.F
44    o add a new package shelfice which enables us to model the circulation
45      underneath shelf-ice with draughts of hundreds of meters.
46     - works
47     - to do: + include improved thermodynamics
48              + check whether kSurfC (from model/inc/SURFACE.h) can be used
49                instead of new field kTopC
50              + can we use topoFile, Ro_surf and existing code in ini_depth.F
51                instead of new field R_shelfIce and new code in ini_depth.F
52                and ini_mask_etc.F?
53              + adjust vertical mixing schemes?
54    o seaice pkg:
55     - add a cpp-flag to include a simple formula for a salinity dependent
56       freezing point of sea water at the surface
57     - change the contents of SEAICE_TEST_ICE_STRESS_1 so that zonal and
58       meridional stresses are now different (and hopefully correct)
59    o AIM pkg: change threshold on large-scale condensation to conserve Heat.
60       update results of aim.5l_LatLon test ; fix title & units of AIM diagnostics
61       and  change 3 diagnostics names (OSR,OSRCLR,KM -> TSR,TSRCLR,DRAG)
62    o pkg/diagnostics: add options and parameters for regional-statistics
63       diagnostics ; define regions by reading a region-mask from a file
64       (might add other options later)
65    o pkg/bulk_force:
66     - add option and parameters to use AIM surface-flux formulae.
67     - Change loading part: S/R BULKF_FIELDS_LOAD only take care of bulkf_fields ;
68       others forcing fields (defined in PARM05, parameter file "data") are loaded
69       from S/R EXTERNAL_FIELDS_LOAD, as usually (with useBulkforce = T or F).
70     - initialise all bulkf_fields in bulkf_init.F ; do in-lining of exf_bulkcdn.F
71     - use the right EXCH call for uwind,vwind (to work on CS-grid).
72     - re-arrange header files (move parameters from BULKF.h to BULKF_PARAMS.h)
73       and parameters (note: calcWindStress replaces .NOT.readwindstress).
74     - cleaner interface with pkg/thSIce (new S/R THSICE_GET_PRECIP).
75    
76    checkpoint58
77    o add "--embed-source" option to genmake2 which, when the supporting
78      tools can be compiled (as determined by genmake2) will turn on the
79      embed_files package which then embeds the entire MITgcm source code
80      (*.[fFhc] + Makefile) used for the build within the executable
81      - requested by CNH but off by default
82      - adds a paltry <9MB to the mitgcmuv executable in most cases
83      - only writes the output when useEMBEDSRC in eedata is true
84    o clean up 3-dim. relaxation codes:
85      * Fix I/O inconsistency in pkg/rbcs: replace precFloat32 by readBinaryPrec
86      * Remove 3-dim. relaxation code from pkg/exf (now use only pkg/rbcs)
87      * Thanks to Tom Haine for testing!
88    
89    checkpoint57z_post
90    o make CG3D solver compatible with Free-surface at k > 1 (p-coordinate):
91      affects output (@ truncation level) of exp. plume_on_slope ; updated.
92    o fix the pickup behavior for obcs in combination with ptracers
93    o fix a bug in ptracers_external_fields_load
94    o no AB-2 at the first iteration for Gw (consistent with Gu,Gv,Gt,Gs ...)
95      affects results of NH experiments (but all our NH tests have Gw[it=1]==0 !!)
96    o transfered surface NH pressure to eta field (if exactConserv).
97    o gmredi: fix bugs in slope tapering ldd97 (depthZ had the wrong sign)
98         and update lab_sea output.txt file.
99    o completing 3-dim. relaxation code: additional term
100         1/tau*( theta(i,j,k) - thetaStar(i,j,k) )
101      in S/R EXTERNAL_FORCING_T (file external_forcing.F)
102      * At compile time, in "EXF_OPTIONS.h" set
103          #define  ALLOW_CLIMTEMP_RELAXATION
104          #define  ALLOW_CLIMSALT_RELAXATION
105      * At runtime in "data", under &PARM03 set (e.g., units in seconds)
106          tauThetaClimRelax3Dim = 15552000.0,
107          tauSaltClimRelax3Dim  = 15552000.0,
108      * 3 cases:
109          1) Use a constant-in-time 3-dim. field
110          2) Provide 12 3-dim. fields corresponding to Jan., ... , Dec.
111          3) Real-time relax. to time-evolving prescribed field
112    o Adding Laplacian-type smoothness constraint on
113      initial and boundary (forcing) controls (ic, bc)
114      * enable at compile-time via
115        ALLOW_SMOOTH_IC_COST_CONTRIBUTION, ALLOW_SMOOTH_BC_COST_CONTRIBUTION
116      * enable at run-time via mult_smooth_ic = 1, mult_smooth_bc = 1
117      * Absolute scale somewhat unclear so far
118      * no area weighting was included since no other cost term does so far
119    
120    checkpoint57y_post
121    First step for a NLFS adjoint
122    o initially suppress rStar (new flag DISABLE_RSTAR_CODE)
123    o new init. routines for calc_r_star, calc_surf_dr
124    o still need to deal with ini_masks_etc
125    o testreport seemed happy
126    checkpoint57y_pre
127    
128    o obcs: always reset wVel & eta (to zero or prescribe it) at the OBs.
129    o add new package rbcs (for relaxing ptracers at boundaries/depth/surface etc)
130    o add new offset feature to offline pkg (plus minor cleanup)
131    o cfc fixes for final year of integration
132    o clean up GCHEM_OPTIONS.h/DIC_OPTIONS.h (all options should
133      be in GCHEM_OPTIONS).
134    
135    checkpoint57x_post
136    o fix testreport Pb in multiple test experiment.
137    o cleanup our namelist syntax in verification:
138      - make it more F95 standards compliant (some work still needed)
139      - allows the vast majority of our tests to work with gfortran
140    o Non-Hydrostatic:
141     - put all NH variables (formerly in DYNVARS.h & GW.h) in NH_VARS.h
142     - fix exchange calls for CS-grid using the new EXCH_S3D_RL.
143    o Allow to apply AB on T,S rather than on AB(gT,gS):
144     - implemented within #ifdef ALLOW_ADAMSBASHFORTH_3
145     - use the same arrays (gtNm,gsNm) to hold tracer field at previous
146       time-steps (if AB(T,S)) and tendencies (if AB(gT,gS)).
147     - need a "clever" read_pickup to restart from the other AB formulation
148    o move local commom bloc /GlobalLo/ (used for singleCpuIO) in EESUPPORT.h
149    o remove some unused variables (reduces number of compiler warnings)
150    o adjoint
151      * Disable useVariableViscosity for adjoint for time being
152        (there are a number of extensive recomputations)
153      * Initialize certain variables needed for adjoint
154    
155    checkpoint57w_post
156    o pkg/mdsio: use MAX_LEN_FNAM (instead of hard coded 80) for file-names
157                 fix the singleCpuIO RS version of MDSWRITEFIELD
158       and add a WARNING if using globalFiles=T with multi-processors.
159    o write grid-file(s) in only one format (MDS or MNC): default=MNC (if
160      using MNC); can force MDS output by setting writegrid_mnc=F in data.mnc
161    o tracer advection scheme:
162      add DST-2 (=Lax-Wendroff) & 1rst order upwind schemes (the way to get
163       those 2 schemes before, changing GAD_FLUX_LIMITER.h + to recompile,
164       was not very convenient).
165      add implicit version for DST-3 & DST3_Flux_Limit vertical advection;  
166       (further tests needed for the implicit DST & Flux-Limiter schemes).
167    o PTRACERS: added namelist parameter PTRACERS_ref in analogy to tRef
168      and sRef for convenience, handy, when you want to initialize
169      ptracers in a large domain with a constant non-zero value. Also,
170      untangle ptracers_init.F a little.
171    
172    checkpoint57v_post
173    o change dome exp. to use variable viscosity in side-drag terms.
174    o remove all the files from the cfc_offline test since they are now
175      incorporated into tutorial_cfc_offline which has been producing
176      identical results for a few days of testing
177    o add new parameter: sideDragFactor to enable half-slip-side BC
178      and change side-drag S/R to use viscosity from mom_calc_visc
179      (can switch back by setting sideDragFactor=0.); affects results at
180      truncation level; regenerate output for exp.: global_ocean.cs32x10(x3),
181       global_ocean_ebm, global_ocean_pressure, matrix_example & MLAdjust(x5).
182    o vorticity & strain are now computed without masking, to account for
183      no-slip-side BC in variable viscosity calculation ; mask is applied
184      anyway later on, before computing advection/coriolis terms.
185    o modify exp4 to test new obcs support for reading from external files
186      and for passive tracers
187    o fix behavior of ptracers_monitor when monitor output is written to a
188      netcdf-file; still not independent of monitor.F (writes in the same
189      file).
190    o change default value of tRef (put a uniform, meaningful value for ocean
191      & atmos) and initialize sRef (was missing, as Martin mentioned).
192    o Redefine viscC?Leith*.  Change the coefficients of Leith viscosity
193      to be proportional to enstrophy dissipation length.  Thus,
194       viscC?leith?_new=pi*(viscC?leith?_old)^(1/3)
195      This is now consistent with Smagorinsky and with the manual.
196    
197    checkpoint57u_post
198    o OBCS and PTRACERS: add open boundary support for passive tracers
199      - either use homogenous (pseudo) v.Neumann conditions or prescribe
200        OB-values from file; this is not different from the way theta and salinity
201        are treated
202      - however, Orlanski-radiation conditions are not supported, and the model
203        will stop if you use pTracers and Orlanski at the same time.
204      - beefed up the rountine obcs_external_fields_load: now only those open
205        boundary values are overwritten with values from files for which there
206        are really files, otherwise the OB-fields remain untouched. This makes
207        it possible to use different OBs at different ends of the domain (as
208        with EXF)
209    o reduce number of exch calls in shap_filt (s2).
210    o CS-grid: fix divergence contribution to Leith viscosity. Affects (@
211      truncation level) 4/5 MLAdjust test results (11&12 digits match).
212    
213    checkpoint57t_post
214    o test biharmonic viscosity + no-slip with exp: global_ocean.cs32x15.viscA4
215    o finish adding brackets (coriolis S/R, vecinv) in multi-terms sum to get
216      same truncation, independent of the face number: affects affects several
217      test. exp.: Update global_ocean.cs32x15 (+.thsice) & MLAdjust (all 5).
218    o fix bug in mom_v_sidedrag (biharmonic viscosity was counted 2 times);
219      note that biharmonic viscosity + no-slip was not tested in any experiment.
220    o fix bug in non-linear free-surf side-drag ; generate new output for
221      global_ocean.cs32x15(+.thsice) & global_ocean_pressure.
222    o make mnc honor the writeBinaryPrec flag for most kinds of output
223    o eesupp: split EEPARAMS into EESIZE/EEPARAMS and add a vector global sum
224    o minor change in averaging W (mom_vi_?_vertshear.F) that affects truncation
225      error; update output from global_ocean.cs32x15(+.thsice) & MLAdjust (all 5).
226    o add brackets in multi-terms sum to get same truncation, independent of
227      the face number (manage to get exactly same value of gU,gV at the cs-edge)
228      affects several test. exp. Update global_ocean.cs32x15 (+.thsice).
229    o Clean, new version of mom_calc_visc.  Adds a new feature, viscAhRemax
230      and viscA4Remax, which allow one to limit the minimum viscosity by specifying
231      a maximum grid-scale Reynolds number.  Also, changes all length calculations
232      in the case of grid anisotropy to geometric mean of dx**2 and dy**2.
233      Suggested values of viscosity parameters found in mom_calc_visc.
234      Many new viscosity diagnostics available.
235    
236    checkpoint57s_post
237    o Add clearing-house for viscosity calculations, mom_calc_visc and
238      correct numerous bugs in LeithD and Smagorinsky discretizations.  
239      mom_calc_visc now allows for Smagorinsky, Leith and LeithD to be
240      used simultaneously, and to be used in mom_vecinv and mom_fluxform.
241      Mom_vecinv can be used with standard viscous calculation (mom_vi_hdissip.F)
242      and with Strain-Tension viscous term calculation (mom_hdissip.F).  
243      The Strain-Tension form is now called with useStrainTensonVisc=.true.
244      ViscAhStrain and viscAhTension are now retired.
245    o diagnostics "VISCAHD" & "VISCA4D" replace "VISCAH" & "VISCA4".
246    o In response to JMC's bug report, genmake2 now ignores any soft-links
247      that it finds in the *current* directory when searching for files.
248      Soft-links found in any other source directories will still work as
249      they did before.
250    o add HAVE_SETRLSTK define and useSETRLSTK flag (eedata) which calls
251      a C routine to unlimit the stack size
252    o mnc-ify pkg/aim snapshot vars
253    o mnc-ify pkg/land as requested by Daniel
254    o various changes to mnc including:
255      - all files use the new "BASENAME[[.ITER].{t|f}NUM].nc" format
256      - output can now be grouped so that all files within a group
257          change the ITER portion of their names in lock-step together
258      - can now read ("global") PER-FACE (in addition to PER-TILE) files
259          and works with both EXCH1 and EXCH2 (but needs more testing)
260      - writing works for all verification test cases w/ g77 on Linux
261    
262    checkpoint57r_post
263    o make MNC variable initialization happen earlier
264    o add diagnostics for (almost) each term of the momentum Eq.
265    o remove SST,SSS,UVEL_k2,VVEL_k2 diagnostics.
266    o move pkg timeave out of pkg-groups "oceanic" & "atmospheric" (pkg/pkg_groups)
267    o remove MINIMAL_TAVE_OUTPUT option ;
268      add "dumpInitAndLast" to replace "nodumps" (and MINIMAL_TAVE_OUTPUT).
269    o move some basic S/R (used elsewhere in the code) from pkg/mdsio to eesupp/src
270      allows to compile without pkg/mdsio (& test successfully hs94.1x64x5)
271    o add MNC output for adjoint of EXF (adexf), SEAICE (adseaice)
272    o add time-dependent SST, SSS control
273    o cost terms in ecco/ modularized (new cost_generic.F)
274    o cost_averages routines are modularized (new cost_averagesgeneric.F)
275    o new infrastructure for seaice model vs. obs misfits in seaice/
276      * driver from the_main_loop.F is seaice_cost_driver.F
277      * first term is AREA vs. SMR observation misfit (ALLOW_SEAICE_COST_SMR_AREA)
278      * gradient check in Exp. 6a of natl_box_adjoint/
279    o natl_box_adjoint input_seaice for Lab. Sea now available online via wget
280      (see README file)
281    
282    checkpoint57q_post
283    o fix initialisation Pb in calc_gw (get NANs in exp5 with g77)
284    o fix annoying months-old bug in mnc/mdsio output for seaice pkg
285      - bug was reported by Jean-Michel and Ian Fenty
286    o fix initialization Pb in AIM-Ocean coupled model (aim_sice2aim.F)
287      update exp. cpl_aim+ocn output.
288    o Implement 4-level checkpointing: AUTODIFF_4_LEVEL_CHECKPOINT
289      Needed for high-res. runs with large global files
290      to be able to limit tapelev size
291    o Changed some tests for adjoint:
292      * carbon/ now tests AUTODIFF_2_LEVEL_CHECKPOINT
293      * natl_box_adjoint/code_bulk/ tests AUTODIFF_4_LEVEL_CHECKPOINT
294      * global_ocean.90x40x15/ back to default 3-level checkpointing
295    o Modifications to enable scripted COMMON to MODULE conversion
296      * verification/OpenAD/code/ has necessary scripts and description;
297      * converts, compiles and runs successfully;
298    
299    checkpoint57p_post
300    o reading of delXfile & delYfile moved from ini_parms.F to ini_grid.F
301    o move ${PKG}_MNC_INIT from ${PKG}_READ_PARAMS to ${PKG}_INIT_FIXED
302      (already the case for some pkgs, including recent MNC_init, e.g. thsice)
303    o call CALC_GW from DYNAMICS (instead of from FORWARD_STEP)
304    o Dissipation & phiHyd gradient are always added to gU,gV in timestep.F
305      (was already the case for dissipation with mom_vecinv,
306       and also the case for grad.PhiHyd when staggered-timeStep)
307      This will allow to put dissipation out-off the AB time-stepping.
308     Unfortunately, affects truncation error. Update output of exp. that "fails"
309      (cg2d matching number) and leave the others for later: front_relax(10),
310      global_ocean_pressure(10),ideal_2D_oce(10),internal_wave(9),lab_sea(12),
311      matrix_example(7!),natl_box(12),plume_on_slope(11),vermix(12x3,11x2).
312    
313    checkpoint57o_post
314    o fix MNC/MDSIO flags in PTRACERS so that (1) it works, and
315      (2) its ready to be documented during the 20050801 DocFest
316    o MNC-ify the gmredi package -- tested and works w/ and w/o mnc
317      for ideal_2D_oce and lab_sea on linux_ia32_g77
318    o set to #undef CTRL_SET_OLD_MAXCVARS_30
319      in global1x1_tot/code_seaice_adj to access indices 32, 33
320      (worth another tag)
321    
322    checkpoint57n_post
323    o adding precip control xx_precip 32
324    o adding swflux control xx_swflux 33
325    o Replacing 10 forcing penalty cost routines by 1 generic.
326    o Implementing partitioning in time-mean and variable adjustment
327      for atmos. state.
328    o Time-mean constant error is now read in data.ecco (instead of hard-coded)
329  o in natl_box_adjoint:  o in natl_box_adjoint:
330    * updated: results_bulk/    * updated exp 1 to 10
331    * not yet updated: results/, results_seaice/      (but does not have time-mean vs. variable split results yet)
332    o updated global1x1/*_seaice_adj/
333      to incorporate latest changes
334    o enable useSingleCpuIO for mdsio vector routines
335      (applies in particular to tapelev I/O)
336    o removed inefficient K-loop in all active_file*control*.F
337    
338  checkpoint57m_post  checkpoint57m_post
339  o re-arrange exp. adjustment.cs-32x32x1 (adjust_nlfs.cs-32x32x1 merge into)  o re-arrange exp. adjustment.cs-32x32x1 (adjust_nlfs.cs-32x32x1 merge into)

Legend:
Removed from v.1.519  
changed lines
  Added in v.1.615

  ViewVC Help
Powered by ViewVC 1.1.22