/[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 1.1743 by mlosch, Mon Sep 24 15:07:38 2012 UTC revision 1.1811 by jmc, Sun Jan 20 15:16:08 2013 UTC
# Line 4  $Name$ Line 4  $Name$
4      Notes on tags used in MITgcmUV      Notes on tags used in MITgcmUV
5      ==============================      ==============================
6    
7    o pkg/thsice:
8      - add a missing EXCH of sIceLoad in thsice_main.F (ocean set-up) for the case
9        where just seaice diffusion is used without seaice-dynamics.
10    
11    checkpoint64c (2013/01/18)
12    o pkg/seaice:
13      - add a parameter JFNKres_tFac that can replace JFNKres_t
14        (= JFNKres_tFac*JFNKresidual before JFNK solver)
15      - add a line search option to the JFNK solver
16      - move update of u/vIce and computation of initial residual into a separate
17        routine (same file); makes the code a little easier to read (?)
18      - the line search requires computation of the residual and for some reason
19        I cannot do the update of u/vIce at the beginning of the Newton loop
20        without changing the results, so we move computation of the new residual
21        also to the end of the Newton loop, even without the line search
22    o pkg/mdsio:
23      - write missing value (corresponding to undefined array value) to meta files;
24        skip this if missing value is one (UNSET_RL would be a better value for the
25        case of undefined missing value but it's current the default missing-value);
26        Also update mdsio_read_meta.F (reading timeInterval & missing-value).
27    o pkg/exf & thsice:
28      - for diagnostics purpose, fill-up and update Qsw array (+ fill the
29        diagnostics) even when SHORTWAVE_HEATING is #undef;
30    o verification/cfc_example:
31      - turn on pkg/layers with pkg/diagnostics (to test pkg/layers and to
32        illustrate how to use it).
33    o verification/offline_exf_seaice:
34      in input: add SEAICErestoreUnderIce=.TRUE., and reduce size of forcing
35        files to only one time-record.
36      in input.thermo: narrow the 2 bands of low initial ice-concentration near
37        N & S edges; switch on SEAICErestoreUnderIce=T; use pkg/diagnostics for
38        snapshot output; same mcPheePiston value as in thsice with
39        surf-current=0.2m/s.
40      in input.thsice: similar set-up as in input.thermo (channel with same seaice
41        initial conditions).
42    o verification/cfc_example:
43      - update file "data" with more standard choice (default rotationPeriod,
44        exactConserv=T, reduce ivdc_kappa to 10, remove multiDimAdvection=F,
45        set deltaTFreeSurf to deltaTtracer) and update the output.
46    o pkg/layers:
47      - fix bolus part so that it compiles with #undef GM_BOLUS_ADVEC;
48      - ensure that "layers_bolus" is switched to False when useGMRedi=False.
49    o verification/offline_exf_seaice:
50      - set all {field}period to zero for constant-in-time forcing (not tested
51        anywhere else).
52    o verification/offline_exf_seaice:
53      - dyn_lsr  : use pkg/seaice S/R (instead of pkg/thsice) to advect sea-ice;
54      - dyn_jfnk : use pkg/thsice S/R (instead of pkg/seaice) to advect sea-ice.
55    o model/src:
56      - implement Finite-Volume method for (hydrostatic) presure gradient
57        from S.-J. Lin (QJRMS 1997), for atmosphere using sigma-coordinate.
58    o pkg/seaice: implement EVP* by Lemieux et al. (2012).
59      - In order to be compatible with the default EVP code, this requires changing
60        the EVP code around a little; and because any small change immediately
61        breaks the lab_sea.hb87 verification experiment, the reference output is
62        updated two times (each time the remaining aggrement was only 2 digits):
63        - after replacing 1/dt by 1*recip_dt with a precomputed recip_dt
64        - after replacing 1/(1+0.5*dt/tau) by a/(a+1), with a=2*tau/dt
65        The adjoint test lab_sea.evp also needed to be updated.
66      - Turn on EVP* by setting SEAICE_deltaTevp as before, and setting
67        SEAICEuseEVPstar=.true.; for EVP* SEAICE_deltaTevp does not need to be
68        a factor of SEAICE_deltaTdyn, and you can set the number of EVP steps
69        explicitly with SEAICEnEVPstarSteps (thereby overriding the default of
70        INT(SEAICE_deltaTdyn/SEAICE_deltaTevp)). Controlling EVP* is deliberately
71        kept obscure, because I need to test it a little more.
72    o pkg/cheapaml:
73      - fix few incorrect type (_RL/_RS) in subroutine calls.
74    o pkg/seaice:
75      - new S/R SEAICE_MAP_RS2VEC (similar to SEAICE_MAP2VEC) to map _RS arrays
76        to _RL vector; this fixes JFNK code when compiling with "-use_r4" option.
77    o model/src:
78      - add a warning if using select_rStar=2 with nonlinFreeSurf <> 4;
79        change (in input_ad*/data) select_rStar from 2 to 1 for AD verification
80        experiments global_ocean.cs32x15 & tutorial_tracer_adjsens (+ update output)
81    o pkg/cheapaml:
82      - replace "273.1 _d 0" by celsius2K in pkg/cheapaml/cheapaml.F and
83        update output of experiment cheapAML_box.
84      - store in CHEAPAML.h coeffs ssq[0:2] for saturation specific humidity,
85        and set them only in one place (cheapaml_readparms.F).
86      - replace "273.16 _d 0" by celsius2K & replace "3.14159 _d 0" by constant "PI"
87      - remove re-setting of main-model parameter "celsius2K" (in cheapaml_readparms)
88        and re-setting of cheapAML params "lath" & "p0" (in cheapaml_init_varia).
89    o model/src/the_main_loop.F:
90      - fix revision 129 : need both ALLOW_ECCO and ALLOW_ECCO_EVOLUTION.
91    o pkg/seaice:
92      - remove legacy branch code.
93      - retire SEAICE_GROWTH_LEGACY and SEAICE_CAP_HEFF accordingly.
94    o verification/*/code*/SEAICE_OPTIONS.h:
95      - remove documentation for retired CPP flags (SEAICE_GROWTH_LEGACY,
96        SEAICE_CAP_HEFF).
97    o pkg/cheapaml:
98      - use standard routine (S/R GET_PERIODIC_INTERVAL) to decide when it is time
99        to load new forcing fields.
100      - add missing "_d 0" where it's needed; + some editing (improve indentation).
101      - remove switch to "-r8" compiler option (no longer needed) in verification
102        cheapAML_box, keep same output (small trucation error differences).
103    o verification/offline_exf_seaice:
104      - add thermodynamics only test.
105    o verification/cheapAML_box:
106      - split the domain in 8 (2x4) tiles; add MPI and multi-threaded test;
107        keep same output (same 14 digits for cg2d).
108      - switch on "-r8" compiler option (some numerical values are missing
109        the "_d 0") and update output (only 6 digits for cg2d were preserved).
110    
111    checkpoint64b (2012/12/24)
112    o pkg/cheapaml:
113      - remove un-used variables (Qnet,EmPmR) from pickup files.
114      - store tendency of advected variables into cheapaml pickup file
115        and fix the AB-2 restart.
116    o verification/offline_exf_seaice and lab_sea adjoint:
117      - switch to new code (#undef SEAICE_GROWTH_LEGACY).
118      - switch to 4 time steps in offline, consistent with lab_sea.
119      - match parameters from SEAICE_GROWTH_LEGACY branch in data.seaice.
120      - update results after change of experiment seaice.
121    o pkg/seaice:
122      - remove option SEAICE_MULTICATEGORY; has been replaced with run-time
123        parameter SEAICE_multDim. Issue a warning if SEAICE_MULTICATEGORY is
124        still defined since SEAICE_multDim needs to be set to MULTDIM value (from
125        SEAICE_SIZE.h) to recover previous #define SEAICE_MULTICATEGORY default.
126    o model/src:
127      - add run-time parameter to select CG2D solver minimum-residual solution
128        (in case of a poor convergence).
129    o pkg/seaice/seaice_lsr.F
130      - move calculation of matrix coefficients into new
131        S/R SEAICE_CALC_LSR_COEFFS; for now this routine remains in the same
132        file; the main purpose of this change is to be able to reuse the code
133        in S/R SEAICE_PRECONDITIONER
134      - modify the computation of the residual so that the mass of sea-ice
135        is not used twice; this simplifies the calculations, but since
136        the residual is never used except when LSR_mixIniGuess.ge.4---and this is
137        not tested in testreport---this does not affect the testreport results.
138    o verification/seaice_obcs:
139      - disable SEAICE_GROWTH_LEGACY; reset input files to match those of
140        verification/lab_sea/input.salt_plume; changes results/output.txt*
141    o model/src:
142      - adapt quasi-hydrostatic formulation to work with p or p* coordinate.
143    o pkg/seaice:
144      - improve description of parameters in seaice_fgmres.F and start
145        cleaning up the code
146      - change name of SCALPROD to SEAICE_SCALPROD and modify meaning of
147        second argument
148      - add a metric based on grid cell area to SEAICE_SCALPROD; update
149        results of offline_exf_seaice.dyn_jfnk
150      - compute initial residual norm in seaice_jfnk based on SEAICE_SCALPROD
151    o pkg/aim_v23:
152      - fix an other bug in dissipation heating (grid-cell area was missing).
153    o model/src + pkg/seaice:
154      - add global (multi-tile) linear solver for pair of tri-diagonal system
155        along X and Y lines, respectively for U and V component.
156        Note: 1) MPI and cube-exchange not yet coded.
157            2) probably not accurate for poorly conditioned / large size problem.
158      - add option for SEAICE_LSR to use global (multi-tile) tri-diagonal solver;
159        default: not compiled and not used.
160    o pkg/seaice:
161      - first attempt at a multi-threaded fgmres solver for the JFNK solver:
162        introduce bi/bj loops and use global_sum_tile_rl instead of
163        mpi_allreduce in seaice_fgmres.F
164      - improve diagnostics output for fgmres solver (seaice_fgmres.F)
165      - replace a few unnecessary goto statements by if-blocks  (seaice_fgmres.F)
166      - add a verification experiment for JFNK in offline_exf_seaice
167    o verification:
168      - change (for now, only fwd test) offline_exf_seaice experiment:
169        use a re-entrant channel with idealized coastline (trapezoidal shape)
170        at southern boundary to explore seaice dynamics and thermodynamics
171        with simple forcing. Main set-up has dynamics+thermo and SST relaxation;
172        secondary test (input.thsice) use thermodynamics only with SST relaxation.
173      - add seaice-dynamics only secondary test using LSR and pkg/thsice advection.
174    o pkg/exf:
175      - disable "sstExtrapol" when Nr=1
176    o verification:
177      - add new experiment "cheapAML_box" (simple 1 layer set-up from Bruno Deremble)
178        to test pkg/cheapaml.
179    o pkg/aim_v23 & pkg/shap_filt:
180      - fix dissipation heating (erroneous gravity multiplication factor).
181    o pkg/seaice:
182      - remove unused field pressPre from jfnk solver
183      - rename two subroutines in seaice_preconditioner.F
184    o eesupp/src:
185       - S/R MDSFINDUNIT avoids reserved unit numbers (scrUnit1, eeDataUnit ...)
186    o pkg/seaice/seaice_preconditioner.F: fix preconditioner once again
187       - remove wrong parts of the rhs and the lhs (were in there
188         because I did not understand the concept of this preconditioner)
189       - add an exchange between u- and v-sweep. This increases communication
190         by a factor of two but improves the convergence of jfnk. Ideally,
191         one would like the u- and v-sweep to be independent. So far within
192         undocumented ifdefs
193       - reorganize the extra computations for printing the residuals
194    o tools/genmake2:
195      - comment out the "mpif.h" include in NetCDF test programm (for MPI built)
196        since it's not necessary (and was preventing to use MNC in some cases).
197    
198    checkpoint64a (2012/11/16)
199    o pkg/autodiff:
200      - improve pkg-internal logical parameter switch (inAd/inFwd mode) so that
201        autodiff_readparms.F no longer depends on calling order (within
202        packages_readparms.F) and no longer requires to include ${PKG}_PARMS.h):
203        rename param turnFreeDriftInAdMode to SEAICEuseFREEDRIFTswitchInAd
204        and change param SEAICEuseDYNAMICSinAdMode to SEAICEuseDYNAMICSswitchInAd.
205    o pkg/obcs:
206      - adding tidal velocity forcing capability to obcs
207        for usage example, see verification/seaice_obcs/input.tides
208    o pkg/seaice:
209      - turn the LSR-relaxation parameters WFAU/V into runtime parameters
210        SEAICE_LSRrelaxU/V
211      - introduce runtime parameter SEAICEetaZmethod (=0 by default)
212    o pkg/aim_v23:
213      - implement heating from friction (bottom friction and stratospheric drag).
214    o pkg/shap_filt:
215      - fix diagnostic "SHAP_dKE" (was 2 time smaller); implement heating from
216        dissipation but only for Shap_funct=2, active when addFrictionHeating=T.
217    o model/src:
218      - move AddMass common block from DYNVARS.h to FFIELDS.h; allow to read-in
219        time-constant addMass field from file (addMassFile);
220      - support for heating due to friction (and Kinetic Energy dissipation):
221        add option, run-time switch and 3-D field array + support code ; each pkg
222        or S/R can add heating contribution (if there is a sink of KE); the sum is
223        accounted for as a Temperature tendency term (EXTERNAL_FORCING_T).
224    o pkg/seaice:
225      - complete merge of ITD code into seaice_growth.F
226        from MITgcm_contrib/torge/itd/code/
227        no verification so far, but Torge Martin tested
228        "1-D test case and Beaufort set up;
229        deliver okay results after 1 model year."
230      - complete merge of SEAICE_SIZE.h into all relevant routines
231      - move computation of eta at Z-points into calc_viscosities
232        + introduce global field etaZ
233        + add different methods for computing etaZ, for now the old
234          method (simple averages of eta to Z-points) is hardwired
235        + replace etaMeanZ by etaZ in seaice_lsr, seaice_calc_residual,
236          seaice_preconditioner
237      - simplify computations for SEAICE_ZETA_SMOOTHREG
238      - seaice_preconditioner:
239        + replace one remaining press by pressLoc (mistake)
240        + adjust printing of residuals
241      - improve I/O of diagnostics of JFNK in seaice_jfnk.F:
242        + add (SEAICE.h) and rename some counters (initiliased in
243          seaice_init_fixed.F)
244        + add _BEGIN/END_MASTER (myThid)  around print statements
245        + print total number of iterations and failures over SEAICE_monFreq
246          interval to STDOUT
247      - move control over output-messages by fgmres to seaice_jfnk to save
248        some operations
249      - move resetting initial guess for fgmres outside of seaice_fgmres_driver
250        in order to make restarts with sol .ne. zero (fgmres with restarts)
251        (seaice_jfnk.F, seaice_fgmres.F)
252      - seaice_calc_l/rhs.F: replace maskW/S by maskInW/S; this fixes
253        a serious convergence problem when open boundaries are involved
254    o pkg/ggl90: fix computation of control volumes for the case of
255      ALLOW_GGL90_HORIZDIFF (probably not used very often): move control volumes
256      up half a grid cell from C-centered to W-centered (pointed out by C. Eden)
257    o pkg/seaice: simplify seaice_evp by avoiding use of extra fields u/vIceC
258    o pkg/autodiff
259      - Add inAdMode switch for SEAICEuseDYNAMICS:
260        SEAICEuseDYNAMICSinAdMode
261        (extend logic in ADAUTODIFF_INADMODE_SET)
262    o pkg/seaice
263      - Step 1 of merging ice-thickness distribution (ITD) code from
264        MITgcm_contrib/torge/itd/ (author: Torge Martin)
265        The code implements concept laid out in Thorndike et al. (1975);
266        code is enabled via CPP flag SEAICE_ITD
267        nITD (in SEAICE_SIZE.h) defines number of ice thickness categories;
268        code is not complete yet!!
269      - SEAICE_SIZE.h now included in almost all seaice routines
270    o verification (using seaice):
271      - switch back seaice-dynamics (+ lower SOLV_MAX_ITERS) in ADM exp.
272        global_ocean.cs32x15.seaice ; update results.
273      - compile B-grid dynamics in FW test exp 1D_ocean_ice_column ;
274      - compile C-grid dynamics with #define SEAICE_ALLOW_JFNK in FW test exp
275        offline_exf_seaice (previously compiling B-grid).
276    o pkg/exf:
277      - fix some STOP conditions in exf_check.F (from Aug 28, modifs did not allow
278        to specify neither just 1 comp of wind or wind-stress, nor no surface momentum
279        forcing): just replace CPP option ALLOW_ATM_WIND with run-time param useAtmWind.
280    o pkg/layers (adjust changes from Sept 19):
281      - do snap-shot output and fill diagnostics from inside iLa loop (layers_calc.F)
282        this allows to remove "layers_maxNum" dimension from all layers arrays.
283    o pkg/layers (adjust changes from Sept 19):
284      - remove ALLOW_LAYERS_OUTPUT ; fix snap-shot and time-ave output ;
285      - snap-shot extended to all type of layers (not just the 1rst type);
286      - remove layers variables when corresponding CPP option is undef.
287    o pkg/layers:
288      - rename pkg/layers variable and add new output (layer exist & un-weighted
289        velocity in layer)
290    o pkg/seaice:
291      - simplify (?) ocean-drag coefficent computations by using
292        the same routine in all three solvers (saves some code lines)
293      - remove global fields DRAGA and DRAGS from C-grid code and
294        declare them locally in lsr.F (the only place where they are
295        still used)
296      - update AD output of lab_sea.evp (very sensitive anyway).
297    o pkg/seaice: add Jacobian-free Newton Krylov solver for ice dynamics
298      (Lemieux et al. 2010, 2012). Turn on with the usual SEAICE_ALLOW_JFNK
299      and SEAICEuseJFNK=.true. A few things to note:
300      - involves a FGMRES, that is parallel but very inefficient,
301        because of many scalar products (global sums) in the Gram-Schmidt
302        orthogonalization method. Needs to be replaced. Original code
303        from J.-F. Lemieux
304      - preconditioner for FGMRES is a stripped down version of LSOR
305      - SOLV_MAX_ITERS is now used for LSOR as a solver and as a
306        preconditioner. For the preconditioner, the default is set to 10.
307      - Jacobian times vector is computed with finite differences
308      - marginally related to JFNK-solver: add a smooth regularization for
309        zeta with tanh that will improve convergence (Lemieux and Tremblay,
310        2009) for any implicit solver (not implemented for EVP because EVP
311        does not need this regularization in the first place). Define
312        SEAICE_ZETA_SMOOTHREG in SEAICE_OPTIONS.h to use.
313    o eesupp/src:
314      - check in genmake2 that intrinsic S/R flush is available.
315      - add S/R to flush IO unit (if intrinsic S/R flush is available)
316      - flush standard & error msg unit before MPI termination
317      - if debugMode, flush IO unit after printing msg
318    o pkg/ctrl:
319      - ctrl_unpack.F, ALLOW_GENARR3D_CONTROL code: fix missing argument in call
320        to ctrl_set_unpack_xyz.
321    
322    checkpoint64 (2012/10/09)
323    o pkg/shelfice
324      - in mom_fluxform.F, mom_vecinv.F:
325        CALL SHELFICE_V_DRAG(bi,bj,k,vFld,KE,KappaRU,vF,myThid)
326        Bug fix KappaRU -> KappaRV
327        does not change verification/isomip but may change other setups
328        (presumably constant KappaRU=KappaRV)
329      - fix diagnostics SHIU/Vdrag (thanks to Tom Millgate)
330    o pkg/obcs:
331      - fixed some indexing bugs in obcs_seaice_sponge.F
332      - added obcs relaxation subroutines for HSALT and HSNOW
333      - changes verification/seaice_obcs/results/obcs_seaice_sponge.F
334  o pkg/seaice:  o pkg/seaice:
335    - add "multicategory" parameterization for snow in analogy to ice,    - add "multicategory" parameterization for snow in analogy to ice,
336      default is off for now.      default is off for now.

Legend:
Removed from v.1.1743  
changed lines
  Added in v.1.1811

  ViewVC Help
Powered by ViewVC 1.1.22