/[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 1.1760 by mlosch, Tue Nov 6 12:31:30 2012 UTC revision 1.1823 by jmc, Tue Feb 12 22:26:11 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/seaice/seaice_calc_l/rhs.F: replace maskW/S by maskInW/S; this fixes  o utils/matlab:
8    a serious convergence problem when open boundaries are involved    - fix tile-offset in rdmnc.m when output was produced using EXCH2.
9  o pkg/ggl90: fix computation of control volumes for the case of    - update cs_grid/bk_line scripts to use load_grid.m (in utils/matlab)
10        instead of local script "load_cs.m".
11    o pkg/seaice:
12      - fix a serious bug in seaice_fgmres.F, s/r seaice_scalprod, connected
13        to the scalarProductMetric and the unrolling. By chance this does not
14        change the verification experiment, because of the particular domain
15        decomposition
16    o pkg/diagnostics:
17      - change default missing_value from UNSET_RL to -999.
18    o pkg/layers: improve vectorization of layers_fluxcalc.F
19      - step 1: split loops, make TatU/V 2D arrays. This alone reduces the cpu
20        time spent in this routine by more than a factor of 3 on an NEC-SX8
21      - step 2: replace search algorithm by a bisection algorithm found in
22        Press et al. Numerical Recipes in Fortran. This algorithm can be
23        vectorized and finds the correct bin in approx. log2(Nlayers) steps.
24        For now, use this algorithm only for TARGET_NEC_SX defined.
25      - moved the search algorithm into a separate subroutine, that is kept
26        within the same file for automatic inlining.
27      - modified catching potential errors
28    o pkg/ecco:
29      - add compile switches ALLOW_SHALLOW_ALTIMETRY and ALLOW_HIGHLAT_ALTIMETRY.
30    o model/src, pkg/autodiff, pkg/ctrl, pkg/grdchk :
31      - modifications for ALLOW_GENTIM2D_CONTROL
32      -- forward_step.F, the_main_loop.F : pass options and arrays for adjoint tapes.
33      -- load_fields_driver.F : add call to CTRL_MAP_GENTIM2D( myTime, myIter, myThid )
34      -- add xx_gentim2d0/1 in ctrl_ad_check_lev1_dir.h checkpoint_lev1_directives.h etc
35      -- use ctrl_swapffields.F (new) instead of exf_SwapFFields.F in ctrl_get_gen.F
36    o model/src:
37      - account for moist thermodynamics in (dry) potential temperature equation;
38        update results of experiments: aim.5l_cs (x2), fizhi-cs (std + aqualev)
39        and cpl_aim+ocn.
40      - also switch to standard compiler (gfortran, was using ifort previously)
41        for fizhi-cs experiments reference output.
42    o pkg/ctrl:
43      - 1st step toward generic time-varying control variable (2D) via CPP option
44        ALLOW_GENTIM2D_CONTROL
45      - note new namelist ctrl_nml_genarr in data.ctrl
46    o verification/global_ocean.cs32x15:
47      - switch off OLD_THSICE_CALL_SEQUENCE (both forward and AD code) to use new
48        thsice calling sequence and update "output.icedyn.txt" output file.
49    o pkg/ptracers:
50      - from Ryan A.: code to allow to restart a tracer at regular time interval
51        specifying a reset frequency and a reset-phase (for each tracers).
52    o pkg/thsice:
53      - implement new sequence of calls for thsice+seaice:
54          previously:   ice-Dyn,ice-Advect,ice-Thermo(thsice)
55          new sequence: ice-Thermo(thsice),ice-Dyn,ice-Advect
56      - allows (with temporary CPP option "#define OLD_THSICE_CALL_SEQUENCE"
57        in CPP_OPTIONS.h) to recover old sequence;
58      - update diagnostics for Intermediate State thsice diagnostics: now filled
59        just before advection (instead of just after advection in old sequence);
60      - update output of experiment offline_exf_seaice (standard test);
61      - in global_ocean.cs32x15 exp., postpone output.icedyn.txt update
62        by setting #define OLD_THSICE_CALL_SEQUENCE in CPP_OPTIONS.h
63    o pkg/aim_v23:
64      - use tiled array for aim_CO2 and surface wind speed for export to coupler;
65      - use standard pkg/mdsio routines to read & write CO2 pickup file;
66      - in-line S/R AIM_AIM2DYN_EXCHANGES in aim_do_physics.F;
67      - Implement new sequence of calls for seaice advection (with thsice and
68        seaice diffusion): do ice advection after ice-Thermodynamic (previously
69        was done before); change aim_do_physics.F (split the bi,bj loops block);
70      - use same CPP option (OLD_THSICE_CALL_SEQUENCE) to recover old sequence;
71    o pkg/thsice:
72      - add a missing EXCH of sIceLoad in thsice_main.F (ocean set-up) for the case
73        where just seaice diffusion is used without seaice-dynamics.
74    
75    checkpoint64c (2013/01/18)
76    o pkg/seaice:
77      - add a parameter JFNKres_tFac that can replace JFNKres_t
78        (= JFNKres_tFac*JFNKresidual before JFNK solver)
79      - add a line search option to the JFNK solver
80      - move update of u/vIce and computation of initial residual into a separate
81        routine (same file); makes the code a little easier to read (?)
82      - the line search requires computation of the residual and for some reason
83        I cannot do the update of u/vIce at the beginning of the Newton loop
84        without changing the results, so we move computation of the new residual
85        also to the end of the Newton loop, even without the line search
86    o pkg/mdsio:
87      - write missing value (corresponding to undefined array value) to meta files;
88        skip this if missing value is one (UNSET_RL would be a better value for the
89        case of undefined missing value but it's current the default missing-value);
90        Also update mdsio_read_meta.F (reading timeInterval & missing-value).
91    o pkg/exf & thsice:
92      - for diagnostics purpose, fill-up and update Qsw array (+ fill the
93        diagnostics) even when SHORTWAVE_HEATING is #undef;
94    o verification/cfc_example:
95      - turn on pkg/layers with pkg/diagnostics (to test pkg/layers and to
96        illustrate how to use it).
97    o verification/offline_exf_seaice:
98      in input: add SEAICErestoreUnderIce=.TRUE., and reduce size of forcing
99        files to only one time-record.
100      in input.thermo: narrow the 2 bands of low initial ice-concentration near
101        N & S edges; switch on SEAICErestoreUnderIce=T; use pkg/diagnostics for
102        snapshot output; same mcPheePiston value as in thsice with
103        surf-current=0.2m/s.
104      in input.thsice: similar set-up as in input.thermo (channel with same seaice
105        initial conditions).
106    o verification/cfc_example:
107      - update file "data" with more standard choice (default rotationPeriod,
108        exactConserv=T, reduce ivdc_kappa to 10, remove multiDimAdvection=F,
109        set deltaTFreeSurf to deltaTtracer) and update the output.
110    o pkg/layers:
111      - fix bolus part so that it compiles with #undef GM_BOLUS_ADVEC;
112      - ensure that "layers_bolus" is switched to False when useGMRedi=False.
113    o verification/offline_exf_seaice:
114      - set all {field}period to zero for constant-in-time forcing (not tested
115        anywhere else).
116    o verification/offline_exf_seaice:
117      - dyn_lsr  : use pkg/seaice S/R (instead of pkg/thsice) to advect sea-ice;
118      - dyn_jfnk : use pkg/thsice S/R (instead of pkg/seaice) to advect sea-ice.
119    o model/src:
120      - implement Finite-Volume method for (hydrostatic) presure gradient
121        from S.-J. Lin (QJRMS 1997), for atmosphere using sigma-coordinate.
122    o pkg/seaice: implement EVP* by Lemieux et al. (2012).
123      - In order to be compatible with the default EVP code, this requires changing
124        the EVP code around a little; and because any small change immediately
125        breaks the lab_sea.hb87 verification experiment, the reference output is
126        updated two times (each time the remaining aggrement was only 2 digits):
127        - after replacing 1/dt by 1*recip_dt with a precomputed recip_dt
128        - after replacing 1/(1+0.5*dt/tau) by a/(a+1), with a=2*tau/dt
129        The adjoint test lab_sea.evp also needed to be updated.
130      - Turn on EVP* by setting SEAICE_deltaTevp as before, and setting
131        SEAICEuseEVPstar=.true.; for EVP* SEAICE_deltaTevp does not need to be
132        a factor of SEAICE_deltaTdyn, and you can set the number of EVP steps
133        explicitly with SEAICEnEVPstarSteps (thereby overriding the default of
134        INT(SEAICE_deltaTdyn/SEAICE_deltaTevp)). Controlling EVP* is deliberately
135        kept obscure, because I need to test it a little more.
136    o pkg/cheapaml:
137      - fix few incorrect type (_RL/_RS) in subroutine calls.
138    o pkg/seaice:
139      - new S/R SEAICE_MAP_RS2VEC (similar to SEAICE_MAP2VEC) to map _RS arrays
140        to _RL vector; this fixes JFNK code when compiling with "-use_r4" option.
141    o model/src:
142      - add a warning if using select_rStar=2 with nonlinFreeSurf <> 4;
143        change (in input_ad*/data) select_rStar from 2 to 1 for AD verification
144        experiments global_ocean.cs32x15 & tutorial_tracer_adjsens (+ update output)
145    o pkg/cheapaml:
146      - replace "273.1 _d 0" by celsius2K in pkg/cheapaml/cheapaml.F and
147        update output of experiment cheapAML_box.
148      - store in CHEAPAML.h coeffs ssq[0:2] for saturation specific humidity,
149        and set them only in one place (cheapaml_readparms.F).
150      - replace "273.16 _d 0" by celsius2K & replace "3.14159 _d 0" by constant "PI"
151      - remove re-setting of main-model parameter "celsius2K" (in cheapaml_readparms)
152        and re-setting of cheapAML params "lath" & "p0" (in cheapaml_init_varia).
153    o model/src/the_main_loop.F:
154      - fix revision 129 : need both ALLOW_ECCO and ALLOW_ECCO_EVOLUTION.
155    o pkg/seaice:
156      - remove legacy branch code.
157      - retire SEAICE_GROWTH_LEGACY and SEAICE_CAP_HEFF accordingly.
158    o verification/*/code*/SEAICE_OPTIONS.h:
159      - remove documentation for retired CPP flags (SEAICE_GROWTH_LEGACY,
160        SEAICE_CAP_HEFF).
161    o pkg/cheapaml:
162      - use standard routine (S/R GET_PERIODIC_INTERVAL) to decide when it is time
163        to load new forcing fields.
164      - add missing "_d 0" where it's needed; + some editing (improve indentation).
165      - remove switch to "-r8" compiler option (no longer needed) in verification
166        cheapAML_box, keep same output (small trucation error differences).
167    o verification/offline_exf_seaice:
168      - add thermodynamics only test.
169    o verification/cheapAML_box:
170      - split the domain in 8 (2x4) tiles; add MPI and multi-threaded test;
171        keep same output (same 14 digits for cg2d).
172      - switch on "-r8" compiler option (some numerical values are missing
173        the "_d 0") and update output (only 6 digits for cg2d were preserved).
174    
175    checkpoint64b (2012/12/24)
176    o pkg/cheapaml:
177      - remove un-used variables (Qnet,EmPmR) from pickup files.
178      - store tendency of advected variables into cheapaml pickup file
179        and fix the AB-2 restart.
180    o verification/offline_exf_seaice and lab_sea adjoint:
181      - switch to new code (#undef SEAICE_GROWTH_LEGACY).
182      - switch to 4 time steps in offline, consistent with lab_sea.
183      - match parameters from SEAICE_GROWTH_LEGACY branch in data.seaice.
184      - update results after change of experiment seaice.
185    o pkg/seaice:
186      - remove option SEAICE_MULTICATEGORY; has been replaced with run-time
187        parameter SEAICE_multDim. Issue a warning if SEAICE_MULTICATEGORY is
188        still defined since SEAICE_multDim needs to be set to MULTDIM value (from
189        SEAICE_SIZE.h) to recover previous #define SEAICE_MULTICATEGORY default.
190    o model/src:
191      - add run-time parameter to select CG2D solver minimum-residual solution
192        (in case of a poor convergence).
193    o pkg/seaice/seaice_lsr.F
194      - move calculation of matrix coefficients into new
195        S/R SEAICE_CALC_LSR_COEFFS; for now this routine remains in the same
196        file; the main purpose of this change is to be able to reuse the code
197        in S/R SEAICE_PRECONDITIONER
198      - modify the computation of the residual so that the mass of sea-ice
199        is not used twice; this simplifies the calculations, but since
200        the residual is never used except when LSR_mixIniGuess.ge.4---and this is
201        not tested in testreport---this does not affect the testreport results.
202    o verification/seaice_obcs:
203      - disable SEAICE_GROWTH_LEGACY; reset input files to match those of
204        verification/lab_sea/input.salt_plume; changes results/output.txt*
205    o model/src:
206      - adapt quasi-hydrostatic formulation to work with p or p* coordinate.
207    o pkg/seaice:
208      - improve description of parameters in seaice_fgmres.F and start
209        cleaning up the code
210      - change name of SCALPROD to SEAICE_SCALPROD and modify meaning of
211        second argument
212      - add a metric based on grid cell area to SEAICE_SCALPROD; update
213        results of offline_exf_seaice.dyn_jfnk
214      - compute initial residual norm in seaice_jfnk based on SEAICE_SCALPROD
215    o pkg/aim_v23:
216      - fix an other bug in dissipation heating (grid-cell area was missing).
217    o model/src + pkg/seaice:
218      - add global (multi-tile) linear solver for pair of tri-diagonal system
219        along X and Y lines, respectively for U and V component.
220        Note: 1) MPI and cube-exchange not yet coded.
221            2) probably not accurate for poorly conditioned / large size problem.
222      - add option for SEAICE_LSR to use global (multi-tile) tri-diagonal solver;
223        default: not compiled and not used.
224    o pkg/seaice:
225      - first attempt at a multi-threaded fgmres solver for the JFNK solver:
226        introduce bi/bj loops and use global_sum_tile_rl instead of
227        mpi_allreduce in seaice_fgmres.F
228      - improve diagnostics output for fgmres solver (seaice_fgmres.F)
229      - replace a few unnecessary goto statements by if-blocks  (seaice_fgmres.F)
230      - add a verification experiment for JFNK in offline_exf_seaice
231    o verification:
232      - change (for now, only fwd test) offline_exf_seaice experiment:
233        use a re-entrant channel with idealized coastline (trapezoidal shape)
234        at southern boundary to explore seaice dynamics and thermodynamics
235        with simple forcing. Main set-up has dynamics+thermo and SST relaxation;
236        secondary test (input.thsice) use thermodynamics only with SST relaxation.
237      - add seaice-dynamics only secondary test using LSR and pkg/thsice advection.
238    o pkg/exf:
239      - disable "sstExtrapol" when Nr=1
240    o verification:
241      - add new experiment "cheapAML_box" (simple 1 layer set-up from Bruno Deremble)
242        to test pkg/cheapaml.
243    o pkg/aim_v23 & pkg/shap_filt:
244      - fix dissipation heating (erroneous gravity multiplication factor).
245    o pkg/seaice:
246      - remove unused field pressPre from jfnk solver
247      - rename two subroutines in seaice_preconditioner.F
248    o eesupp/src:
249       - S/R MDSFINDUNIT avoids reserved unit numbers (scrUnit1, eeDataUnit ...)
250    o pkg/seaice/seaice_preconditioner.F: fix preconditioner once again
251       - remove wrong parts of the rhs and the lhs (were in there
252         because I did not understand the concept of this preconditioner)
253       - add an exchange between u- and v-sweep. This increases communication
254         by a factor of two but improves the convergence of jfnk. Ideally,
255         one would like the u- and v-sweep to be independent. So far within
256         undocumented ifdefs
257       - reorganize the extra computations for printing the residuals
258    o tools/genmake2:
259      - comment out the "mpif.h" include in NetCDF test programm (for MPI built)
260        since it's not necessary (and was preventing to use MNC in some cases).
261    
262    checkpoint64a (2012/11/16)
263    o pkg/autodiff:
264      - improve pkg-internal logical parameter switch (inAd/inFwd mode) so that
265        autodiff_readparms.F no longer depends on calling order (within
266        packages_readparms.F) and no longer requires to include ${PKG}_PARMS.h):
267        rename param turnFreeDriftInAdMode to SEAICEuseFREEDRIFTswitchInAd
268        and change param SEAICEuseDYNAMICSinAdMode to SEAICEuseDYNAMICSswitchInAd.
269    o pkg/obcs:
270      - adding tidal velocity forcing capability to obcs
271        for usage example, see verification/seaice_obcs/input.tides
272    o pkg/seaice:
273      - turn the LSR-relaxation parameters WFAU/V into runtime parameters
274        SEAICE_LSRrelaxU/V
275      - introduce runtime parameter SEAICEetaZmethod (=0 by default)
276    o pkg/aim_v23:
277      - implement heating from friction (bottom friction and stratospheric drag).
278    o pkg/shap_filt:
279      - fix diagnostic "SHAP_dKE" (was 2 time smaller); implement heating from
280        dissipation but only for Shap_funct=2, active when addFrictionHeating=T.
281    o model/src:
282      - move AddMass common block from DYNVARS.h to FFIELDS.h; allow to read-in
283        time-constant addMass field from file (addMassFile);
284      - support for heating due to friction (and Kinetic Energy dissipation):
285        add option, run-time switch and 3-D field array + support code ; each pkg
286        or S/R can add heating contribution (if there is a sink of KE); the sum is
287        accounted for as a Temperature tendency term (EXTERNAL_FORCING_T).
288    o pkg/seaice:
289      - complete merge of ITD code into seaice_growth.F
290        from MITgcm_contrib/torge/itd/code/
291        no verification so far, but Torge Martin tested
292        "1-D test case and Beaufort set up;
293        deliver okay results after 1 model year."
294      - complete merge of SEAICE_SIZE.h into all relevant routines
295      - move computation of eta at Z-points into calc_viscosities
296        + introduce global field etaZ
297        + add different methods for computing etaZ, for now the old
298          method (simple averages of eta to Z-points) is hardwired
299        + replace etaMeanZ by etaZ in seaice_lsr, seaice_calc_residual,
300          seaice_preconditioner
301      - simplify computations for SEAICE_ZETA_SMOOTHREG
302      - seaice_preconditioner:
303        + replace one remaining press by pressLoc (mistake)
304        + adjust printing of residuals
305      - improve I/O of diagnostics of JFNK in seaice_jfnk.F:
306        + add (SEAICE.h) and rename some counters (initiliased in
307          seaice_init_fixed.F)
308        + add _BEGIN/END_MASTER (myThid)  around print statements
309        + print total number of iterations and failures over SEAICE_monFreq
310          interval to STDOUT
311      - move control over output-messages by fgmres to seaice_jfnk to save
312        some operations
313      - move resetting initial guess for fgmres outside of seaice_fgmres_driver
314        in order to make restarts with sol .ne. zero (fgmres with restarts)
315        (seaice_jfnk.F, seaice_fgmres.F)
316      - seaice_calc_l/rhs.F: replace maskW/S by maskInW/S; this fixes
317        a serious convergence problem when open boundaries are involved
318    o pkg/ggl90: fix computation of control volumes for the case of
319    ALLOW_GGL90_HORIZDIFF (probably not used very often): move control volumes    ALLOW_GGL90_HORIZDIFF (probably not used very often): move control volumes
320    up half a grid cell from C-centered to W-centered (pointed out by C. Eden)    up half a grid cell from C-centered to W-centered (pointed out by C. Eden)
321  o pkg/seaice: simplify seaice_evp by avoiding use of extra fields u/vIceC  o pkg/seaice: simplify seaice_evp by avoiding use of extra fields u/vIceC
322  o pkg/autodiff  o pkg/autodiff
323    - Add inAdMode switch for SEAICEuseDYNAMICS:    - Add inAdMode switch for SEAICEuseDYNAMICS:
324      SEAICEuseDYNAMICSinAdMode      SEAICEuseDYNAMICSinAdMode
325      (extend logic in ADAUTODIFF_INADMODE_SET)      (extend logic in ADAUTODIFF_INADMODE_SET)
326  o pkg/seaice  o pkg/seaice
327    - Step 1 of merging ice-thickness distribution (ITD) code from    - Step 1 of merging ice-thickness distribution (ITD) code from

Legend:
Removed from v.1.1760  
changed lines
  Added in v.1.1823

  ViewVC Help
Powered by ViewVC 1.1.22