3 |
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|
4 |
Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
5 |
============================== |
============================== |
6 |
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|
7 |
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o fix multi-category seaice: |
8 |
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- change cpp flag SEAICE_MULTILEVEL to more meaningful name: |
9 |
|
SEAICE_MULTICATEGORY |
10 |
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- fix short wave heat flux |
11 |
|
o pkg/seaice: change default (SEAICE_OPTIONS.h): use C-grid dynamics |
12 |
|
and allow to use EVP solver. Change forward lab_sea: test both EVP |
13 |
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solver and LSR solver, and use C-grid dynamics (like lab_sea adjoint) |
14 |
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o Initial check-in of lab_sea adjoint |
15 |
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(very similar to natl_box_adjoint/code_seaice) |
16 |
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* used C-grid and EVP solver |
17 |
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* used KPP, GM/Redi |
18 |
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* uses inAdExact=.TRUE. |
19 |
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* gradient checks fail for both ADM and TLM |
20 |
|
due to sensitive snow melt code in seaice_grwoth (look for "JZ") |
21 |
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f.d. gradients actually seem more problematic than ADM, TLM gradients; |
22 |
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issue is related to forward mismatch between g77 an ifort |
23 |
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o pkg/seaice: overhaul of thermodynamics |
24 |
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- growth.F and groatb.F are replaced by new routine seaice_growth.F |
25 |
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- budget.F is replaced by two new routines seaice_budget_ocean/ice.F |
26 |
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- move a few global fields out of SEAICE.h into seaice_growth.F and |
27 |
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make them 2D (FICE/QNETO/ ...) |
28 |
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- remove FO (it is the same as QNETO) |
29 |
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- introduce a few local fields to avoid modifying external fields such |
30 |
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as atemp, etc. |
31 |
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|
32 |
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checkpoint58s_post |
33 |
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o pkg/exf: moved exf_init_runoff.F to exf_init.F and exf_set_gen.F |
34 |
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changed exf_set_gen.F so that |
35 |
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genperiod=0 means input file is one time-constant field and |
36 |
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genperiod=-12 means input file contains 12 monthly means |
37 |
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o CG2D: use pre-computed solver main-diagonal (stored in common block); |
38 |
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this affects truncation error ; generate new output file for exp. which |
39 |
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fails: exp4(12d), fizhi-cs-aqualev20(12d), front_relax(10d), |
40 |
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global_ocean.90x40x15(10d), global_ocean.cs32x15(10d).thsice(11d).viscA4(10d), |
41 |
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ideal_2D_oce(10d), internal_wave(09d), isomip.htd(11d), matrix_example(07d), |
42 |
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MLAdjust(4x11d,12d), natl_box(11d), rotating_tank(12d), |
43 |
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tutorial_global_oce_in_p(10d), tutorial_plume_on_slope(11d), |
44 |
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vermix(12d).ggl90(12d).my82(11d).opps(12d).pp81(11d) |
45 |
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o start implementation of deep-atmosphere and anelastic formulation |
46 |
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o verification: remove 2nd copy of input files and use script "prepare_run" |
47 |
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to make a symbolic link to the 1rst copy (reduce downloaded size by ~81.M) |
48 |
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o mom_common/vecinv/fluxform: fix a few initialisation isssues |
49 |
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o profiles: fix for multithreaded case |
50 |
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|
51 |
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o diagnostics: rename few diags: |
52 |
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s/'PRESSURE'/'RCENTER '/g |
53 |
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s/'TICE '/'oceFreez'/g |
54 |
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s/'TAUX '/'oceTAUX '/g |
55 |
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s/'TAUY '/'oceTAUY '/g |
56 |
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s/'SWFLUX '/'oceQsw '/g |
57 |
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s/DIFx/DFxE/g |
58 |
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s/DIFy/DFyE/g |
59 |
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and add few ocean-forcing diagnostics: |
60 |
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atmPload, sIceLoad, oceQnet, oceFWflx, oceSflux, surForcT & surForcS |
61 |
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o modifications to pkg/seaice/growth.F and budget.F, which change results of |
62 |
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lab_sea experiment: HSNOW was sometimes treated as effective and sometimes |
63 |
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as actual snow thickness. It now refers everywhere to effective snow |
64 |
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thickness, meaning that for non-zero AREA, actual thickness is HEFF/AREA. |
65 |
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|
66 |
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checkpoint58r_post |
67 |
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o modifications to pkg/seaice/growth.F, which change results of |
68 |
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lab_sea experiment: fixes pertain to melting snow over open water, to |
69 |
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masking EVAP under sea ice, and to using the correct AREA variable for |
70 |
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computations of EVAP, PRECIP, HSNOW, and GHEFF |
71 |
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o add ability to read bathy, salt, and theta using MNC (off by def) |
72 |
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o add flooding algorithm and advection of HSNOW for pkg/seaice; |
73 |
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both are turned off by default and do no change any results |
74 |
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o seaice advection with pkg/thsice: a step toward the use of non-linear |
75 |
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advection scheme, but #ifdef or commented out for now (requires more EXCH). |
76 |
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o use standard version of PTRACERS_INI_VARIA in tutorial_tracer_adjsens |
77 |
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(identical results) and the standard version of EXTERNAL_FIELDS_LOAD |
78 |
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in natl_box (affects results @ truncation level: update output.txt) |
79 |
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o multi-threading and IO: |
80 |
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- replace some call to MDSIO S/R by the corresponding READ/WRITE_FLD S/R. |
81 |
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- remove most of BEGIN_MASTER/ END_MASTER around READ/WRITE_FLD S/R calls |
82 |
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(needed to work with SingleCpuIO): tested in all verif. exp. |
83 |
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o GAD: use simpler DST3 formulation as default (old version left within #ifdef) |
84 |
|
affects the results (but none of the verification test uses this scheme). |
85 |
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o Adding some pkg/diagnostics capability to pkg/seaice |
86 |
|
(will certainly be subject to changes) |
87 |
|
o ctrl: adding new control variables: |
88 |
|
lwflux, lwdown, evap, snowprecip, apressure, runoff |
89 |
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|
90 |
|
checkpoint58q_post |
91 |
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o added CPP_EEOPTIONS.h flag DISABLE_MPI_READY_TO_RECEIVE. Speeds up |
92 |
|
1/6-deg Southern Ocean configuration by 8% on IBM Datastar and |
93 |
|
high_res_cube configuration by 4% on Columbia. |
94 |
|
o clean-up multi-threaded problems (reported by debugger tcheck on ACES); |
95 |
|
add (in global_with_exf/code) a version of EXF_INTERP_READ without |
96 |
|
dynamical allocation (seems to work in multi-threaded). |
97 |
|
o new function "MASTER_CPU_IO" (=T if master thread & master CPU, if using |
98 |
|
single CPU io) so that TAF does not have to see EESUPPORT.h |
99 |
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o pkg/seaice: implement sea-ice loading (when using RealFreshWaterFlux) |
100 |
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|
101 |
|
checkpoint58p_post |
102 |
|
o obcs: stop if obcs is used with useCDscheme = .true. |
103 |
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o shelfice: |
104 |
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- fix a sign error so that no slip at shelfice interface works |
105 |
|
- remove stop for combination non-hydrostatic code and shelfice. That does |
106 |
|
not mean, that the results are correct, but at least they are numerically |
107 |
|
stable |
108 |
|
o diagnoctics: modify UVELPHI and VVELPHI to include hfac (i.e. mass-weighted) |
109 |
|
o added adjoint exch routined for all exch*3d* routines |
110 |
|
and updated flow directives |
111 |
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|
112 |
|
checkpoint58o_post |
113 |
|
o replace calls to EXCH_Z & EXCH_UV_AGRID: use the new _3D_ version ; |
114 |
|
remove old subroutines (_XY_ & _XYZ_); update the adjoint version. |
115 |
|
o change controling S/R for writing pickup file (new S/R do_write_pickup) |
116 |
|
and clean-up reading/writing of pickup files. |
117 |
|
o fix local version of read/write pickup (NH part) in rotating_tank/code |
118 |
|
o simplify EXCH interface: |
119 |
|
- change _XYZ_ interface to _3D_ subroutine (with 3rd dim in argument list) |
120 |
|
- not often used EXCH S/R (exch_z, exch_uv_agrid): keep only the _3D_ version |
121 |
|
o added the regrid package |
122 |
|
o shelfice: |
123 |
|
- add a simple boundary layer scheme to reduce noise |
124 |
|
- fix the indexing in shelfice_u/v_drag so that there will be actually drag |
125 |
|
|
126 |
|
checkpoint58n_post |
127 |
|
o fix globalArea multi-threaded calculation: need to apply GLOBAL_SUM to |
128 |
|
local variable (not in common block). |
129 |
|
o lot of small changes for multi-threaded. Most tests (using OMP & ifort) pass. |
130 |
|
- still problems with pkgs: mnc, exp2, dic, cal, exf (and probably more); |
131 |
|
- still BEGIN_MASTER/END_MASTER to remove around READ/WRITE_FLD S/R calls |
132 |
|
to work with SingleCpuIO. |
133 |
|
o add "_d 0" to real constant of pkg/cfc subroutines ; |
134 |
|
update exp. cfc_exemple & tutorial_cfc_offline output files. |
135 |
|
o multi-threading and IO: |
136 |
|
- all threads call READ_FLD S/R (needed if using SingleCpuIO): |
137 |
|
(no BEGIN_MASTER/ END_MASTER around the call, but inside MDSIO S/R. |
138 |
|
- barrier before and after reading. |
139 |
|
- stop if other than master is calling MDS_WRITELOCAL (if #undef IO_THREAD_SAFE) |
140 |
|
- avoid using MDS_WRITELOCAL for LAND pkg output. |
141 |
|
- new S/R AIM_WRITE_PHYS (replaces AIM_WRITE_LOCAL) to write AIM physics |
142 |
|
common-block variables ; Allows multi-threading with master-thread IO. |
143 |
|
o change default MAX_NO_THREADS from 32 to 4 ; |
144 |
|
and stop cleanly when MAX_NO_THREADS is too small. |
145 |
|
o add S/R BAR_CHECK to check multi-threaded barrier synchronization |
146 |
|
|
147 |
|
checkpoint58m_post |
148 |
|
o add a Non-Hydroatatic test (with 3-D Coriolis, NHMTerms, biharmonic Visc. |
149 |
|
and side-drag) on CS-grid : global_ocean.cs32x15.viscA4 |
150 |
|
o make "tutorial_global_oce_latlon" from standard "global_ocean.90x40x15" exp. |
151 |
|
keep global_ocean.90x40x15 (for AD testing) with former secondary test |
152 |
|
(".qshyd") as the main test (mv output.qshyd.txt to output.txt) |
153 |
|
o CVS modules: update MITgcm_verif_basic; remove MITgcm_verif_ocean & _verif_atmos; |
154 |
|
add MITgcm_tutorials (= code + all the tutorials) |
155 |
|
o ecco, option to compute cost for total ssh (mean+anom) |
156 |
|
o consistent with addition of ptracer and ssh in pkg/profiles |
157 |
|
o profiles: adding ptracer and ssh |
158 |
|
o testreport: change multi-test output-file name |
159 |
|
(from output.txt.{name} to output.{name}.txt) |
160 |
|
o profiles: now ok for mutli-tiles case |
161 |
|
o seaice: add 4 parameters for different advection schemes for area, |
162 |
|
(effective) seaice thickness, enthalphy, and snow height. Their default |
163 |
|
is the standard parameter SEAICEadvScheme |
164 |
|
o calc_gw: |
165 |
|
- add cosFacU in zonal viscous flux (harmonic.visc.). |
166 |
|
- put back side-drag (call new S/R MOM_W_SIDEDRAG) and output.txt. |
167 |
|
of tutorial_plume_on_slope. |
168 |
|
o obcs_calc.F : fix index Pb in OBSeta & OBNeta (Thanks to Gianmaria). |
169 |
|
o calc_gw: true flux-form, account for horizontal grid spacing. |
170 |
|
update rotating_tank results, but not plume_on_slope (affected at |
171 |
|
truncation level, 11 digits). |
172 |
|
|
173 |
|
checkpoint58l_post |
174 |
|
o calc_gw: |
175 |
|
- take bi,bj loops outside calc_gw to fix Pb with local array KappaRU,V |
176 |
|
- remove side-drag for now (need to fix it); update plume_on_slope results. |
177 |
|
- fix for partial-cell & non-uniform dz; update plume_on_slope results. |
178 |
|
o commit code to make SST/SSS weights spatially variable |
179 |
|
(based on either variable in-situ or variable initial T/S weights) |
180 |
|
o pkg/ecco: |
181 |
|
* commit code to relax deviations of xx_theta, xx_salt to 5*sigma, |
182 |
|
now based on horizontally varying weights wthetaLev, wsaltLev |
183 |
|
* cost_averagesflags now returns year indices in addition to day, month |
184 |
|
* sflux balance is performed on annual basis |
185 |
|
(sflxumm, sfluxmm2, bal_sfluxmm) |
186 |
|
* for SSH anomaly, separate more cleanly contrib from T/P, ERS, GFO, |
187 |
|
including separate counting and multipliers |
188 |
|
o pkg/rbcs |
189 |
|
* add all necessary infrastructure for pkg/rbcs levN adjoint checkpointing |
190 |
|
|
191 |
|
checkpoint58k_post |
192 |
|
o testreport: |
193 |
|
- always build in dir. "build" (if not there, mkdir build instead of building |
194 |
|
& running in input) |
195 |
|
- run in dir run (if it exists), in build otherwise. |
196 |
|
- call prepare_run (if input/prepare_run exists) |
197 |
|
- run multi-threaded test (with new option: "-mth") if file input/eedata.mth exists. |
198 |
|
o pkg/exf modifications to interpolation and rotation routines for more |
199 |
|
reasonable treatment of North Pole singularity: for tracers North Pole |
200 |
|
value is set to northernmost zonal-mean value, for zonal velocity it is |
201 |
|
set to zero, and for meridional velocity it is set to northernmost value. |
202 |
|
o pkg/exf/exf_check_range.F |
203 |
|
- add tile index to diagnostics and move stop statement to the very |
204 |
|
end of the routine. |
205 |
|
o pkg/diagnostics: (diagnostics_main_init.F) |
206 |
|
define title of isomorphic variables according to the current config. |
207 |
|
o pkg/thsice with pkg/seaice dynamics: |
208 |
|
- fix domain of computation (interior only, required for exf) and do exchanges |
209 |
|
- seaice-dynamics forcing: add atmospheric and seaice loading to SSH gradient |
210 |
|
o towards a standard way of dealing with multi-threading in MONITOR |
211 |
|
and ${PKG}_MONITOR (all except ptracers_monitor) subroutines. |
212 |
|
o Pass variable viscosities (vertical and horizontal, e.g., KPP or Leith) |
213 |
|
to W momentum equation in nonhydrostatic and quasihydrostatic runs. |
214 |
|
o make exf_monitor & seaice_monitor independant of the main (dynamics) monitor. |
215 |
|
o pkg/seaice: fix SEAICEuseEVPpickup parameter (put it in a commom block) |
216 |
|
o generic_advdiff: DST advection S/R : use local copy of velocity to compute CFL |
217 |
|
(problems ? with gradient check in bottom_ctrl_5x5 adjoint test) |
218 |
|
o tracer advection: |
219 |
|
- clean-up and simplify calc_common_factors.F |
220 |
|
- make a local copy of velocity and pass it (as u,v,r_Trans) to DST tracer |
221 |
|
advection subroutine (but still not used within DST advection S/R) |
222 |
|
o rename pkg aim_ocn_coupler to atm_ocn_coupler (later on, will be used without aim) |
223 |
|
|
224 |
|
checkpoint58j_post |
225 |
|
o new driver S/R: LOAD_FIELDS_DRIVER to load external forcing fields |
226 |
|
from file (collects calls previously in FORWARD_STEP) |
227 |
|
o move call to SEAICE_MODEL from FORWARD_STEP to DO_OCEANIC_PHYS |
228 |
|
o adjoint store dir. adjusted accordingly |
229 |
|
o genmake2 |
230 |
|
replace target "ad_taf" by $(EXE_AD) ; add $(EXE_AD) to the make CLEAN list. |
231 |
|
|
232 |
|
checkpoint58i_post |
233 |
|
o pkg/seaice: add parameter that allows to scale/turn off effect of seaice |
234 |
|
on wind stress (SEAICEstressFactor defaults to 1.) |
235 |
|
o Total number of Timers is finite (<=40): comment out 2 non-essential one |
236 |
|
in the_main_loop.F to avoid Pb (e.g., when running fizhi test) |
237 |
|
o vector_invariant: fix highOrderVorticity(=4.th.Order) advection |
238 |
|
on CS-grid: no longer loosing mass. |
239 |
|
o exf & curvilinear-grid: no longer modify longitude xC & xG. |
240 |
|
o pkg/ggl90: fix sloppy output and fix a bug |
241 |
|
o pkg/seaice: added SEAICEuseEVPpickup parameter |
242 |
|
- Set to false in order to start EVP solver with |
243 |
|
non-EVP pickup files when using SEAICEuseEVP |
244 |
|
- fix sign error in diffusion in seaice_calc_rhs |
245 |
|
|
246 |
|
checkpoint58h_post |
247 |
|
* Modifications for bottom topography control |
248 |
|
o replace hFacC by _hFacC at various places |
249 |
|
o replace ALLOW_HFACC_CONTROL by ALLOW_DEPTH_CONTROL |
250 |
|
o add non-self-adjoint cg2d_nsa |
251 |
|
o update autodiff support routines |
252 |
|
o re-initialise hfac after ctrl_depth_ini |
253 |
|
o works for 5x5 box, doesnt work for global_ocean.90x40x15 |
254 |
|
* Adding verification for 5x5 box (4-layer) bottom topography control |
255 |
|
|
256 |
|
checkpoint58g_post |
257 |
|
o pkg/diagnostics: implement "periodic averaging diagnostics" (e.g., |
258 |
|
used for mean seasonal cycle, mean diurnal cycle); add an example |
259 |
|
in verification/global_ocean.cs32x15/input.thsice/data.diagnostics |
260 |
|
o pkg/ggl90: |
261 |
|
- add parameter (minimum surface kinetic energy) |
262 |
|
- fix bug (avoiding division by zero) |
263 |
|
o couple pkg/thsice to pkg/seaice: |
264 |
|
- modify advection in seaice to accomodate new scalar fields to be advected |
265 |
|
- only muliDimAdection scheme work with seaice/thsice |
266 |
|
- mapping of thsice-variables to seaice-variables, back and forth |
267 |
|
- does not break the verification experiments, but does not give the |
268 |
|
desired results either |
269 |
|
o pkg/seaice |
270 |
|
- make (default) second order advection a bit less confusing? |
271 |
|
|
272 |
|
checkpoint58f_post |
273 |
|
o couple pkg/thsice and pkg/exf (as a preparation for coupling pkg/thsice |
274 |
|
to pkg/seaice): |
275 |
|
- new routines thsice_map_exf and thsice_get_exf provide the interface |
276 |
|
- add an additional formal parameter to thsice_solve4temp |
277 |
|
o pkg/exf: |
278 |
|
- add new fields wspeed, snowprecip (to be able to couple to thsice) |
279 |
|
- correct Stefan-Boltzmann constant |
280 |
|
- new parameter for longwave surface emittance |
281 |
|
- separate some stuff from exf_bulkformulae into new routines |
282 |
|
exf_radiation, exf_wind |
283 |
|
- add new parameters and constants: longwave emissivity for ocean, ice |
284 |
|
and snow, evaporation parameters over ice |
285 |
|
- decouple wind/stress computation from ALLOW_BULKFORMULA: always compute |
286 |
|
either wind from stress or stress from wind |
287 |
|
o pkg/thSIce: |
288 |
|
- split thsice_step_fwd.F in 2 S/R: thsice_step_temp.F & thsice_step_fwd.F |
289 |
|
- put i,j loops inside S/R: THSICE_ALBEDO, THSICE_SOLVE4TEMP, THSICE_EXTEND |
290 |
|
and THSICE_CALC_THICKN |
291 |
|
- for now, call to THSICE_GET_BULKF remains inside i,j loops. |
292 |
|
- add CPP option: ALLOW_DBUG_THSICE and header file THSICE_DEBUG.h |
293 |
|
to make debugging easier. |
294 |
|
- affects results (@ truncation level) of global_ocean.cs32x15.thsice: update output |
295 |
|
o pkg/bulk_force: |
296 |
|
- clean-up comments and parameters ; |
297 |
|
- add new Bulk-Formulae from Large and Yeager, 2004, NCAR/TN-460+STR ; |
298 |
|
o fix bug in aim+thsice albedo: snow & ice thickness arguments were switched; |
299 |
|
generate new output for test-experiment: aim.5l_cs.thSI |
300 |
|
o results_ad : rename "output.txt_adm" to "output_adm.txt" and change |
301 |
|
testreport accordingly |
302 |
|
|
303 |
|
checkpoint58e_post |
304 |
|
o SEAICE_CGRID adjoint done |
305 |
|
o R_STAR adjoint implemented. |
306 |
|
* Seems to just work (based on global_ocean.90x40x15/code_ad_nlfs/ ) |
307 |
|
* need to sort out init. of h0facc, etc. |
308 |
|
o Make pkg/profile fully independent of ecco,cost, etc. stuff |
309 |
|
to be able to use it in pure forward. |
310 |
|
|
311 |
|
checkpoint58d_post |
312 |
|
o upgrade simple test-experiment to tutorial example: |
313 |
|
step.1: duplicate the experiment and (step.2) will remove the old copy. |
314 |
|
tutorial_barotropic_gyre <- copy of exp0 (R1:barotropic_gyre_in_a_box) |
315 |
|
tutorial_baroclinic_gyre <- copy of exp1 (R1:baroclinic_gyre_on_a_sphere) |
316 |
|
tutorial_global_oce_latlon <- empty for now (R1:global_ocean_circulation) |
317 |
|
tutorial_global_oce_biogeo <- copy of dic_example |
318 |
|
tutorial_deep_convection <- almost like exp5 (R1:nonhydrostatic_deep_convection) |
319 |
|
tutorial_plume_on_slope <- copy of plume_on_slope |
320 |
|
tutorial_tracer_adjsens <- copy of carbon (R1:tracer_adjoint_sensitivity) |
321 |
|
tutorial_global_oce_optim <- empty for now (David ?) |
322 |
|
tutorial_global_oce_in_p <- copy of global_ocean_pressure |
323 |
|
some tutorials (R1) were already checked-in under tutorial_examples in release1_branch |
324 |
|
o correct a sign problem in cost_scat.F |
325 |
|
o obcs and ptracers: fix boundary conditions for advections schemes |
326 |
|
with larger stencil |
327 |
|
o thsice adjoint: start |
328 |
|
o mom_vecinv: add ISOTROPIC_COS_SCALING flags to mom_vi_hdissip for |
329 |
|
completeness |
330 |
|
o mom_fluxform: fixing the mutual use of ISOTROPIC_COS_SCALING |
331 |
|
and COSINEMETH_III, add comments in default CPP_OPTIONS.h |
332 |
|
o ptracers adjoint: |
333 |
|
* avoid extensive recomputatations |
334 |
|
* fix missing re-init. of gptr (missed by TAF) |
335 |
|
o obcs: add a flag (OBCSprintDiags, defaults is true) that allows |
336 |
|
me to turn off the excessive output to STDOUT that this package produces |
337 |
|
o move NH metric terms & 3.D Coriolis S/R to pkg/mom_common |
338 |
|
and add those terms in Vector-Invariant formulation. |
339 |
o in ctrl pkg, if ALLOW_CAL, use monthly mean controls |
o in ctrl pkg, if ALLOW_CAL, use monthly mean controls |
340 |
if the control period (xx_hfluxperiod etc) is 0 |
if the control period (xx_hfluxperiod etc) is 0 |
341 |
o in profiles pkg, clean routines and fix details |
o in profiles pkg, clean routines and fix details |