4 |
Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
5 |
============================== |
============================== |
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|
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o model/src: |
8 |
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- fix missing dPhiNH in pressure_for_eos.F (case: selectP_inEOS_Zc=3) |
9 |
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o pkg/seaice: |
10 |
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- add missing checks for SEAICE_ALLOW_KRYLOV and SEAICE_ALLOW_BOTTOMDRAG |
11 |
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o pkg/seaice: |
12 |
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- add basal stress as parameterisation for grounding ice |
13 |
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following Lemieux et al. (2015) |
14 |
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- turn on by setting new parameter SEAICEbasalDragK2 to a value |
15 |
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larger than 0. Lemieux et al. (2015) recommend 15. |
16 |
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- The adjoint complains with extra recomputations so there is also a |
17 |
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new cpp-flag SEAICE_ALLOW_BOTTOMDRAG that is undefined by default in |
18 |
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order to postpone the problem |
19 |
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- compile the new code in lab_sea |
20 |
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o verification/halfpipe_streamice: |
21 |
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- update both TAF and OpenAD adm output (machine truncation differences) |
22 |
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|
23 |
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checkpoint65v (2016/04/08) |
24 |
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o verification/advect_xz: |
25 |
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- increase overlap size from 3 to 4 and add new secondary test for PQM |
26 |
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advection scheme (with mono & wino limiter). |
27 |
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- change main exp. to test PPM (with weno limiter) adv.scheme on Temp. |
28 |
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o model/src: |
29 |
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- new parameters "top_Pres" & "seaLev_Z" (replacing Ro_SeaLevel and recently |
30 |
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added phi0Ref) to set vertical axis origin and phiRef origin; |
31 |
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keep Ro_SeaLevel for backward compatibility (with a warning). |
32 |
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According to coordinate and fluid type: |
33 |
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OCN in Z: top_Pres(Ref) (=rhoConst*PhiRef(1)), seaLev_Z (=rF(1), @ the top) |
34 |
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ATM in Z: top_Pres(Ref) (=rhoConst*PhiRef(1)), seaLev_Z (=rF(Nr+1) @ bottom) |
35 |
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OCN in P: top_Pres (=rF(Nr+1)), seaLev_Z (= PhiRef(Nr+1)/g, @ the top) |
36 |
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ATM in P: top_Pres (=rF(Nr+1)), seaLev_Z (= PhiRef(1)/g, @ the bottom) |
37 |
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- remove Ro_SeaLevel from ATM experiment parameter files; |
38 |
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- in tutorial_global_oce_in_p, remove Ro_SeaLevel and set top_Pres to the |
39 |
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complement; update output.txt (changes at machine truncation level). |
40 |
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o pkg/seaice/seaice_evp.F |
41 |
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- simplify computation of deltaZ and zetaZ to simple averaging following |
42 |
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Bouillon et al. (2013). This removes a lot of code, but also changes |
43 |
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verification experiment lab_sea.hb87 -> updated |
44 |
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|
45 |
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checkpoint65u (2016/03/14) |
46 |
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o pkg/generic_advdiff: |
47 |
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- from Darren: add PPM and PQM advection schemes (number 40-42 and 50-52) |
48 |
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with 2 types of limiter (see: Engwirda & Kelley, submit. to JCP); |
49 |
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Note (from Darren): unlimited PPM/PQM scheme (40 & 50) are just for |
50 |
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testing and not for actual use. |
51 |
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o model/src: |
52 |
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- add parameter "phi0Ref" to specify reference [pressure/geo] potential at |
53 |
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origin r = rF(1); |
54 |
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- add options (parameter selectP_inEOS_Zc) to select which pressure to use |
55 |
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in EOS for height coordinate: enable to include NH Pressure or to use |
56 |
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more accurate pressure vertical profile; options not linked to EOS type |
57 |
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(as previously, e.g., JMD95P/JMD95Z) but set default according to EOS type; |
58 |
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- start to implement variable gravity (along vertical): for now, only with |
59 |
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z-coords (not even z*). |
60 |
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- add Ideal Gas equation of state for height coordinate. |
61 |
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- update OpenAD output (affected at machine truncation level) of exp: |
62 |
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global_ocean.90x40x15, OpenAD (std) and tutorial_global_oce_biogeo. |
63 |
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o pkg/exf: |
64 |
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- add ALLOW_EXF_OUTPUT_INTERP cpp switch to output the result |
65 |
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of exf interpolation (before any rescaling, rotation or interpolation |
66 |
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to velocity point) for each field that gets loaded from file. This option |
67 |
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identically mimics the input file organization (e.g. record numbers in year |
68 |
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by year input files) besides the change in horizontal grid. |
69 |
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- add rotateStressOnAgrid run-time switch so that wind stress fields |
70 |
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can be provided on the A-grid in zonal/meridional direction and |
71 |
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rotated on the fly. This only applies to the case when the exf |
72 |
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interpolation is off and rotateStressOnAgrid is false by default. |
73 |
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o model/src: |
74 |
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- rename internal parameter "useDynP_inEos_Zc" to "storePhiHyd4Phys" (since |
75 |
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it's also used with pkg/atm_phys) and add few more parameters (but still |
76 |
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inactive, src code yet to come) |
77 |
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|
78 |
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checkpoint65t (2016/02/10) |
79 |
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o pkg/atm_phys: |
80 |
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- from Ruth Geen: add optical depth dependence on CO2 concentration. |
81 |
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o model/src: |
82 |
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- fix vertical inter/extra-polation of density factor rhoFacF (for anelastic) |
83 |
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for the case setCenterDr=T (delRc set from "data"); add output of rhoFacC&F. |
84 |
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Update output of exp. deep_anelastic (changes at truncation level). |
85 |
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o tools: |
86 |
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- add a hack in "remove_comments_sed" (used only with TAF) for recent |
87 |
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version of OpenMPI (shipped with FC.23): comment out the new header |
88 |
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file "mpif-sizeof.h" which causes problems to TAF. |
89 |
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o pkg/seaice: |
90 |
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- change the termination criterion so that maxits (SEAICElinearIterMax) |
91 |
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has an effect |
92 |
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- unify iteration parameters for implicit solvers (JFNK and Picard) |
93 |
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SEAICEnonLinIterMax replaces SEAICEnewtonIterMax/NPSEUDOTIMESTEPS |
94 |
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SEAICElinearIterMax replaces SEAICEkrylovIterMax/SOLV_MAX_ITER |
95 |
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SEAICEpreLinIterMax replaces SOLV_MAX_ITER in preconditioner |
96 |
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SEAICEpreNL_IterMax replaces NPSEUDOTIMESTEPS in preconditioner |
97 |
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SEAICEnonLinTol replaces JFNKgamma_nonlin |
98 |
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- remove S/R SEAICE_FGMRES_DRIVER and put content into S/R SEAICE_JFKN |
99 |
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- add new Picard-Krylov solver, compile with SEAICE_ALLOW_KRYLOV and |
100 |
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use with SEAICEuseKrylov |
101 |
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o pkg/seaice/seaice_lsr.F |
102 |
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fix small bug: replace zetaZ by zetaZloc in S/R seaice_lsr_rhsu/v; only |
103 |
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relevant if SEAICEuseStrImpCpl=T, and even then it does not seem to have |
104 |
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an effect. |
105 |
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o pkg/seaice: add two new parameters |
106 |
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- SEAICEuseLSR to simplify the logic in seaice_dynsolver (this |
107 |
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parameter is not in any namelist) |
108 |
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- SEAICEusrPicardAsPrecon to allow s/r seaice_lsr to be used as |
109 |
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a preconditioner for the non-linear Newton iteration of the JFNK |
110 |
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solver |
111 |
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o pkg/seaice/seaice_lsr.F: replace 1./SEAICE_deltaTdyn with recip_deltaT, |
112 |
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affects some experiments at truncation level: |
113 |
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- global_ocean.cs32x15.icedyn (11 digits), |
114 |
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- global_ocean.cs32x15.seaice (11 digits), |
115 |
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- seaice_itd (12 digits), seaice_itd.lipscomb07 (12 digits) -> update |
116 |
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- also update global_ocean.cs32x15 adjoint and tangent-linear results |
117 |
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o pkg/salt_plume & pkg/thsice: |
118 |
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- for coupled set-up with pkg/thsice in ATM and pkg/salt_plume in OCN, |
119 |
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connect salt_plume flux to ATM-OCN coupling pkgs interface: |
120 |
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a) in ATM: also cumulate salt-plume flux in S/R THSICE_SALT_PLUME (for |
121 |
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export to coupler interface) even without compiling pkg/salt_plume ; |
122 |
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b) in OCN: apply coupler salt-plume flux to pkg/salt_plume field |
123 |
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(saltPlumeFlux) just before exch call, in S/R SALT_PLUME_DO_EXCH. |
124 |
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o pkg/dic: |
125 |
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- use the updated seaice fraction (from seaice pkgs) for DIC forcing |
126 |
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instead of the previous time-step value ; done in new S/R DIC_FIELDS_UPDATE |
127 |
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called from the top of dic_biotic_forcing.F (instead of in DIC_FIELDS_LOAD); |
128 |
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- move also update with values from ATM-OCN Coupler in the same new S/R |
129 |
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(previously done in ocn_apply_import.F). |
130 |
|
o tools/adjoint_options: |
131 |
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- specify explicitly "-f77" or "-f90" in default ad-optfile since TAF (default) |
132 |
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has been changed on Jan 14, 2016. |
133 |
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o pkg/ggl90: |
134 |
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- add alternative discretisation of vertical shear (off by default), to |
135 |
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compute the mean (@ grid-cell center) of vertical shear compon instead of |
136 |
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vertical shear of mean flow (@ grid-cell center). |
137 |
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- add correct parenthesis in ALLOW_GGL90_SMOOTH code to get the same truncated |
138 |
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results on adjacent faces of cubed-sphere grids; this fix the restart. |
139 |
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o pkg/atm_compon_interf: |
140 |
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- skip time-ave over cpl_atmSendFrq of Sea-Level Pressure (atmSLPr) and just |
141 |
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pass last value, stored directly before export to CPL ; |
142 |
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Note: this affects results of Coupled set-up where OCN uses useImportSLP=T |
143 |
|
- remove atmSLPr from pickup files (no longer needed for restart) |
144 |
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|
145 |
|
checkpoint65s (2016/01/13) |
146 |
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o eesupp & genmake2: |
147 |
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- first check for Function ETIME and, if it fails, then check for subroutine |
148 |
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ETIME and consistent output; use the appropriate version in timers.F |
149 |
|
o model/src: |
150 |
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- to check restart test, add option to apply EXCH to U,V earlier, just before |
151 |
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integr_continuity; turned off by default. |
152 |
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o pkg/dic: |
153 |
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- remove CPP option USE_ATMOSCO2 (not needed) |
154 |
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o tools/tst_2+2: |
155 |
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- try to ignore difference between +0 and -0 in binary file, causing test |
156 |
|
to fail for no good reason. |
157 |
|
o eesupp & genmake2: |
158 |
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- put back modif from Jinxuan Zhu - change etime fct call to S/R call - |
159 |
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but also check (in genmake2) that test runs and returns meaningful results. |
160 |
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o coupler pkgs: |
161 |
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Finish implementation of optionally-exchanged variable switches (started on |
162 |
|
Nov 12) with addition of few more exchanged fields, including 2-way exchange |
163 |
|
of pkg/thsice vars to allow to use seaice dynamics (from pkg/seaice) & seaice |
164 |
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advection in OCN component; this requires sequential coupling. |
165 |
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coupler (pkg/atm_ocn_coupler): |
166 |
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- add argument msgUnit and iter number to CPL_SEND/RECV_ATM/OCN_FIELDS |
167 |
|
routines (useful for debug). |
168 |
|
- only export/import optionally exchanged fields (RunOff, seaice, Salt-Plume |
169 |
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flux, DIC fields) if corresponding switch is ON. |
170 |
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- add option to export RunOff to OCN (to use for DIC river input) |
171 |
|
- add 2-way thSIce vars exchange; check for consistent cpl_sequential setting. |
172 |
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components (pkg/atm_ & ocn_compon_interf): |
173 |
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- to save memory space in ATM & OCN comp: add some #ifdef ALLOW_${PKG} around |
174 |
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optionally exchanged fields; add a check & stop in cpl_readparms.F. |
175 |
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ATMCPL.h: ALLOW_LAND for RunOff, ALLOW_THSICE for seaice, ALLOW_AIM for CO2; |
176 |
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OCNCPL.h: ALLOW_SALT_PLUME, ALLOW_DIC for DIC, ALLOW_THSICE for 2-W thsice. |
177 |
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- rename: fracIce -> sIceFrac_cpl (<- match coupler var name) |
178 |
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+ in ATM: fracIceTime -> sIceFracTime ; seaIceTime -> sIceMassTime. |
179 |
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- add 2-way thSIce vars exchange ; add Salt-Plume flux ; add RunOff in OCN. |
180 |
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- hold in common block coupler optionally-exchanged variable switch |
181 |
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and set default "useImportXXX" accordingly; + check & stop if inconsistent. |
182 |
|
- add diagnostics for all imported fields from coupler (in both OCN & ATM); |
183 |
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this is intended to replace the OCN cplFldtave.* output files (not updated |
184 |
|
to contain new additional exchanged fields). |
185 |
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o pkg/dic: |
186 |
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- fix an other bug (also from 2014/08/30) in dic_atmos.F, in dic_int1=3 code. |
187 |
|
o pkg/thsice: |
188 |
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- when coupled to ATM (useCoupler) with thSIce_skipThermo=T, skip reading |
189 |
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and writing of thsice pickup files. |
190 |
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o pkg/atm_compon_interf: |
191 |
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- move all field individual export-call out of cpl_export_import_data.F |
192 |
|
into new S/R ATM_EXPORT_FIELDS |
193 |
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o pkg/atm_compon_interf: |
194 |
|
- store state variables (for now, only thSIce fields) just before beeing |
195 |
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exported (in cpl_export_import_data.F, like on ocean side) instead of from |
196 |
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atm_store_my_data.F like all exported fluxes. |
197 |
|
- new version of pickup_cpl: write field names into meta file and read meta |
198 |
|
file to find field postion in pickup. Also only write/read fields meeded for |
199 |
|
restart (same logic as main pickup file ; also using pickupStrictlyMatch) |
200 |
|
o pkg/dic: |
201 |
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- fix bug (added on 2014/08/30) in dic_atmos.F for the case dic_int1= 2 or 3. |
202 |
|
o pkg/seaice: add new parameter SEAICEpressReplFac to choose between |
203 |
|
pressure replacement method (=1., default) or original Hibler (1979) (=0.) |
204 |
|
value can be from domain [0,1] to average between the two methods |
205 |
|
o pkg/atm_phys: |
206 |
|
- allow to provide 2-d map of albedo and mixed-layer depth from files (but |
207 |
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hold fixed in time). |
208 |
|
|
209 |
|
checkpoint65r (2015/12/21) |
210 |
|
o pkg/seaice: |
211 |
|
fix bug in tridiagonal solvers for SEAICE_OLx/y>0, this affects the JFNK |
212 |
|
solver (offline.dyn_jfnk) and global_ocean.cs32x15.seaice -> updated |
213 |
|
o pkg/seaice: |
214 |
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- fix a bug in computing areaS in (J-J -> J-1) that affects runs |
215 |
|
when SEAICEscaleSurfStress=.TRUE., |
216 |
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- apply areaW and areaS in S/R seaice_calc_lhs |
217 |
|
o pkg/atm_phys: |
218 |
|
- add diagnostics for 3-D, Nr+1 levels diagnostics of radiative fluxes |
219 |
|
(shortwave & longwave, net & downward) and diagnostics of temp. tendency |
220 |
|
for individual contribution (convection, LSC cond, radiation) |
221 |
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- add Ruth Geen etal, GRL 2016, radiation options (see paper supp. |
222 |
|
information); activated with: solar_exponent=0. and wv_exponent=-1. |
223 |
|
o pkg/ggl90: |
224 |
|
- within IDEMIX add upper limit for horizontal group velocity to |
225 |
|
avoid instability problems in the explicit horizontal diffusion term for |
226 |
|
long time steps or high resolution |
227 |
|
o pkg/diagnostics: |
228 |
|
- simplify setting of local-array size in diagstats_output.F: uses "numLevels" |
229 |
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(from DIAGNOSTICS_SIZE.h) to allow to write out more than Nr levels. |
230 |
|
o testreport: |
231 |
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- remove "-v" (verbose option) in default mpirun command. |
232 |
|
o pkg/seaice/seaice_growth: |
233 |
|
- catch potential division by zero in ITD code, does not change |
234 |
|
verification results |
235 |
|
o pkg/ecco: |
236 |
|
- retire old codes to the Attic. The calls to retired functions are |
237 |
|
left in a commented form in case they ever need to be re-activated. |
238 |
|
- ecco_check.F: issue warning if any old CPP option is |
239 |
|
defined that corresponds to retired codes -- then stop. |
240 |
|
o pkg/atm_compon_interf: |
241 |
|
- change seaice fraction (use for OCN dic surf.flux) stored and sent to |
242 |
|
coupler: use last time-step value instead of average over cplSendFrq_iter |
243 |
|
time-step, similar to what is done for seaIceMass. |
244 |
|
This will affect results (pkg/dic) of coupled ATM-OCN+dic set-up. |
245 |
|
o eesupp & genmake2: |
246 |
|
- from Jinxuan Zhu: change etime fct call to S/R call (fix gfortran ETIME); |
247 |
|
<= remove until a fix is found for some ifort version on ia32 machine. |
248 |
|
o pkg/seaice/seaice_evp: |
249 |
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- refine residual computation |
250 |
|
|
251 |
|
checkpoint65q (2015/11/18) |
252 |
|
o pkg/seaice/seaice_evp: |
253 |
|
- fix residual computations so that they no longer affect the actual |
254 |
|
simulation code |
255 |
|
- fix seaice_readparams to be able to actually set new parameters |
256 |
|
SEAICEaEVPcStar and SEAICEaEVPalphaMin, also fix logic a little |
257 |
|
o model/src: |
258 |
|
- fix wrong truncation (single prec) from "FLOAT" function in expressions |
259 |
|
like: deltaT*FLOAT(myIter) when myIter is large: |
260 |
|
a) replaced by DFLOAT (if not seen by TAF); |
261 |
|
b) remove "FLOAT" and use implicit type conversion (if seen by TAF). |
262 |
|
o pkg/aim_v23: |
263 |
|
- write/read the expected CO2 pickups (from S/R AIM_DO_CO2): fix reading |
264 |
|
when pickupSuff is set ; do write rolling pickups + at the end of the run. |
265 |
|
o pkg/atm_ocn_coupler + ocn_compon_interf: |
266 |
|
- in prep for using pkg/seaice Dyn in coupled set-up, implement sequential |
267 |
|
coupling option-1: ATM -(cpl)-> OCN and then OCN -(cpl)-> ATM ; |
268 |
|
add corresponding call in DO_OCEANIC_PHYS. |
269 |
|
o coupler pkgs: |
270 |
|
Start a new way to set-up optionally-exchanged variables (previously, only |
271 |
|
there for exchange_DIC): switch on/off from 1 place, at run-time, in coupler |
272 |
|
data.cpl (new) instead of at compile time in ATMIDS.h & OCNIDS.h ; |
273 |
|
send switch to ATM & OCN compon before reading their own "data.cpl" (so that |
274 |
|
compononent param default can be set accordingly). |
275 |
|
Note: this new switch (cpl_exchange_[xxx]) is not a per variable switch |
276 |
|
but rather applies to a group a fields (going both ways like for DIC) |
277 |
|
and corresponds to an option of coupling config. |
278 |
|
coupler (pkg/atm_ocn_coupler): |
279 |
|
- change parameter file from "data" to "data.cpl" (in cpl_read_params.F), |
280 |
|
and read namelist directly (without eessup S/R calls) instead of |
281 |
|
in the very un-flexible old way, 1 param per line, in fixed order; |
282 |
|
- add error-counter to track errors (e.g., missing "data.cpl") and to stop |
283 |
|
cleanly in CPL_CHECK_CPLCONFIG |
284 |
|
- add new coupling-exchange selectors (some not yet active) including |
285 |
|
cpl_exchange_DIC (to set to 3 to replace atmCpl_exchange_DIC=T in ATMIDS.h |
286 |
|
and ocnCpl_exchange_DIC=T in OCNIDS.h); |
287 |
|
- add 2 new S/R (CPL_SEND_ATM/OCN_CPLPARMS) to send coupler-params to each |
288 |
|
component ; called directly from coupler.F, after comp. registrations; |
289 |
|
- rename few variable-ID names (in ATMIDS.h & OCNIDS.h): |
290 |
|
atm/ocnSeaIceName --> atm/ocnSIceMassName ; atm/ocnFCO2Name -> |
291 |
|
-> atm/ocnCO2FluxName ; atm/ocnWSpdName --> atm/ocnWindSpdName |
292 |
|
components (pkg/atm_ & ocn_compon_interf): |
293 |
|
- add ATM/OCN_CPL_OPTIONS.h in component pkgs and include the corresponding |
294 |
|
CPP header file in all pkg source files. |
295 |
|
- move checking of comp. configs out of cpl_exch_configs.F into new S/R |
296 |
|
ATM/OCN_CHECK_CPLCONFIG; |
297 |
|
- add error-counter to track errors (e.g., in "data.cpl") and to stop |
298 |
|
cleanly in ATM/OCN_CHECK_CPLCONFIG; |
299 |
|
- add new S/R CPL_IMPORT_CPLPARMS to import coupling-exchange selectors |
300 |
|
from coupler ; called from initialise_fixed.F, after PACKAGES_BOOT and |
301 |
|
before PACKAGES_READPARMS; |
302 |
|
verification/cpl_aim+ocn/: |
303 |
|
- update ATMIDS.h & OCNIDS.h (in shared_code) and use new parameter file |
304 |
|
"data.cpl" for coupler (in input_cpl). |
305 |
|
o eesupp/inc: |
306 |
|
- change the MPI-global-sum default (in CPP_EEOPTIONS.h) to: |
307 |
|
#define GLOBAL_SUM_ORDER_TILES (only affects MPI built of global_sum_tile.F) |
308 |
|
to always cumulate tile local-sum in the same order (still uses |
309 |
|
MPI_Allreduce like standard code). |
310 |
|
- in verification experiment code, remove local CPP_EEOPTIONS.h_mpi files |
311 |
|
that are now identical to standard version (in eesupp/inc). |
312 |
|
o pkg/shelfice: |
313 |
|
- add SHELFICETransCoeffTFile for initializing spatially varying |
314 |
|
heat and salt transfer coefficients |
315 |
|
o pkg/atm_compon_interf & ocn_compon_interf: |
316 |
|
- combine into 1 (new) S/R CPL_EXPORT_IMPORT_DATA the two previous |
317 |
|
S/R CPL_EXPORT_MY_DATA & CPL_IMPORT_EXTERNAL_DATA |
318 |
|
- move bi,bj loops inside S/R OCN_STORE_MY_DATA |
319 |
|
o pkg/atm_ocn_coupler: |
320 |
|
- initialise to zero ATMVARS.h & OCNVARS.h arrays. |
321 |
|
o pkg/rbcs: |
322 |
|
- select RBCS-mask for Temp & Salt the same way as for pTracer ; this allows |
323 |
|
to compile with maskLEN=1 when all tracers use the same RBCS-mask. |
324 |
|
- add a short report (to STDOUT) about RBCS-mask settings. |
325 |
|
|
326 |
|
checkpoint65p (2015/10/23) |
327 |
|
o pkg/seaice/seaice_evp.F: fix store directives and key computations, since |
328 |
|
there is no adjoint test for EVP, we don't know what it does to the adjoint |
329 |
|
solution, but at least there are no more recomputation warnings left |
330 |
|
o pkg/seaice/seaice_evp.F: slight modification of averaging so that EVP stands |
331 |
|
a chance of giving the same results as a fully converged VP (JFNK) solver |
332 |
|
o tools/adjoint_options/adjoint_diva: |
333 |
|
- fix bug (typo) in Tang-Linear FLAGS setting for MPI + DIVA |
334 |
|
o pkg/streamice: |
335 |
|
- spotted bug in streamice_driving_stress using dyG where should have been dxG |
336 |
|
o pkg/exf: |
337 |
|
- remove STOP statement that prevented to use wind or (wind-)stress |
338 |
|
interpolation for constant-in-time forcing fields (wind/stress period = 0). |
339 |
|
o pkg/seaice: |
340 |
|
- replace SEAICE_EVP_USE_ADAPTATION by run time parameters, requires |
341 |
|
5 additionals 2D fields and 6 new store directives |
342 |
|
- change logic in seaice_readparms.F: EVP code can now be turned on in |
343 |
|
various ways, setting SEAICE_deltaTev is no longer required, |
344 |
|
alternatively set SEAICE_evpAlpha/Beta, SEAICEuseEVPstar, SEAICEuseEVPrev, |
345 |
|
or SEAICEaEVPcoeff |
346 |
|
o pkg/shelfice/shelfice_thermodynamics.F |
347 |
|
- redefining uLoc/vLoc to u/v, instead of 2u/v |
348 |
|
o pkg/seaice/seaice_evp.F: introduce "adaptive EVP" by Madlen Kimmritz |
349 |
|
- this is an intermediate state of a truely converging EVP that has |
350 |
|
the potential of outperforming implicit VP methods, I do not recommend |
351 |
|
using it yet. |
352 |
|
- for now, "adaptive EVP" is turned on by setting SEAICE_EVP_USE_ADAPTATION |
353 |
|
and all parameters are hardwired |
354 |
|
- for convergence it still requires very smooth regularisations, that means, |
355 |
|
if SEAICE_DELTA_SMOOTHREG is defined, deltaCreg=deltaC+deltaMin, which is |
356 |
|
different from the VP case with deltaCreg=sqrt(deltaC**2+deltaMin**2); also |
357 |
|
specific averaging appears to be required, still subject to tuning |
358 |
|
- still needs cleaning and I need to turn parameter into runtime parameters |
359 |
|
- add code to compute and print residuals of iteration, compile with |
360 |
|
defining ALLOW_SEAICE_EVP_RESIDUAL to enable it |
361 |
|
o pkg/seaice/seaice_evp.F: fix a bug (factor of four in front of e12Csq) |
362 |
|
that entered with r1.54 on Sep04, 2015, -> update results |
363 |
|
|
364 |
|
checkpoint65o (2015/09/14) |
365 |
|
o pkg/mom_vecinv & mom_common: |
366 |
|
- add deep-atmosphere geometry factor in mom_calc_visc.F + in routines |
367 |
|
called from there. |
368 |
|
- add anelastic and deep-atmosphere geometry factor in pkg/mom_vecinv ; this |
369 |
|
allows to use Vector-Invariant form in deep atmos and anelastic formulation |
370 |
|
o pkg/seaice: introduce fast ice parameterisation following Itkin et al. (2015) |
371 |
|
and Koenig-Beatty+Holland (2012) |
372 |
|
- two new parameters SEAICE_tensilFac and SEAICE_tensilDepth |
373 |
|
- global 2D field tensileStrength, computed in seaice_calc_ice_strength |
374 |
|
- requires an extra input argument for S/R seaice_calc_viscosities |
375 |
|
- tensileStrength's depth dependence is different from Itkin et al. (2015) |
376 |
|
(to be changed and played with, for now exponential) |
377 |
|
o pkg/seaice: introduce new parameter SEAICEscaleSurfStress (default = .FALSE.) |
378 |
|
- if TRUE scale ice-ocean and ice-atmosphere stress acting on sea ice |
379 |
|
by AREA according to Connelly et al. (2004), JPO. |
380 |
|
- For EVP and the LSR solver, the implicit part of the drag term is |
381 |
|
the only non-zero term in the denominator when there is no ice (which |
382 |
|
prevented running the model with zero ice-ocean drag). If |
383 |
|
SEAICEscaleSurfStress = .TRUE., this results in a division by zero |
384 |
|
(or zero main diagonals BU/BV) which need to be caught. A practical |
385 |
|
consequence is that for open water, the momentum equation reduce |
386 |
|
to trivially 0 = 0 + 0 (for EVP). For LSR, BU/BV are reset to 1, if |
387 |
|
they happen to be zero, often leading to a non-zero solution over |
388 |
|
open water. |
389 |
|
o pkg/seaice: revise EVP code (seaice_evp.F) in preparation for a more |
390 |
|
efficient EVP method. |
391 |
|
- introduce area-weighted averages for e12 (analogously to |
392 |
|
seaice_calc_viscosities.F); this totally changes lab_sea.hb87 (2 digits |
393 |
|
remain, but also changing the order of terms in the previous average |
394 |
|
changed the results as much) -> update experiment |
395 |
|
- add SEAICE_DELTA_SMOOTHREG code |
396 |
|
- disentangle computation of zetaC/deltaC and zetaZ/deltaZ, also for |
397 |
|
TEM-code |
398 |
|
- adjust loop bounds so that only required fields are computed |
399 |
|
- add new averaging code for zetaZ/deltaZ (again similar to |
400 |
|
seaice_calc_viscosities.F), inactive by default for now (will change |
401 |
|
results again), but will replace old code eventually |
402 |
|
o eesupp/src: |
403 |
|
- add an other alternative for multi-proc GLOBAL_SUM (in global_sum_tile.F) |
404 |
|
to always cumulate tile local-sum in the same order |
405 |
|
(option #define GLOBAL_SUM_ORDER_TILES in CPP_EEOPTIONS.h). |
406 |
|
Still uses MPI_Allreduce (like standard code) but on array of tiles |
407 |
|
and should be faster than GLOBAL_SUM_SEND_RECV code. |
408 |
|
- switch almost all verification experiments that use GLOBAL_SUM_SEND_RECV |
409 |
|
(defined in CPP_EEOPTIONS.h_mpi) to GLOBAL_SUM_ORDER_TILES instead. |
410 |
|
- add CPP_EEOPTIONS.h_mpi with GLOBAL_SUM_ORDER_TILES defined in 14 more exp.: |
411 |
|
aim.5l_cs, cheapAML_box, deep_anelastic, dome, fizhi-cs-32x32x40, |
412 |
|
fizhi-cs-aqualev20, fizhi-gridalt-hs, global_ocean_ebm, matrix_example, |
413 |
|
natl_box, solid-body.cs-32x32x1, tutorial_advection_in_gyre, |
414 |
|
tutorial_baroclinic_gyre and tutorial_held_suarez_cs. |
415 |
|
|
416 |
|
checkpoint65n (2015/07/29) |
417 |
|
o pkg/thsice: |
418 |
|
- add a warning when used with pkg/aim but without updating SST |
419 |
|
(stepFwd_oceMxL=F & useCoupler=F & tauRelax_MxL<>-1 ). |
420 |
|
o pkg/offline: |
421 |
|
- change where Offline-Fields are loaded, from load_fields_driver.F to |
422 |
|
directly within FORWARD_STEP, just after updating iter number and time; |
423 |
|
- move setting of GM and KPP diffusivity out of OFFLINE_FIELDS_LOAD into new |
424 |
|
S/R OFFLINE_GET_DIFFUS that is called towards the end of DO_OCEANIC_PHYS; |
425 |
|
These changes allow: |
426 |
|
a) to recover exactly on-line results using deltaToffline=deltaTClock, |
427 |
|
tested (using offlineIter0= nIter0 -1 and offlineTimeOffset= -deltaT/2) |
428 |
|
both with Lin & Non-Lin Free-Surf, both with staggerTimeStep & synchronous |
429 |
|
time-step, both with GM & KPP files and with recomputing these fields; |
430 |
|
b) no needs to switch on staggerTimeStep anymore; |
431 |
|
c) simplify rescaling of offline horiz. velocity with Non-Lin Free-Surf. |
432 |
|
- update output of experiment tutorial_dic_adjoffline (only 3 digits left). |
433 |
|
o pkg/offline: |
434 |
|
- change (rarely used) offset-iteration parameter to an offset time (in s): |
435 |
|
can easily recover previous offset-iter effect by setting offset-time |
436 |
|
(offlineTimeOffset) to offset-iter x deltaToffline; |
437 |
|
- do not turn-off Temp & Salinity surface relaxation when using KPP (used |
438 |
|
in KPP as part of surface buoyancy forcing) in offline run. |
439 |
|
- fix ptracers KPP non-local term in the case where KPP is re-computed. |
440 |
|
o OpenAD |
441 |
|
- Adding preliminary ggl90 test to OpenAD verification. |
442 |
|
Config. with ggl90 currently diverges after 64 time steps |
443 |
|
so will need more work to become more stable |
444 |
|
- Adding preliminary kpp test to OpenAD verification. |
445 |
|
required small tweakes in kpp_routines.F |
446 |
|
- Merge and update from Krishna Narayanan's contrib area: |
447 |
|
* Add one variable for preliminary OpenAD DIVA |
448 |
|
* Add replacement time-stepping for OpenAD DIVA |
449 |
|
* genmake2 flag -diva (but only for OpenAD; preliminary) |
450 |
|
* required modifs for OAD_support |
451 |
|
successful preliminary test for tutorial_global_oce_biogeo/ |
452 |
|
o pkg/seaice: |
453 |
|
- initialise deltaC in seaice_lsr, cosmetic changes in seaice_lsr |
454 |
|
- add cpp-flag SEAICE_DELTA_SMOOTHREG for option of regularising |
455 |
|
delta with a smooth function in s/r seaice_calc_viscosity |
456 |
|
(no effect on EVP) |
457 |
|
- rename local suffix "sqr" into "sq" for more consistent variable names |
458 |
|
o pkg/seaice: |
459 |
|
add new parameter SEAICE_deltaMin that is used ***only*** |
460 |
|
for regularizing Delta (and nothing else, like the parameter |
461 |
|
which is also used for all sorts of things SEAICE_EPS). |
462 |
|
Defaults to SEAICE_EPS for backward compatibility only. |
463 |
|
o pkg/seaice: replace erroneously storing e12Csqr on the wrong tape with |
464 |
|
the wrong key by inialising it before use -> fixes a recomputation |
465 |
|
problem but does not fix the gradient |
466 |
|
o pkg/layers: |
467 |
|
- move resetting of flux arrays to outside the iLa loop |
468 |
|
(this caused layers_diapycnal to not work with more than one layer coord.) |
469 |
|
- fix bug in calculation of layers_recip_delta in layers_init_fixed.F |
470 |
|
o pkg/layers: |
471 |
|
- remove from common block 3D layers fields (used to diagnose transport |
472 |
|
in tracer coords) and declare them as local arrays in layers_calc.F |
473 |
|
o pkg/seaice: |
474 |
|
- Rename SEAICE_VECTORIZE_LSR_ZEBRA to SEAICE_LSR_ZEBRA and define it |
475 |
|
in lab_sea forward experiment (changes results -> updated) |
476 |
|
- update adjoint experiment lab_sea after cleaning up seaice_lsr_tridiagu/v |
477 |
|
o pkg/seaice: modify seaice_lsr.F in order to improve the gradient |
478 |
|
computations; for SEAICE_VECTORIZE_LSR |
479 |
|
- move the loops over which the tridiagonal solvers (seaice_lsr_tridiagu/v) |
480 |
|
sweep to the outside, |
481 |
|
- remove store directives and add "CADJ loop sequential" directives |
482 |
|
in analogy to model/src/solve_tridiagonal.F |
483 |
|
- replace many "#ifdef SEAICE_VECTORIZE_LSR_ZEBRA" by variable loop |
484 |
|
boundaries to yield more readable code. This has also the charming side |
485 |
|
effect that your can use SEAICE_VECTORIZE_LSR_ZEBRA without |
486 |
|
SEAICE_VECTORIZE_LSR (i.e. adjoint without recomputations in |
487 |
|
seaice_lsr_tridiagu/v now requires either of these flags, vectorization |
488 |
|
still requires SEAICE_VECTORIZE_LSR with SEAICE_VECTORIZE_LSR_ZEBRA as |
489 |
|
an additional option) |
490 |
|
The tridiagonal solvers are now completely analoguous to solve_tridiagonal.F |
491 |
|
but the adjoint gradients (which are affected by this change) still explode. |
492 |
|
o coupler (atm & ocn _compon_interf): |
493 |
|
- avoid using Exch2 IO mapping if not suitable. |
494 |
|
|
495 |
|
checkpoint65m (2015/06/15) |
496 |
|
o pkg/layers: |
497 |
|
- clean-up old parameters setting (from Sep 2012): |
498 |
|
+ remove old parameters setting from common block (declared locally); |
499 |
|
+ stop if any old parameter is mixed with new parameters; |
500 |
|
+ check for valid or consistent parameter setting (e.g., layers_name) |
501 |
|
- check that layers_bounds for Pot.Density are in the right range; |
502 |
|
this is supposed to catch un-updated setting after recently shifting |
503 |
|
potential density field "prho" by -1000 (now in "sigma" scale). |
504 |
|
o pkg/layers: |
505 |
|
- Added missing call to layers_fill for keeping track of tottend in |
506 |
|
pkg/diagnostics/diagnostics_fill_state.F |
507 |
|
o pkg/layers: |
508 |
|
- added CPP flux LAYERS_FINEGRID_DIAPYCNAL to disable fine-grid binning |
509 |
|
of diapycnal fluxes |
510 |
|
o pkg/layers: |
511 |
|
- reverted changes to interpolation to previous treatment; there |
512 |
|
was never actually a problem |
513 |
|
o pkg/layers: |
514 |
|
- fix interpolation of layers tracers in the presence of partial cells |
515 |
|
- add lots of new functionality to compute water mass transformation |
516 |
|
(enabled by CPP flag LAYERS_THERMODYNAMICS) |
517 |
|
- add new calls from main code (diags_oceanic_surf_flux.F, |
518 |
|
thermodynamics.F, impldiff.F) and gad to save the necessary fields |
519 |
|
for layers_thermodynamics calculations |
520 |
|
o pkg/ptracers: |
521 |
|
- add capability of stepping a passive tracer forward without advection |
522 |
|
by setting PTRACERS_advScheme to 0. |
523 |
|
o pkg/diagnostics: |
524 |
|
- add few (threads) _BARRIER around any update of "diag_pkgStatus". |
525 |
|
o pkg/layers: |
526 |
|
- shift potential density field "prho" by -1000 for density layer averaging so |
527 |
|
that it corresponds to usual "sigma" definition (i.e., rho(p=const)-1000); |
528 |
|
Note that density bin boundaries (layers_bounds in data.layers) have |
529 |
|
to be set accordingly (i.e., shifted, in sigma scale). |
530 |
o pkg/layers: |
o pkg/layers: |
531 |
- fix snap-shot output of layer thickness @ V.pt and output of pot.density |
- fix snap-shot output of layer thickness @ V.pt and output of pot.density |
532 |
- fix calculation of layer non-weighted velocity and layer probability |
- fix calculation of layer non-weighted velocity and layer probability |