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 pkg/seaice: preparations for ridging code and first real ridging code |
8 |
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- move most of "PART 1" of S/R seaice_growth into a new and separate |
9 |
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S/R seaice_reg_ridge that will both regularize the state variable after |
10 |
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advection call the actual ridging routine; |
11 |
|
- requires to make 5 fields global fields: d_HEFFbyNEG,d_HSNWbyNEG, |
12 |
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d_AREAbyRLX,d_HEFFbyRLX,saltFluxAdjust; |
13 |
|
- remove ridging code from seaice_advdiff |
14 |
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- clean up remaining part 1 of seaice_growth in an attempt to make it |
15 |
|
more readable (this is probably subjective) |
16 |
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- call seaice_itd_redist once in the initialisation phase to have the initial |
17 |
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conditions in the correct category |
18 |
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- finally: add new ridging routine for ITD code |
19 |
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|
20 |
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checkpoint64v (2014/04/11) |
21 |
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o pkg/ecco: |
22 |
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- add runtime parameters mdt[start,end]date[1,2] |
23 |
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- rename variable "tpmean" as "mdt" and "topexmeanfile" as "mdtdatfile" |
24 |
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o pkg/seaice: |
25 |
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- make deltaC a global variable, so that it can be used in ridging code |
26 |
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- first step towards ridging: introduce new routines that compute |
27 |
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ice strength based on ridging parameters |
28 |
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- add diagnostic for HSNOWITD |
29 |
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- add opnWtrFrac as a global variable (required for ridging scheme) |
30 |
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o pkg/salt_plume + pkg/seaice/seaice_growth.F |
31 |
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- add SALT_PLUME_IN_LEADS flag to activate pkg/salt_plume only when ice |
32 |
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AREA exceeds a threshold (code contributed by I.Fenty in 2011) |
33 |
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o verification/hs94.1x64x5: |
34 |
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- leave ALLOW_AUTODIFF_TAMC undefined in code_oad/AUTODIFF_OPTIONS.h |
35 |
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- do not use ECCO_CPPOPTIONS.h anymore for TAF & OpenAD Adjoint tests. |
36 |
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o autodiff: |
37 |
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- Start to include explicitly AUTODIFF_OPTIONS.h, COST_OPTIONS.h, |
38 |
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and CTRL_OPTIONS.h in src files (to enable to skip the ECCO_CPPOPTIONS.h) |
39 |
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For now, only in pkgs used in verification/hs94.1x64x5. |
40 |
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- Replace ALLOW_AUTODIFF_TAMC by ALLOW_AUTODIFF (except for tape/storage |
41 |
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which are specific to TAF/TAMC). |
42 |
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- Replace ALLOW_AUTODIFF_OPENAD by ALLOW_OPENAD: |
43 |
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since ALLOW_OPENAD is defined in PACKAGES_CONFIG.h (any time pkg/openad |
44 |
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is compiled), this simplifies/reduces which *_OPTIONS.h file to include. |
45 |
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- OpenAD: change Makefile to generate the appropriate AD_CONFIG.h when |
46 |
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building mitgcmuv_ad (make adAll). |
47 |
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o pkg/ecco: |
48 |
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- cost_gencost_seaicev4.F: |
49 |
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reformulate proxy cost as function of sst and local param SEAICE_freeze |
50 |
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change cost names from siv4-[sst,vol] to siv4-[deconc,exconc] |
51 |
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- add stop statement if old names siv4-[sst,vol] are used |
52 |
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- add snapshots + cost reports for atmospheric longwave |
53 |
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- remove factor 0.1 in front of wtau[u,v] |
54 |
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- replace never used flag ALLOW_TMI_COST_CONTRIBUTION with |
55 |
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ALLOW_TMI_SST_COST_CONTRIBUTION |
56 |
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o pkg/atm_phys: |
57 |
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- add some diagnostics for Short-wave and for convection S/R. |
58 |
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o pkg/seaice/seaice_growth: |
59 |
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- fix a bug in the lateral melt parameterization for SEAICE_ITD |
60 |
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in seaice_growth; tempFrz needs to be computed inside the i/j-loop |
61 |
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- rearrange loop order for better vector code in the same code block |
62 |
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- rewrite the floeDiameter formula to have fewer divisions |
63 |
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- (miraculously) none of this changes the results of seaice_itd |
64 |
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o pkg/smooth: |
65 |
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- move param smooth2Ddiffnbt to pkg/ecco |
66 |
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o pkg/salt_plume: |
67 |
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- salt_plume_frac.F: |
68 |
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clean up local param names |
69 |
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reformulate (1-frac) to frac; original 1-frac was based on swfrac code |
70 |
|
o pkg/rw: |
71 |
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- add RS version of S/R READ_MFLDS_LEV. |
72 |
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o pkg/streamice: |
73 |
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- fix the restart test by writing/reading pickup_streamice files. |
74 |
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o pkg/seaice: |
75 |
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- refine checks for jfnk-related parameters |
76 |
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- comment out if statement with SEAICEuseIMEX parameter as long as there |
77 |
|
is no IMEX code to avoid confusion and surprises |
78 |
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|
79 |
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checkpoint64u (2014/03/07) |
80 |
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o verification/MLAdjust: |
81 |
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- rename secondary test suffix: |
82 |
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1.leith -> A4FlxF + switch to flux-form & add side-drag |
83 |
|
0.leithD -> AhFlxF + switch to flux-form |
84 |
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0.smag -> AhVrDv (use Vorticity-Div. visc form) + add side-drag |
85 |
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0.leith -> AhStTn (use Strain-Tension visc form) + add side-drag |
86 |
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o pkg/mom_vecinv: |
87 |
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- remove unused arguments from S/R MOM_VI_HDISSIP & MOM_HDISSIP (as it used |
88 |
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to be before mom_calc_visc.F) |
89 |
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- skip the call to MOM_CALC_TENSION & MOM_CALC_STRAIN if not needed. |
90 |
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- add 2nd copy of vort3 & strain that knows about lateral BC (free/no slip): |
91 |
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this is simpler for the adjoint and for diagnostics. |
92 |
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o model/src + pkg/momentum: |
93 |
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- add input files for 2-D additional Western and Southern cell-edge wall |
94 |
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(e.g., to add "thin-wall" where it is =1). |
95 |
|
- fix sideDrag option for thin-walls with Non-Lin Free-Surf |
96 |
|
using 2nd hFacZ that is computed from initial (fix domain) hFac |
97 |
|
- known limitations of thin wall implementation: not yet coded for sigma |
98 |
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coords; not working with CD-scheme neither. |
99 |
|
o pkg/seaice: |
100 |
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- rename recently introduced parameters from (wrong name) AB to |
101 |
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BDF (backward difference time discretisation) |
102 |
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- retire runtime parameters SEAICEuseAB2, SEAICE_abEps |
103 |
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o tools/adjoint_options: |
104 |
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- remove setting of "OPENAD=true" (now set by command line "genmake2 -oad") |
105 |
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|
106 |
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checkpoint64t (2014/02/01) |
107 |
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o pkg/ecco |
108 |
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- add compile flag ALLOW_GENCOST_TIMEVARY_WEIGHT in ECCO_OPTIONS.h and |
109 |
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runtime logical flag gencost_timevaryweight to read daily sea-ice sigma |
110 |
|
- replace hard-coded record number and period which only work for monthly |
111 |
|
with read-in runtime param that works for other periods (month,day,year) |
112 |
|
o pkg/thsice |
113 |
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- corrected store directive fixes thsice adjoint gradient checks |
114 |
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o genmake2 & testreport: |
115 |
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- add genmake2 option "-oad" to generate a Makefile for OpenAD built and |
116 |
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in this case, use tools/adjoint_options/adjoint_oad as default AD optfile. |
117 |
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Update testreport accordingly. No need to set "export OPENAD=true" |
118 |
|
in adjoint_options/adjoint_oad anymore (will be removed later). |
119 |
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o pkg/shelfice: |
120 |
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- put T & S shelfice forcing into model surfaceForcing_T,_S (for now, |
121 |
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only if SHELFICEboundaryLayer=F); Change model/src/external_forcing.F |
122 |
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so that surface forcing applies to k=kSurf if using pkg/shelfice. |
123 |
|
o pkg/ctrl, pkg/grdchk, pkg/ecco: |
124 |
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- Changes to make GENARR more modular (i.e. invisible if not used) |
125 |
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o model/src/temp_integrate.F and salt_integrate.F |
126 |
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- re-include store directives that were removed on Dec 27th. |
127 |
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o model/src/external_forcing_surf.F |
128 |
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- add storage directives for EmPmR and PmEpR to avoid recomputation of |
129 |
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seaice_model in the adjoint that is problematic when seaice_model is |
130 |
|
turned off in the adjoint. The resolved issue dated back to July when |
131 |
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EXTERNAL_FORCING_SURF call was moved. |
132 |
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Update global_ocean.cs32x15/*/output_adm.seaice_dynmix.txt accordingly. |
133 |
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o pkg/exf/exf_check.F |
134 |
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- fix a small bug again (originally found by Wentao Liu, now found again) |
135 |
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- streamline error output |
136 |
|
o pkg/streamice and aim_v23: |
137 |
|
- replace a few "_EXCH_XY_RL (" with "_EXCH_XY_RL(", so that |
138 |
|
Apple's /usr/bin/cpp knows what to do: |
139 |
|
Apple LLVM version 5.0 (clang-500.2.79) (based on LLVM 3.3svn) |
140 |
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Target: x86_64-apple-darwin13.0.0 |
141 |
|
|
142 |
|
checkpoint64s (2014/01/05) |
143 |
|
o tools/adjoint_options: |
144 |
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- switch to fastopt.net TAF server (instead of default fastopt.de) for |
145 |
|
AD optfiles adjoint_diva & adjoint_f95 (similar to adjoint_default). |
146 |
|
o model/src: |
147 |
|
- remove some unnecessary TAF storage directives in forward_step.F and |
148 |
|
in dynamics.F (note: not always removed by TAF, e.g., double storage |
149 |
|
of kappaRU,kappaRV in former version of dynamics.F). |
150 |
|
o model/src & pkg/ptracers: |
151 |
|
- call directly GAD_IMPLICIT_R & IMPLDIFF + DWNSLP_APPLY from temp_integrate.F |
152 |
|
salt_integrate.F and ptracers_integrate.F (instead of from thermodynamics.F) |
153 |
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and remove ptracers_dwnslp_apply.F & ptracers_implicit.F |
154 |
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- call MATRIX_STORE_TENDENCY_EXP for each tracer (in ptracers_integrate.F) |
155 |
|
- add fZon & fMer as output argument of S/R GAD_CALC_RHS. |
156 |
|
- update TAF AD-output of experiments global_ocean.90x40x15 (13 for AD-grad). |
157 |
|
o useSingleCpuInput separates single-CPU input from single-CPU output; |
158 |
|
for now only implemented for in exf_interp_read.F |
159 |
|
o verification/advect_xy: |
160 |
|
- fix missing EXCH call in local version of ini_salt.F and update output. |
161 |
|
o momentum diagnostics: |
162 |
|
- fix which deltaT is used in Total-Tendency diagnostics. |
163 |
|
- fix typo in diagnostics for momentum tendency from AB. |
164 |
|
o pkg/seaice/seaice_lsr.F: fix an initialisation bug for the |
165 |
|
SEAICE_VECTORIZE_LSR_ZEBRA option that lead to NaNs on a NEC-SX8 |
166 |
|
|
167 |
|
checkpoint64r (2013/12/08) |
168 |
|
o verification/*/results: |
169 |
|
- Update reference output of experiments that were passing with just 13 digits |
170 |
|
(make it easier to detect future changes in results) |
171 |
|
o model/src & pkg/ptracers: |
172 |
|
- move calls to GAD_ADVECTION (Multi-Dim advection) from thermodynamics.F to |
173 |
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inside temp_integrate.F and salt_integrate.F and from ptracers_advection.F |
174 |
|
to inside ptracers_integrate.F ; remove ptracers_advection.F |
175 |
|
o coupling interface pkgs: |
176 |
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[atm_compon_interf, ocn_compon_interf & atm_ocn_coupler] |
177 |
|
- change the config check to test the agreement of Ocean Depth |
178 |
|
with ATM land/sea mask (instead of ATM orography); |
179 |
|
- send to coupler the number of coupler time-steps to do for this run: |
180 |
|
this allows to check for consistency and don't need anymore to be |
181 |
|
specified in parameter file "data"; |
182 |
|
in coupler: |
183 |
|
- check consistency of RunOff map versus Ocean Depth and ATM land/sea mask. |
184 |
|
- improve report to log-file of config setting (pass log-file unit to few S/R) |
185 |
|
o pkg/compon_communic: |
186 |
|
- add coupling send/receive for non-tiled integer vector; |
187 |
|
- add S/R to check and stop if any proc has an error (similar to |
188 |
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eesupp/src/stop_if_error.F but single thread and across Comm_World). |
189 |
|
o pkg/exch2: |
190 |
|
- in exch2*_get_rx[1,2]: use new list "W2_tileIndex" to replace search |
191 |
|
through list of all tiles my proc owns. |
192 |
|
o model/src: |
193 |
|
- AUTODIFF only: in calc_adv_flow.F, recompute rTransKp (instead of copying |
194 |
|
from rTrans) to simplify dependencies (no need to store rTrans anymore in |
195 |
|
calling S/R); this affects AD results at machine truncation level: |
196 |
|
update AD-output (TAF) of experiments: 1D_ocean_ice_column, |
197 |
|
bottom_ctrl_5x5 & obcs_ctrl (12 digits for AD grad, same FWD grad). |
198 |
|
o tools/build_options: |
199 |
|
- simplify Warnings options (-ieee & -devel cases) in linux_amd64_gfortran |
200 |
|
o coupling interface pkgs: |
201 |
|
[compon_communic, atm_compon_interf & ocn_compon_interf] |
202 |
|
- move declaration of local array "ibuf" out of header file "CPLR_SIG.h" |
203 |
|
to each S/R that needs it; remove un-used variables. |
204 |
|
- change component tile registration (cpl_register.F in both compon_interf |
205 |
|
and mitcomponent_tile_register.F) to pass the full list of tiles |
206 |
|
information (including bi,bj) in 1 vector (instead of in a bi,bj matrix). |
207 |
|
- with pkg/exch2: adopt the same convention used for I/O to define mapping |
208 |
|
towards coupler global array (unless W2_useE2ioLayOut=F): |
209 |
|
a) can now use different tiling between atm & ocn comp. |
210 |
|
b) no needs to modify the run-Off map when changing tiling (was needed |
211 |
|
even if using the same tiling between atm & ocn). |
212 |
|
c) will allow to run with blank-tiles in 1 component (e.g., for ocean |
213 |
|
full land tiles); not yet tested. |
214 |
|
- check for valid mapping from comp. tile to coupler global array |
215 |
|
- improve report of tile registration results to log file. |
216 |
|
o pkg/exch2: |
217 |
|
- in eesupp/src/eeboot.F: move call to W2_EEBOOT before Coupler |
218 |
|
tile-registration (CPL_REGISTER); |
219 |
|
- activate (un-comment) definition and setting of "W2_tileIndex" list to |
220 |
|
store the local bi,bj indices of each tile; |
221 |
|
- also print bi,bj in local report to log file; |
222 |
|
- fix pkg/debug/debug_cs_corner_uv.F for the case nSy > 1 (left from |
223 |
|
Jun 2009 modif of pkg/exch2). |
224 |
|
o testing on baudelaire: |
225 |
|
- run 2 tests at a time: no significant slow down (since enough cpu) and |
226 |
|
get the full set of test done earlier |
227 |
|
- switch the ifort test to "-devel" ; run the OpenAD test everyday. |
228 |
|
o model/src/thermodynamics.F and routines called from it: |
229 |
|
- pkg/gmredi: gmredi_residual_flow.F (replacing gmredi_calc_uvflow.F & |
230 |
|
gmredi_calc_wflow.F) to update eulerian velocity (input) into residual |
231 |
|
velocity (outp) by adding bolus velocity. |
232 |
|
- model/src: calc_adv_flow.F (replacing calc_common_factors.F) to compute |
233 |
|
mass transport from velocity + lateral grid cell area |
234 |
|
- rename calc_gt.F to temp_integrate.F (includes call to TIMESTEP_TRACER) |
235 |
|
- rename calc_gs.F to salt_integrate.F (includes call to TIMESTEP_TRACER) |
236 |
|
in thermodynamics.F |
237 |
|
- remove k from thermodynamics.F and move it to temp_integrate.F |
238 |
|
salt_integrate.F and ptracers_integrate.F (now done inside the tracer |
239 |
|
loop). |
240 |
|
- compute locally (in thermodynamics.F) 3-D velocity field that is used to |
241 |
|
advect tracers; pass it as argument to GAD_ADVECTION, GAD_SOM_ADVECT, |
242 |
|
PTRACERS_ADVECTION, TEMP_INTEGRATE, SALT_INTEGRATE, PTRACERS_INTEGRATE, |
243 |
|
GAD_IMPLICIT_R and PTRACERS_IMPLICIT |
244 |
|
- update AD-output (TAF & OAD) of experiments: 1D_ocean_ice_column, |
245 |
|
global_ocean.90x40x15, tutorial_global_oce_biogeo and |
246 |
|
tutorial_tracer_adjsens (+ TLM output). |
247 |
|
o tools/OAD_support and (verification/*/) code_oad: |
248 |
|
- OAD_support/cb2mGetModules.csh: add PACKAGES_CONFIG.h in header file to |
249 |
|
module conversion ; remove unneeded CPP_EEOPTIONS.h. |
250 |
|
- code_oad/CPP_OPTIONS.h: remove PACKAGES_CONFIG.h and use a more standard |
251 |
|
version (closer to model/inc/CPP_OPTIONS.h). |
252 |
|
o model/src: |
253 |
|
- remove parameter "useOldFreezing" from PARAMS.h and push it to the |
254 |
|
retired list of parameters (routine FREEZE has been replace by surface |
255 |
|
freezing (10.yrs ago) and by pkg/frazil (interior freezing). |
256 |
|
o pkg/gmredi: |
257 |
|
- add option (GM_CALC_TRANSP_FROM_VEL) to compute transport directly from |
258 |
|
velocity (same scheme but affects machine truncation) for GM_AdvForm. |
259 |
|
- update output of FWD experiments: front_relax.bvp, |
260 |
|
global_ocean.90x40x15.dwnslp, global_ocean.cs32x15 and ideal_2D_oce. |
261 |
|
|
262 |
|
checkpoint64q (2013/11/17) |
263 |
|
o verification: |
264 |
|
- generate new output on baudelaire (gfortran, -ieee) for OpenAD experiments |
265 |
|
tutorial_global_oce_biogeo and global_ocean.90x40x15. |
266 |
|
- generate new output (growth & melt) for seaice_itd experiment after |
267 |
|
updating the input pickup_seaice files (previously wrong). |
268 |
|
o pkg/cost: |
269 |
|
- define a "final cost function" for each tile, and use GLOBAL_SUM_TILE_RL |
270 |
|
(instead of _GLOBAL_SUM_RL) to get the final cost from all procs & threads: |
271 |
|
o this fixes global-sum value if multi-threads (since GLOBAL_SUM_RL |
272 |
|
cannot be applied to var in common block). |
273 |
|
o allows to get results independent of tile-per-proc setting (if using |
274 |
|
slower GLOBAL_SUM_SEND_RECV option). |
275 |
|
- update accordingly: seaice_cost_final.F, shelfice_cost_final.F, |
276 |
|
thsice_cost_final.F and ecco_cost_final.F (this one affects lab_sea |
277 |
|
forward gradients: update output). |
278 |
|
- update */code_oad/externalDummies.F by adding dummy GLOBAL_SUM_TILE_RL |
279 |
|
S/R and, for most exp., also comment out GLOBAL_SUM_R8. |
280 |
|
o pkg/mom_common: |
281 |
|
- move to pkg/mom_common and model/src (previously in tutorial_deep_convection |
282 |
|
code) 2nd version of isotropic 3-D Smagorinsky code interface: strain and |
283 |
|
viscosity are locally declared in dynmics.F and pass as argument to CALC_GW; |
284 |
|
ensure that all field value that are used are set. |
285 |
|
o tutorial_deep_convection (smag3d): |
286 |
|
- add missing scaling in mom_calc_smag_3d.F; |
287 |
|
- set smag3D_coeff in input.smag3d such that results do not change. |
288 |
|
o pkg/dic: |
289 |
|
- change dic_cost.F to compute cost on each tile first and then apply |
290 |
|
GLOBAL_SUM_TILE_RL: this affects forward gradient of AD experiments |
291 |
|
tutorial_dic_adjoffline & tutorial_global_oce_biogeo; update output. |
292 |
|
- remove kLev argument and use GLOBAL_SUM_TILE_RL in tracer_meanarea. |
293 |
|
o eesupp/src & pkg/mdsio: |
294 |
|
- remove gather/scatter_vector.F (from eesupp) and mdsio_read/writevector.F |
295 |
|
(from pkg/mdsio) since they are no longer used for tape IO. |
296 |
|
- move simple C subroutine "setdir.c" from pkg/compon_communic to eesupp/src |
297 |
|
(+ keep a copy in pkg/atm_ocn_coupler). |
298 |
|
o verification/isomip: |
299 |
|
- split domain in 8 squared tiles (instead of just 2) for FWD, AD & OAD tests. |
300 |
|
o tools/build_options: |
301 |
|
- optfile linux_amd64_ifort11, fast (no ieee) case: |
302 |
|
to get a working restart for all experiments, add "-fp-model source" |
303 |
|
to FOPTIM (also remove "-opt-streaming-stores auto" <- this is the default). |
304 |
|
|
305 |
|
checkpoint64p (2013/10/20) |
306 |
|
o pkg/autodiff: |
307 |
|
- adread_adwrite.F: when type and length do not match ALLOW_AUTODIFF_WHTAPEIO |
308 |
|
criteria, return to simple (default) tape IO format. |
309 |
|
o pkg/mdsio (+ eesupp/src): |
310 |
|
- rewrite/simplify tape-IO S/R (new S/R MDS_READ/WRITE_TAPE replace |
311 |
|
previous MDSREAD/WRITEVECTOR) with 2 array argument from each type (R4/R8); |
312 |
|
- fix globalFile and singleCpuIO options using simpler global mapping. |
313 |
|
- new pairs of scatter/gather vector S/R (one for each type, generated from |
314 |
|
template) corresponding to simpler global mapping. |
315 |
|
- adread_write.F: switch to new S/R (but leave old calls commented) and write |
316 |
|
to globalFile when parameter globalFiles is set to True. |
317 |
|
- switch on useSingleCpuIO in AD experiments: global_ocean.90x40x15 & isomip. |
318 |
|
o pkg/autodiff: |
319 |
|
- adread_adwrite.F: add a hack for RS arrays (when RS=real*4); |
320 |
|
with ALLOW_AUTODIFF_WHTAPEIO defined, since corresponding (real*4) is |
321 |
|
missing, just add a STOP if array type do not match. |
322 |
|
o pkg/exf: |
323 |
|
- to allow to use seaice-fraction from pkg/exf in other pkgs than pkg/seaice: |
324 |
|
rename CPP option EXF_ALLOW_SEAICE_RELAX to EXF_SEAICE_FRACTION |
325 |
|
and rename array obsSIce to exf_iceFraction. |
326 |
|
o tutorial_deep_convection: |
327 |
|
- add 1rst version of isotropic 3-D Smagorinsky code (from Louis-Philippe), |
328 |
|
for now all in this exp. code dir. |
329 |
|
- add secondary test using Smag-3D viscosity (keep very low backgroud visc for |
330 |
|
testing) and flux-limter advection scheme for Temp. (no explicit diffusion). |
331 |
|
o eesupp/src: |
332 |
|
- added SINGLE_DISK_IO option because reading of parameter files on |
333 |
|
very large number of processors did not work with existing set-up |
334 |
|
|
335 |
|
checkpoint64o (2013/09/25) |
336 |
|
o pkg/atm_phys & atm_compon_interf: |
337 |
|
- allows for coupling of gray-atmosphere (atm_phys) with ocean. |
338 |
|
o tools/build_options: |
339 |
|
- switch from "-fPIC" to "-mcmodel=medium" in optfiles: linux_amd64_gfortran |
340 |
|
& linux_amd64_ifort11 and in linux_amd64_g77 & linux_amd64_open64 also |
341 |
|
remove CPP setting (was identical to genmake2 default). |
342 |
|
o pkg/gmredi & model/src: Some updating and work done on the residual model. |
343 |
|
- created new file model/src/calc_eddy_stress.F to calculate the eddy stress. |
344 |
|
- fixed up the calculation of the eddy stress and how it is added to the |
345 |
|
external forcing via taueddy_external_forcing.F |
346 |
|
- at the moment, it is very experimental and only works with the variable eddy |
347 |
|
diffusivity calculated in gmredi_k3d.F |
348 |
|
o pkg/seaice/seaice_check.F: add a check to catch the case of specifying |
349 |
|
lw/swfluxfile instead of lw/swdownfile in data.exf together with pkg/seaice |
350 |
|
o testreport (& tools/do_tst_2+2): |
351 |
|
- for MPI test, set default COMMAND to 'mpirun -v -np TR_NPROC ./{executable}' |
352 |
|
o tools/build_options: linux_amd64_gfortran & linux_amd64_ifort11: |
353 |
|
- remove CPP='cpp -traditional -P' (this is genmake2 default) |
354 |
|
- add switch (for big setups) to use 'medium' memory-model (but leave it |
355 |
|
commented out for now). Note: needed with FC 19 to compile big setups. |
356 |
|
o pkg/atm_compon_interf: |
357 |
|
- regroup per field origin (model & pkgs) the coupling storage routines |
358 |
|
(which accumalate in time each coupling field) |
359 |
|
- move bi,bj loops inside atm_store_my_data.F and store also wind-stress; |
360 |
|
update accordingly + simplify aim_do_physics.F |
361 |
|
|
362 |
|
checkpoint64n (2013/08/26) |
363 |
|
o pkg/bbl: |
364 |
|
- update formulation to reduce dispersion of tracer properties in bbl |
365 |
|
- replaced horizontal and vertical transport parameters with velocities |
366 |
|
- changes results for verification/global_with_exf.yearly |
367 |
|
o verification/halfpipe_streamice: |
368 |
|
- change to matrix construction; update both Fwd & AD output. |
369 |
|
o verification/tutorial_tracer_adjsens: |
370 |
|
- OpenAD test: switch to vector-invariant momentum since fluxform with |
371 |
|
rStar causes problems with OpenAD; update output. |
372 |
|
o tools: |
373 |
|
- genmake2: define a common prefix for all temp-file names ; move them |
374 |
|
to local /tmp disk (but would be easy to move them back); |
375 |
|
- xmakedepend: apply the same switch for temp-files. |
376 |
|
o pkg/offline: |
377 |
|
- changes for use with rStar (NLFS): assume that we continue to provide |
378 |
|
UVELMASS/hFacW_ini & VVELMASS/hFacS_ini (hFacWi,S_ini as written in grid |
379 |
|
output files) and apply r* scaling at each time-step (function of the time |
380 |
|
varying Eta field); use normal pickup files (needed for restart with NLFS). |
381 |
|
o adjoint with OpenAD: |
382 |
|
- move OpenAD-specific files from verification/OpenAD/code_oad_all to a new |
383 |
|
package openad. This package has to be compiled for all runs with OpenAD |
384 |
|
instead of specifying code_oad_all as a modification directory. |
385 |
|
- link the fortran templates from tools/OAD_support to the build directory |
386 |
|
for preprocessing to avoid conflicts between different setups compiled |
387 |
|
simultaneously and simplify cleanup. |
388 |
|
o pkg/exf: |
389 |
|
- in exf_getforcing.F: comment out most of the EXCH calls (fields used by |
390 |
|
main model or other pkgs are exchanged in EXF_MAPFIELDS). |
391 |
|
o model/src: |
392 |
|
- do_stagger_fields_exchanges.F: skip EXCH calls when using pkg/offline |
393 |
|
(similar to do_fields_blocking_exchanges.F). |
394 |
|
o tools/genmake2: |
395 |
|
- remove TAF output src code just before calling staf (when not doing a fresh |
396 |
|
built, will stop if things go wrong with staf). |
397 |
|
- fix target "adobj" (left from TAF version-2 transition) |
398 |
|
o pkg/diagnostics: |
399 |
|
- add a parameter to track the status of pkg/diagnostics activation; |
400 |
|
this replace/extend the use of logical param "settingDiags" (to check |
401 |
|
when adding diag to the list) to also check any DIAGNOSTICS_[]FILL* call. |
402 |
|
New S/R to print error message and stop when pkgStatus is not right. |
403 |
|
- to try: add a warning when "data.diagnostics" exist but useDiagnostics=F. |
404 |
|
|
405 |
|
checkpoint64m (2013/08/13) |
406 |
|
o model/inc: |
407 |
|
- move FCORI_MACROS.h from PARAMS(_MACROS).h to GRID_MACROS.h (left from |
408 |
|
8 yrs ago modif when Coriolis arrays were moved from PARAMS.h to GRID.h) |
409 |
|
o pkg/kpp & aim_v23: |
410 |
|
- only call DIAGNOSTICS_FILL when useDiagnostics=TRUE. |
411 |
|
o pkg/seaice: |
412 |
|
- restore (last time on 2011/12/24) ability to compile pkg/seaice with |
413 |
|
undefined pkg/exf ALLOW_ATM_TEMP or ALLOW_RUNOFF CPP-options. |
414 |
|
- only call DIAGNOSTICS_FILL when useDiagnostics=TRUE. |
415 |
|
o eesupp/src: |
416 |
|
- fix check for overlap-size argument (myOLn.GT.MAX_OLY_EXCH) |
417 |
|
in exch1_rx[_ad].template (thanks to Francois Lefeuvre report). |
418 |
|
o switch to TAF version-2: |
419 |
|
- add flow directives to "freeze" naming convention for ad-routines that |
420 |
|
are used in I/O routines of adjoint state and associated common blocks |
421 |
|
that are used in adcommon.h (backward compatible with version-1) |
422 |
|
- update all ad-optfiles (in tools/adjoint_options + few local to some |
423 |
|
verification exp) to switch to latest TAF version (currently 2.5.5); |
424 |
|
merge "*_mpi" adoptfiles into the corresponding non-mpi (but commented |
425 |
|
out except for diva). |
426 |
|
- the major change with TAF version-2 is that both the differentiated |
427 |
|
routines and the forward routines (new) are returned as part of the TAF |
428 |
|
output source code. Update genmake2 accordingly. |
429 |
|
- new output for AD experiment tutorial_global_oce_biogeo (better AD gradient |
430 |
|
with version-2 when compared to TLM or FWD gradient); other experiments |
431 |
|
output show minor changes (machine truncation level); update the few AD & |
432 |
|
TLM output with 12 matching digits only (some prior to version-2 switch). |
433 |
|
|
434 |
|
checkpoint64l (2013/08/05) |
435 |
|
o model/src: |
436 |
|
- in dynamics.F, skip the call to CALC_VISCOSITY if momViscosity=F |
437 |
|
- main_do_loop.F: no longer includes additional (AUTODIFF) header files |
438 |
|
when using TAF but only if using OpenAD. |
439 |
|
o pkg/mom_common+fluxform+vecinv: |
440 |
|
- always set horiz. viscosity arrays to background value before calling |
441 |
|
MOM_CALC_VISC (in MOM_FLUXFORM & MOM_VECINV) and call S/R MOM_CALC_VISC |
442 |
|
only when using variable horiz. viscosity (useVariableVisc=T); |
443 |
|
- simplify mom_vecinv.F (only 1 block for momViscosity). |
444 |
|
o pkg/mom_common: variable horiz. viscosity in NH code |
445 |
|
- move horiz-viscosity 3-D arrays viscAh_W & viscA4_W (used in calc_gw.F) |
446 |
|
from model/inc/NH_VARS.h to pkg/mom_common/MOM_VISC.h |
447 |
|
- store in common block (in MOM_VISC.h) logical parameters: useHarmonicVisc, |
448 |
|
useBiharmonicVisc & useVariableVisc. |
449 |
|
- fix old bug (already in 1rst implementation of variable horizontal viscosity |
450 |
|
in calc_gw.F, version 1.27, 2006/06/20): |
451 |
|
horizontal bi-harmonic viscosity in gW was missing when wiscA4W=0 |
452 |
|
even if variable bi-harmonic viscosity (e.g., viscA4Grid) was non-zero. |
453 |
|
- change background horiz viscosity in vertical momentum (gW) to always be |
454 |
|
viscAhW,viscA4W (instead of switching to viscAhD, viscA4D when using |
455 |
|
any type of variable viscosity, e.g., viscAh/4Grid) |
456 |
|
- change default value of viscAhW,viscA4W to viscAhD,viscA4D (instead of |
457 |
|
viscAh,viscA4) which default to viscAh,viscA4 : this avoid missing |
458 |
|
horiz. viscosity in W eq when just setting viscAhD/Z,viscA4D/Z (since |
459 |
|
default viscAh,viscA4 is zero). |
460 |
|
o model/src: |
461 |
|
- extend length of drC & recip_drC from Nr to Nr+1. |
462 |
|
o Divided Adjoint (DIVA) with MPI: |
463 |
|
- genmake2: do not create local ./mpi_headers dir when no file to copy into. |
464 |
|
- remove option ALLOW_DIVIDED_ADJOINT_MPI (replaced by ALLOW_DIVIDED_ADJOINT |
465 |
|
and ALLOW_USE_MPI) from model/src code and from ECCO_CPPOPTIONS.h. |
466 |
|
|
467 |
|
checkpoint64k (2013/07/23) |
468 |
|
o tools/OAD_support: |
469 |
|
- avoid the need for file "oadtempflile" in insertTemplateDir.bash |
470 |
|
and remove it from genmake2. |
471 |
|
o tools/build_options: |
472 |
|
- remove MPI_HEADER_FILES_INC setting (no longer used) and comment out |
473 |
|
MPI_HEADER_FILES list (let genmake2 find the missing headers) |
474 |
|
o verification/halfpipe_streamice: |
475 |
|
- change to driving stress formulation; update both Fwd & AD output. |
476 |
|
o tools/genmake2 and Divided Adjoint with MPI: |
477 |
|
- remove default setting of MPIINCLUDEDIR from $MPIHOME (always been broken); |
478 |
|
- only create local ./mpi_headers dir if using MPI and MPIINCLUDEDIR is set; |
479 |
|
- add new variable (LOCAL_MPI_HEADERS, replace MPI_HEADER_FILES_INC) in |
480 |
|
Makefile, which is set by genmake2, and check which mpi-headers are needed. |
481 |
|
Note: need to update adjoint_options/adjoint_diva_mpi accordingly. |
482 |
|
- update target "CLEAN" (to also remove ./mpi_headers/ dir). |
483 |
|
o testreport: |
484 |
|
- changes for Divided Adjoint Run: when file "run_ADM_DIVA" is present, |
485 |
|
perform additional runs (number of additional runs is "add_DIVA_runs" taken |
486 |
|
from file run_ADM_DIVA ; should match "nchklev_3" in file "code_ad/tamc.h"). |
487 |
|
o verification/lab_sea (AD test): |
488 |
|
- change to test Divided Adjoint Run in this set-up (both standard AD test |
489 |
|
and 2 secondary AD test: noseaice + noseaicedyn); drop the evp AD test. |
490 |
|
o pkg atm_ & ocn_compon_interf: |
491 |
|
- remove cpl_earlyExpImpCall=F option (was mainly a hack added for the old |
492 |
|
staggerTimeStep implementation) and disable (retired) corresponding |
493 |
|
parameter. |
494 |
|
o pkg/offline: |
495 |
|
- comment out unused field-array: ICEM, ConvectCount, hflx[01], icem[01]; |
496 |
|
- add S/R OFFLINE_CHECK to print offline parameter summary |
497 |
|
and stop if loading a file that is not used; |
498 |
|
- enable to calculate GMRedi tensor, KPP mixing and convective index |
499 |
|
when the corresponding file(s) is/are not specified (but pkg is used). |
500 |
|
- comment out resetting of monitorFreq (to endTime) since it still useful |
501 |
|
for monitoring CFL numbers and checking offline fields. |
502 |
|
o OpenAD: |
503 |
|
- do not define OAD_DEBUG (in tools/adjoint_options/adjoint_oad) to get |
504 |
|
smaller standard output) and generate new (smaller) output (on baudelaire |
505 |
|
using gfortran with -ieee) for exp. tutorial_tracer_adjsens |
506 |
|
o model/src: |
507 |
|
- call EXTERNAL_FORCING_SURF outside bi,bj loops (in do_oceanic_phys.F), |
508 |
|
(where external_forcing_adjust was called) and change list of arguments; |
509 |
|
- merge external_forcing_adjust.F into external_forcing_surf.F |
510 |
|
- put surface relaxation of SST & SSS in new S/R (forcing_surf_relax.F) |
511 |
|
which also contains balancing surface relaxation (ALLOW_BALANCE_RELAX, |
512 |
|
previously in file "balance_relax.F", now removed); remove corresponding |
513 |
|
arrays in FFIELDS.h. |
514 |
|
- EXTERNAL_FORCING_SURF is now called when using pkg/offline; implement |
515 |
|
a hack for getting back surfaceForcingS (loaded from file) when using |
516 |
|
ALLOW_OLD_VIRTUALFLUX (pkg/dic, in DIC_OPTIONS.h) in offline set-up. |
517 |
|
- update output of AD test experiment global_ocean.cs32x15.seaice_dynmix |
518 |
|
(was getting only 11 digits for AD-grad, due to different truncation |
519 |
|
error in AD code). |
520 |
|
|
521 |
|
checkpoint64j (2013/07/04) |
522 |
|
o pkg/offline: |
523 |
|
- to enable the use of other features with pkg offline (e.g., obcs), |
524 |
|
also call S/R DO_OCEANIC_PHYS in offline run - more modifs to come. |
525 |
|
- comment out "allowFreezing" (now active) in 2 offline testing exp. |
526 |
|
o pkg/exf ALLOW_RUNOFTEMP |
527 |
|
- fix sign and make compatible with temp_EvPrRn .NE. UNSET_RL |
528 |
|
- ahdded RUNOFTEMP test to verification/global_ocean.cs32x15/input.seaice |
529 |
|
- changes verification/global_ocean.cs32x15/results/output.seaice.txt |
530 |
|
o pkg/atm_phys: |
531 |
|
- allows to add some damping on uVel,vVel (strength only function of k). |
532 |
|
o verification, ad-tests: |
533 |
|
- reduce length of the simulation for AD test: global_ocean.cs32x15.seaice, |
534 |
|
global_ocean_ebm and offline_exf_seaice.thsice. |
535 |
|
o verification/halfpipe_streamice: |
536 |
|
- found a bug in s/r pkg/streamice/streamice_advect_thickness which caused |
537 |
|
flux input boundary conditions to be ignored; a fix for this bug changed |
538 |
|
verification results for forward test. |
539 |
|
- add adjoint test. |
540 |
|
o pkg/ptracers: |
541 |
|
- allow to restart without SOM pickup (resetting SOM to zero). |
542 |
|
o pkg/gmredi: |
543 |
|
- New parameterisation for the calculation of K and (GM_PsiX,GM_PsiY) added. |
544 |
|
- It uses mixing length theory and suppression by steering level effects to |
545 |
|
calculate a diffusivity used in the Redi tensor (see Bates et al., submitted |
546 |
|
to JPO, for more details). |
547 |
|
- It also uses the diffusivity to calculate an eddy induced streamfunction |
548 |
|
based on a PV closure (rather than a buoyancy closure as in GM). |
549 |
|
- New files added to pkg/gmredi: |
550 |
|
gmredi_k3d.F calculates the diffusivity for the Redi tensor and the eddy |
551 |
|
induced overturning streamfunction (called from gmredi_calc_tensor) |
552 |
|
gmredi_calc_eigs.F calculates the eigenvalues and eigenvectors required |
553 |
|
for use in gmredi_k3d |
554 |
|
gmredi_calc_urms.F calculates the the rms eddy velocity used to calculate |
555 |
|
the eddy diffusivity |
556 |
|
|
557 |
|
checkpoint64i (2013/06/18) |
558 |
|
o pkg/cheapaml: |
559 |
|
- take src files from MITgcm_contrib/verification_other/offline_cheapaml/code |
560 |
|
that enable the use of seaice (pkg/thsice thermo & pkg/seaice dynamics) |
561 |
|
with pkg/cheapaml. |
562 |
|
o utils/python: add subpackage for cubed sphere function, first example is |
563 |
|
simple cs.pcol to plot 2D fields on a map |
564 |
|
o pkg/streamice: |
565 |
|
- This is a new package in MITgcm, which solves dynamic equations for ice |
566 |
|
sheets and ice streams |
567 |
|
- At the moment it is independent of atmosphere/ocean dynamics, or any |
568 |
|
other physical packages in MITgcm, even ShelfIce (although it is anticipat- |
569 |
|
ed that this will change) |
570 |
|
- There is a new verification exercise that tests it, halfpipe_streamice, |
571 |
|
evolves a 40x80 km ice stream/ice shelf (at coarse resolution) in a |
572 |
|
rectangular embayment |
573 |
|
- halfpipe_streamice is forward-only for now, will have TAF test soon |
574 |
|
- for questions, email dgoldber@mit.edu |
575 |
|
o pkg/thsice: |
576 |
|
- fix filling of snow-precip diagnostic (SIsnwPrc) (left from the removing |
577 |
|
of snowPrc from common bloc, on May 2nd, thsice_step_fwd.F revision 1.40); |
578 |
|
- remove diagnostics 'SI_FrcFx' ( now identical to 'SI_Fract' with new |
579 |
|
call sequence: ice-Thermo(thsice),ice-Dyn,ice-Advect ); |
580 |
|
- allow precip from pkg/cheapaml to make snow over seaice. |
581 |
|
o pkg/cfc: |
582 |
|
- move in separated header file (CFC_ATMOS.h) time-serie arrays of Atmos CFC |
583 |
|
- remove atmos CFC 2-D arrays from common bloc (now local variables) |
584 |
|
- change some hard-coded constant to run time parameter for reading and |
585 |
|
and interpolating atmospheric CFC ; keep same default as previously. |
586 |
|
- more flexible reading of Atmos CFC (number of records no longer hard-coded) |
587 |
|
- put arguments in standard order: myTime, myIter, myThid |
588 |
|
- use standard S/R GET_PERIODIC_INTERVAL for time interpolation of |
589 |
|
atmospheric CFC ; fix for the case myIter < PTRACERS_iter0. |
590 |
|
- fix calculation of surf tendencys for partial-cell and/or Non-Lin Free-Surf |
591 |
|
- new routine to print summary of CFC params and check for consistency. |
592 |
|
o pkg/seaice: add uice/vice to the parameter list of s/r seaice_advdiff, |
593 |
|
similar to thsice_advdiff. |
594 |
|
Note that for the B-grid case the routine parameters uc/vc are overwritten. |
595 |
|
o pkg/cfc: |
596 |
|
- change time interpolation for atmospheric CFC-11 (now same as for CFC-12); |
597 |
|
update output (CFC-11) of experiment cfc_example and tutorial_cfc_offline. |
598 |
|
- fix interpolation of atmphspheric CFC between Sorthern and Northern |
599 |
|
hemisphere value. |
600 |
|
o pkg/seaice: |
601 |
|
- allow to use seaice dynamics without pkg/exf (e.g., using pkg/cheapaml) |
602 |
|
o pkg/seaice: add Adams-Bashforth2 time discretization for ice dynamics; |
603 |
|
so far only for JFNK-solver, turn on with SEAICEuseAB2 = .TRUE. |
604 |
|
- requires an additional time level that is stored in the pickup |
605 |
|
- you can start with AB2 from a pickup without this time level with |
606 |
|
pickupStrictlyMatch = .false. |
607 |
|
|
608 |
|
checkpoint64h (2013/05/26) |
609 |
|
o pkg/cheapaml: |
610 |
|
- replace one ()**.5 with SQRT + use temp var "cdu = tau/Du" (coare3_flux); |
611 |
|
affect machine truncation (but exp cheapAML_box still pass with 13 digits). |
612 |
|
- consistent treatment of uWind,vWind location: assume everywhere in |
613 |
|
pkg/cheapaml that they are on C-grid (@ uVel,vVel location) |
614 |
|
(Note: was already the case for Tair,Qair advection); |
615 |
|
add option (INCONSISTENT_WIND_LOCATION) to recover old results. |
616 |
|
- compute diabatic forcing only in the interior (excluding overlap regions) |
617 |
|
- fill in array "Qsw" (for short-wave heating); |
618 |
|
- add diagnostic for precip ; fill-in diagnostics for cheapAML state vars |
619 |
|
before any update (consistent with MITgcm state var diagnostics); |
620 |
|
- cheapaml_fields_load.F & cheapaml_init_varia.F : only fill outer edges if |
621 |
|
non periodic ; + adjusted for uWind,vWind (C-grid). |
622 |
|
o pkg/seaice: |
623 |
|
- remove dependence of pkg/seaice versus pkg/exf (file: pkg/pkg_depend) and |
624 |
|
add explicitly pkg/exf in experiments that currently use pkg/seaice. |
625 |
|
- allows to compile pkg/seaice without pkg/exf. |
626 |
|
o tools/OAD_support: |
627 |
|
- use a local copy (ourRWCPinBd) to ensure index ourRWCP stays within bounds |
628 |
|
of array "ourStepOf" in function rvNextAction (revolve.F90). |
629 |
|
o pkg/aim_compon_interf renamed to pkg/atm_compon_interf |
630 |
|
- change pkg name (to be used with other atmospheric physics pkg) |
631 |
|
but by-pass CVS when making the new pkg so that we keep the CVS history. |
632 |
|
o pkg/offline: |
633 |
|
- call OFFLINE_FIELDS_LOAD from pkg/offline/offline_init_varia.F |
634 |
|
(previously called from pkg/dic_surfforcing_init.F) |
635 |
|
o model/src: |
636 |
|
- re-order sequence of calls within packages_init_variables.F, using |
637 |
|
standard order, except for: |
638 |
|
DIAGNOSTICS_INIT_VARIA and OFFLINE_INIT_VARIA (called @ the top), |
639 |
|
CTRL_MAP_INI and OBCS_INIT_VARIABLES (called @ the bottom) |
640 |
|
o new pkg: atm_phys |
641 |
|
- add entry point and source code (previously in contrib |
642 |
|
verification_other/atm_gray/code_gray/) for new pkg "atm_phys" |
643 |
|
(atmospheric physics pkg from P. O'Gorman and T. Schneider, JCl, 2008). |
644 |
|
- re-order sequence of calls within packages_readparms.F, |
645 |
|
packages_init_fixed.F and packages_write_pickup.F |
646 |
|
(but skip packages_init_variables.F because of TAF issues). |
647 |
|
- update contrib/*/atm_gray/ experiment. |
648 |
|
o pkg/seaice (ITD code): |
649 |
|
- simplify and fix the writing of pickup-files for ITD case |
650 |
|
o pkg/seaice (ITD code): |
651 |
|
- introduce floe size dependent lateral melt for ITD case; |
652 |
|
- cleaning (avoid division by zero, change to f77 syntax, remove tabs) |
653 |
|
- update seaice_itd experiment main output. |
654 |
|
o pkg/thsice: |
655 |
|
- remove snowPrc from common block THSICE_FLUX, in THSICE_VARS.h and |
656 |
|
declared it locally (without bi,bj) in thsice_main.F & aim_do_physics.F; |
657 |
|
changed accordingly pkg/atm2d. |
658 |
|
|
659 |
|
checkpoint64g (2013/05/01) |
660 |
|
o pkg/exf ALLOW_RUNOFTEMP |
661 |
|
- if defined, river and glacier runoff temperature can be read-in from |
662 |
|
runoftempfile; runoftempfile needs to have same format as runofffile |
663 |
|
o pkg/thsice (& pkg/bulk_force): |
664 |
|
- In case Energy-Reference-Level (ERL) is used (temp_EvPrRn=0), account |
665 |
|
for energy content of Precip + RunOff & Evap (like with pkg/exf). |
666 |
|
- change computation domain to always be the interior (without overlap). |
667 |
|
- fix bug (wrong overlap) when using EXF and stressReduction > 0. |
668 |
|
o verification/tutorial_global_oce_biogeo: |
669 |
|
- add preliminary OpenAD setup (still has problems) |
670 |
|
o pkg/seaice: |
671 |
|
- turn some parameters for choosing the convergence criterion of |
672 |
|
the inexact Newton method (JFNK) into runtime parameters for convenience |
673 |
|
- clean up seaice_calc_viscosities.F: remove/retire two options for |
674 |
|
SEAICetaZmethod (1,2), introduce area weighting for method 3; this changes |
675 |
|
the results of lab_sea/input because a division has been replaced by |
676 |
|
a multiplication with the reciprocal (sumNorm) |
677 |
|
- modify offline_exf_seaice/input.dyn_jfnk/data.seaice to improve |
678 |
|
convergence of solver (changes results, of course), and to test some |
679 |
|
new features |
680 |
|
o model/src: |
681 |
|
- remove unused (since Aug 2006) S/R SET_WRITE_GLOBAL_PICKUP and its call. |
682 |
|
- remove unused forcing field "dQdT" and associated parameter "dQdTFile". |
683 |
|
- move forcing adjustment (balancing surface forcing) in specific S/R |
684 |
|
where might also be applied exchanges (if needed) to forcing arrays. |
685 |
|
o pkg/shelfice: |
686 |
|
- allow to specify the Ice-Shelf mass per unit area (instead of |
687 |
|
shelficeLoadAnomaly) and do the conversion from one to the other |
688 |
|
- move loading from file of shelficeLoadAnomaly from SHELFICE_INIT_VARIA |
689 |
|
to SHELFICE_INIT_FIXED: (a) avoid some TAF recompution issues and |
690 |
|
(b) will be loaded in time (before calling INI_PRESSURE) in case it is |
691 |
|
needed in phi0surf for initial pressure calculation when useDynP_inEos_Zc |
692 |
|
- update isomip experiment forward output (get machine truncation error |
693 |
|
from conversion shelficeLoadAnomaly -> shelficeMass -> shelficeLoadAnomaly) |
694 |
|
o verification/offline_exf_seaice: |
695 |
|
revise data.seaice in input.thermo and input_ad and update results accordingly |
696 |
|
HO = 0.2, SEAICE_areaLossFormula = 2, |
697 |
|
SEAICE_growMeltByConv = .TRUE., |
698 |
|
SEAICE_doOpenWaterMelt = .TRUE., |
699 |
|
Improve consistency with input.thsice and fix the spurious 500m ice corners |
700 |
|
o verification/global_ocean.cs32x15: |
701 |
|
- set Energy Reference Level to liq. water @ 0 degC: temp_EvPrRn=0., |
702 |
|
in icedyn (thsice+seaice-dyn) test and update output. |
703 |
|
o verification/offline_exf_seaice: |
704 |
|
- adjust list of tested variables (with testreport) and update |
705 |
|
standard test output with better slection of monitored fields. |
706 |
|
o pkg/cd_code: |
707 |
|
- swtich off Adams-Bashforth on the 1rst iteration. Update output of |
708 |
|
experiment lab_sea.hb87 |
709 |
|
o tools/genmake2: |
710 |
|
- change default makedepend from the system default to tools/xmakedepend: |
711 |
|
When no makedepend is specified, select tools/xmakedepend it the test pass, |
712 |
|
otherwise select the system default (if exist and pass the test) or |
713 |
|
try to build cyrus-makedepend ; stop if none of the 3 works. |
714 |
|
o pkg/exf & pkg/thsice: |
715 |
|
- In case Energy-Reference-Level (ERL) is used (temp_EvPrRn=0), account |
716 |
|
for energy content of Precip + RunOff & Evap. Assumes: |
717 |
|
1) Rain has same temp as Air. |
718 |
|
2) Snow has no heat capacity (consistent with seaice & thsice pkgs) |
719 |
|
3) Run-Off comes at the temp of surface water (with same Cp) |
720 |
|
4) Evap over ocean is released to the Atmos @ surf-temp (=SST); should be |
721 |
|
put directly into Latent Heat flux & should use water-vapor heat capacity. |
722 |
|
5) Evap over snow/seaice (pkg/thsice) assumes constant Lf+Lv (consistent |
723 |
|
with snow having no Cp) => water vapor is released to Atmos @ 0^oC (=ERL). |
724 |
|
o pkg/seaice: simplify the use of CPP flags in JFNK-related files |
725 |
|
(compile when SEAICE_ALLOW_JFNK is defined) |
726 |
|
o pkg/thsice: |
727 |
|
- fix oceanic flux diagnostics & timeave (left from new sequence of calls |
728 |
|
implementation): move THSICE_AVE call after the advection (called directly |
729 |
|
from thsice_do_advect.F). |
730 |
|
o verification/global_ocean.90x40x15 and OpenAD: |
731 |
|
New experiment for OpenAD is identical to the one in input_ad except that |
732 |
|
multiDimAdvection=.FALSE., |
733 |
|
There is still an issue with this. |
734 |
|
o pkg/thsice: |
735 |
|
- account for ice velocity (ocean relative velocity) in turbulent heat flux |
736 |
|
at the base of the ice; update output of global_ocean.cs32x15 (icedyn) |
737 |
|
and offline_exf_seaice (main test). |
738 |
|
|
739 |
|
checkpoint64f (2013/03/31) |
740 |
|
o verification/OpenAD: |
741 |
|
- new (smaller, without OAD_DEBUG) output_oadm.txt generated using gfortran. |
742 |
|
o verification/isomip, pkg/shelfice and OpenAD: |
743 |
|
- add OpenAD setup to this exp and make shelfice package work with OpenAD |
744 |
|
o verification/tutorial_global_oce_biogeo: |
745 |
|
- update AD and TLM output after turning off ALLOW_FE (in DIC_OPTIONS.h) |
746 |
|
o verification/offline_exf_seaice: |
747 |
|
- replace adjoint experiment (now similar to fwd input.thermo/ setup). |
748 |
|
o verification/tutorial_tracer_adjsens, pkg/ptracers and OpenAD: |
749 |
|
- add OpenAD setup to this exp and make ptracers package work with OpenAD |
750 |
|
o pkg/seaice/seaice_evp.F: |
751 |
|
mask the asymmetric contribution of the ice-ocean stress (when |
752 |
|
the turningAngle is non-zero) over open water to avoid stripes |
753 |
|
in the EVP-solutions after many EVP-substeps. This does not change |
754 |
|
the verification experiment (because turningAngle=0 in that experiment), |
755 |
|
but will affect other EVP solutions with turningAngle.ne.0 |
756 |
|
o verification, AD & TLM output: |
757 |
|
- new TAF version 2.3.10 (previously 2.3.8) add more parenthesis in multiple |
758 |
|
additions and multiplications which affect results at machine truncation |
759 |
|
level. Update few AD output (1D_ocean_ice_column, bottom_ctrl_5x5, |
760 |
|
lab_sea.noseaicedyn & offline_exf_seaice) and TLM output |
761 |
|
(1D_ocean_ice_column & tutorial_tracer_adjsens.som81) which had only 12 |
762 |
|
digits of matching. |
763 |
|
o pkg/seaice: |
764 |
|
modify lsr-algorithm so that it vectorizes AND converges by using a |
765 |
|
"zebra" method: split vector loop into two with step size 2; this |
766 |
|
solves a general convergence problem for the JFNK solver on a vector |
767 |
|
computer. It has the potential to even improve convergence for |
768 |
|
non-vector machines, but it does change the results so it is turned |
769 |
|
off by default. To turn on define CPP-flags SEAICE_VECTORIZE_LSR and |
770 |
|
SEAICE_VECTORIZE_LSR_ZEBRA in SEAICE_OPTIONS.h |
771 |
|
|
772 |
|
checkpoint64e (2013/03/05) |
773 |
|
o pkg/ecco and several verification experiments: |
774 |
|
Remove special versions of the_model_main.F, the_main_loop.F, forward_step.F |
775 |
|
from ecco package, and revert to unified routine in model/src/ |
776 |
|
Adjust verification experiments accordingly, especially gloal_oce_llc90 |
777 |
|
Should conclude long-standing work by Gael to reconsile the_main_loop with |
778 |
|
ECCO and will enable OpenAD's revolve loop in ECCO setup. |
779 |
|
o pkg/generic_advdiff: |
780 |
|
- implement compressible flow method for multi-dim advection (similar to |
781 |
|
gad_som_advect.F); add new option "GAD_MULTIDIM_COMPRESSIBLE" (since |
782 |
|
TAF generates many recomputations) to use it; no yet coded with implicit |
783 |
|
vertical advection. |
784 |
|
- change experiment advect_cs (new output) and advect_xy (same output) |
785 |
|
to test compressible flow multi-dim advection. |
786 |
|
o pkg/generic_advdiff: |
787 |
|
- fix SOM advection for unusual cases (linear Free-Surf in r*, other |
788 |
|
cases where linear Free-Surf is not @ k=1, e.g., useShelfIce) |
789 |
|
o pkg/seaice: |
790 |
|
- fix bug in the no-slip implementation in seaice_calc_strainrates.F, this |
791 |
|
bug affects two verification experiments (lab_sea and lab_sea.hb87), |
792 |
|
recover old (wrong) results by setting noSlipFac = 2. in |
793 |
|
seaice_calc_strainrates.F; |
794 |
|
- add another averaging method for etaZ (etaZmethod=3), a mix of 2 and 0 |
795 |
|
- add runtime parameter SEAICE_JFNKepsilon for that finite difference |
796 |
|
gradient in the Jacobian times vector operation (s/r seaice_jacvec) |
797 |
|
- fix line search in seaice_jfnk.F (s/r seaice_jfnk_update) |
798 |
|
o pkg/seaice: reorganize seaice_lsr.F to be able to reuse more code: |
799 |
|
- new subroutines seaice_lsr_tridiagu/v |
800 |
|
- introduce loop bounds i/jmin/max to be able to use a restricted |
801 |
|
additive Schwarz method, but not used for now. |
802 |
|
- rename SEAICE_CALC_LSR_COEFFS into SEAICE_LSR_CALC_COEFFS |
803 |
|
- use new subroutines seaice_lsr_tridiagu/v in s/r seaice_preconditioner |
804 |
|
o OpenAD support |
805 |
|
Reorganize S/R call for overall time-stepping loop to facilitate |
806 |
|
OpenAD revolve loop replacement |
807 |
|
(new S/R main_do_loop.F) |
808 |
o model/src: |
o model/src: |
809 |
- add 3-D array 3rd dimension to argument list of S/R ADAMS_BASHFORTH2/3; |
- add 3-D array 3rd dimension to argument list of S/R ADAMS_BASHFORTH2/3; |
810 |
- pkg/cheapaml: remove local S/R ADAMS2d and use instead standard S/R |
- pkg/cheapaml: remove local S/R ADAMS2d and use instead standard S/R |